mouse

Organism: 1,154 papers with a page, 570 of them with their authors' code.

Tuesday, 29 September 2026 (1 paper)

[1] doi: [paper, data]

Mesenchymal stem cell-derived extracellular vesicles ameliorate heat stroke-induced hippocampal injury and modulate VIM-AS1-associated miR-34a-5p/Per2 signaling

Journal: Frontiers in immunology

Status: data only, 1 dataset cited

Sunday, 27 September 2026 (1 paper)

[2] doi:10.1002/advs.202524087 [paper, data]

Gm26550 Modulates Learning and Memory by Increasing IGF1 mRNA Expression and Stability in Nrf2^-/- Mice.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Status: data only, 1 dataset cited

Saturday, 26 September 2026 (1 paper)

[3] doi: [paper, data]

Gut microbiota dysbiosis is associated with hippocampal neuronal damage and behavioral alterations in APP/PS1 mice with high-salt diet

Journal: Frontiers in microbiology

Status: data only, 1 dataset cited

Friday, 25 September 2026 (4 papers)

[4] Code ↔ Paper doi:10.1126/sciadv.adz9632 [paper, repository]

Population coding under the scale invariance of high-dimensional noise.

Journal: Science advances

Authors' code: Zenodo 19504768 (CC-BY-4.0), Sai-Sumedh/scaling-population-coding (no license)

Status: code verified, 77 files readable, 6 matches

[5] doi:10.1007/s00401-026-03082-7 [paper, data]

Deletion or immunotherapeutic blockade of FcγRIIb (CD32b) impairs α-Syn propagation in vivo.

Journal: Acta neuropathologica

Status: data only, 1 dataset cited

[6] Code ↔ Paper doi: [paper, repository]

Real-time closed-loop feedback system for mouse mesoscale cortical signal and movement control

Journal: eLife

Authors' code: pankajkgupta/clopy (GPL-3.0)

Status: code verified, 15 files readable, 11 matches

[7] Code ↔ Paper doi:10.7554/elife.110588 [paper, repository]

Opening the black box toward a modular approach to spike sorting.

Journal: eLife

Authors' code: Zenodo 20407862 (CC-BY-4.0), SpikeInterface/sorting_components_benchmark_paper (MIT), SpikeInterface/spikeinterface (MIT)

Status: code verified, 672 files readable, 23 matches

Friday, 18 September 2026 (2 papers)

[8] Code ↔ Paper doi:10.1126/sciadv.adx0731 [paper, repository]

Targeting glial PD-1/PD-L1 restores microglial homeostasis and reduces neuronal hyperactivity in an Alzheimer's disease model.

Journal: Science advances

Authors' code: Zenodo 19411437 (CC-BY-4.0)

Status: code verified, 3 files readable

[9] doi:10.1080/22221751.2026.2728216 [paper, data]

Triacylglycerol metabolism is a novel target to combat West Nile virus infection.

Journal: Emerging microbes & infections

Status: data only, 1 dataset cited

Thursday, 17 September 2026 (1 paper)

[10] Code ↔ Paper doi:10.1371/journal.pone.0356243 [paper, repository]

Functional organization and natural scene responses across mouse visual cortical areas revealed with encoding manifolds.

Journal: PloS one

Authors' code: dyballa/NeuralEncodingManifolds (BSD-2-Clause)

Status: code verified, 28 files readable, 18 matches

Wednesday, 16 September 2026 (2 papers)

[11] Code ↔ Paper doi:10.2147/jir.s633117 [paper, repository]

Single-Nucleus Transcriptomic Mapping Reveals Correlative Microglial Changes Associated with rTMS in the Motor Cortex After Spinal Cord Injury.

Journal: Journal of inflammation research

Authors' code: 10XGenomics/cellranger (MIT)

Status: code verified, 789 files readable, 2 matches

[12] Code ↔ Paper doi:10.1038/s42003-026-10957-8 [paper, repository]

Brain defence by the extracellular matrix protein Cochlin.

Journal: Communications biology

Authors' code: animesh/scripts (GPL-2.0), Raghumoy/Cochlin_manuscript (no license)

Status: code verified, 1,156 files readable, 9 matches

Tuesday, 15 September 2026 (3 papers)

[13] doi:10.1186/s13293-026-00982-x [paper, data]

Sex differences in ferroptosis-related vulnerability to autism-like deficits in the adolescent medial prefrontal cortex following embryonic valproic acid exposure.

Journal: Biology of sex differences

Status: data only, 1 dataset cited

[14] Code ↔ Paper doi:10.7554/elife.109571 [paper, repository]

Rank- and threat-dependent social modulation of innate defensive behaviors.

Journal: eLife

Authors' code: YatangLiLab/Gao-2026-rank-threat-soical-modulation (Apache-2.0)

Status: code verified, 3 files readable

[15] Code ↔ Paper doi:10.7554/elife.108950 [paper, repository]

Comprehensive RNA velocity by modeling the cascade of gene regulation, transcription, and splicing from single-cell RNA sequencing data with TSvelo.

Journal: eLife

Authors' code: lijc0804/TSvelo (MIT), elenasabbioni/bayvel_notebooks (no license)

Status: code verified, 37 files readable, 8 matches

Monday, 14 September 2026 (1 paper)

[16] Code ↔ Paper doi:10.1038/s41467-026-77800-w [paper, repository]

Learning reorganizes dendritic and stabilizes axon initial segment inhibitory synapses in CA1 pyramidal neurons.

Journal: Nature communications

Authors' code: codeocean:9762429 (no license)

Status: code found, not verified yet

Friday, 11 September 2026 (6 papers)

[17] doi:10.1186/s12974-026-03970-5 [paper, data]

Estrogen deprivation exacerbates Alzheimer's disease pathology through neuronal CTSS signaling.

Journal: Journal of neuroinflammation

Status: data only, 1 dataset cited

[18] doi:10.1038/s43587-026-01204-0 [paper, data]

Fibronectin mediates APOE4-driven blood-brain barrier dysfunction in Alzheimer's disease.

Journal: Nature aging

Status: data only, 2 datasets cited

[19] doi:10.1126/sciadv.aeg1157 [paper, data]

A simple, anesthesia-free infusion technique for in vivo metabolic tracing.

Journal: Science advances

Status: data only, 1 dataset cited

[20] Code ↔ Paper doi:10.1126/sciadv.aec4911 [paper, repository]

Dendritic shaft constrictions shape synaptic integration in neurons.

Journal: Science advances

Authors' code: tonykelly00/DSC_model (no license), tonykelly00/DSC_morphology_pipeline (no license)

Status: code verified, 35 files readable, 4 matches

[21] doi:10.1073/pnas.2620112123 [paper, data]

Direct activation of SARM1 by dsDNA is not supported by biochemical and cellular evidence.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Status: data only, 1 dataset cited

[22] doi:10.1080/21505594.2026.2721762 [paper, data]

Identification of a mechanical signaling pathway activating type 1 fimbriae via a ZraSR two-component system in neonatal meningitis-associated <i>Escherichia coli</i>.

Journal: Virulence

Status: data only, 2 datasets cited

Thursday, 10 September 2026 (1 paper)

[23] doi:10.1162/imag.a.1357 [paper]

Biphasic acclimation for simultaneous wide-field fluorescent Ca<sup>2+</sup> imaging and fMRI of awake mice.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

Wednesday, 9 September 2026 (5 papers)

[24] Code ↔ Paper doi:10.1002/advs.77419 [paper, repository]

Early Spatial and Contextual Coding Deficits in Hippocampal CA1 Precede Performance Decline in an Alzheimer's Disease Model.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Authors' code: doi:10.5061/dryad.z34tmpgwr (no license)

Status: dead link

[25] doi:10.1126/sciadv.aeb1237 [paper, data]

Magnetically actuated nanoantennas for wireless glioblastoma therapy.

Journal: Science advances

Status: data only, 1 dataset cited

[26] Code ↔ Paper doi:10.1126/sciadv.adq8840 [paper, repository]

Astrocytes mediate the dopaminergic modulation of tonic GABAergic signaling in substantia nigra.

Journal: Science advances

Authors' code: Zenodo 10855006 (CC-BY-4.0), Zenodo 17296457 (CC-BY-4.0)

Status: code verified, 1 file readable

[27] Code ↔ Paper doi:10.1073/pnas.2614077123 [paper, repository]

Resolving cell lineages and gene functions in the developing mouse gastrointestinal tract using in utero transduction.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: UMarklundLab/Inutero_clonaltracing_E16Gut (MIT)

Status: code verified, 21 files readable, 8 matches

[28] doi:10.1007/s12640-026-00825-y [paper, data]

Atorvastatin Shows Limited Disease-Modifying Effects in an A53T α-Synuclein Mouse Model of Parkinson's Disease.

Journal: Neurotoxicity research

Status: data only, 1 dataset cited

Tuesday, 8 September 2026 (6 papers)

[29] doi:10.1016/j.isci.2026.117476 [paper]

Integrated 3D light sheet and 2D multiplex imaging for deep histological characterization of somatic mouse glioblastoma.

Journal: iScience

Status: code on request

[30] doi:10.1162/imag.a.1340 [paper, data]

Biophysical simulations of fMRI responses using realistic microvascular models: Insights into distinct hemodynamics in humans and mice.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

[31] Code ↔ Paper doi:10.1038/s41588-026-02737-1 [paper, repository]

Human and mouse adrenal glands are characterized by species-specific steroidogenic states and tissue turnover.

Journal: Nature genetics

Authors' code: artem-artemov/adrenal (no license), MaksimovDenis/adrenalglandscatlas (MIT), Zenodo 20258071 (CC-BY-4.0)

Status: code verified, 7 files readable, 8 matches

[32] Code ↔ Paper doi:10.1371/journal.pone.0357448 [paper, repository]

Anatomy-aware, label-informed approach improves image registration for challenging datasets.

Journal: PloS one

Authors' code: raroston/labelImageRegistration_Comparison (no license)

Status: code verified, 8 files readable, 3 matches

[33] Code ↔ Paper doi:10.7554/elife.108021 [paper, repository]

BetaII-spectrin gaps and patches emerge from the patterned assembly of the actin/spectrin membrane skeleton in human motor neuron axons.

Journal: eLife

Authors' code: cibion-conicet/Gollum (GPL-3.0)

Status: code verified, 15 files readable, 1 match

[34] doi:10.7554/elife.106992 [paper, data]

Cortical layer 6b mediates state-dependent changes in brain activity and effects of orexin on waking and sleep.

Journal: eLife

Status: data only, 4 datasets cited

Monday, 7 September 2026 (1 paper)

[35] doi:10.1186/s13062-026-00912-2 [paper, data]

Integrated analysis of single-cell transcriptome identifies a glial-neurovascular signaling trajectory in brain repair after ischemia.

Journal: Biology direct

Status: data only, 1 dataset cited

Saturday, 5 September 2026 (1 paper)

[36] Code ↔ Paper doi:10.1038/s41467-026-77377-4 [paper, repository]

Ternary Neurexin-T178-PTPR complexes represent a pre-synaptic core-module of neuronal synapse organization.

Journal: Nature communications

Authors' code: phys2/belki (GPL-3.0)

Status: code verified, 98 files readable, 3 matches

Friday, 4 September 2026 (4 papers)

[37] Code ↔ Paper doi:10.1038/s41592-026-03211-w [paper, repository]

Spatial isoform sequencing at single-cell resolution reveals cell-type-specific spatial isoform variability in multiple brain cell types.

Journal: Nature methods

Authors' code: dmcable/spacexr (GPL-3.0), noush-joglekar/scisorseqr (MIT), algbio/spl-IsoQuant (GPL-2.0), tilgnerlab/Spl-IsoFind (MIT), tilgnerlab/Spl-IsoFind_reproducibility (MIT)

Status: code verified, 347 files readable, 25 matches

[38] Code ↔ Paper doi:10.1038/s41467-026-72845-3 [paper, repository]

The membrane-to-cortex distance regulates mDia1 activity to control cortical mechanics.

Journal: Nature communications

Authors' code: jvermeil-biophys/CortExplore_PublicVersion (GPL-3.0), mahamidlab/actin_cortex_analysis (GPL-3.0)

Status: code verified, 59 files readable, 4 matches

[39] Code ↔ Paper doi:10.7554/elife.108208 [paper, repository]

Realistic coupling enables flexible macroscopic traveling waves in the mouse cortex.

Journal: eLife

Authors' code: figshare 29410397 (CC-BY-4.0)

Status: code verified, 16 files readable, 1 match

[40] doi:10.3892/ijmm.2026.5973 [paper, data]

Effect of MALT1 inhibition by MI‑2 on the microglial phenotype switch, inflammatory cytokine secretion, neuronal loss and oxidative stress in Alzheimer's disease.

Journal: International journal of molecular medicine

Status: data only, 1 dataset cited

Thursday, 3 September 2026 (4 papers)

[41] doi:10.1016/j.isci.2026.117278 [paper]

Altered striatal long-term potentiation in the eIF4E-TG mouse model of autism spectrum disorder.

Journal: iScience

Status: code on request

[42] doi:10.1002/advs.77547 [paper, data]

Nrsn1-Smarcc1 Coupling Regulates Neural Stem Cell Differentiation and Chronic-phase Recovery After Ischemic Stroke.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Status: data only, 1 dataset cited

[43] Code ↔ Paper doi:10.1073/pnas.2532946123 [paper, repository]

<i>Hex</i>-MASP for mapping the whole-tissue spatial proteome and the intrabrain distribution of monoclonal antibodies.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: JunQu-Lab/MAsP (Apache-2.0)

Status: code verified, 10 files readable, 2 matches

[44] Code ↔ Paper doi:10.7554/elife.109104 [paper, repository]

Complementary vertebrate <i>Wac</i> models exhibit phenotypes relevant to DeSanto-Shinawi Syndrome.

Journal: eLife

Authors' code: nordneurogenomicslab/publications (no license)

Status: code verified, 14 files readable, 3 matches

Wednesday, 2 September 2026 (9 papers)

[45] Code ↔ Paper doi:10.1016/j.isci.2026.117412 [paper, repository]

Transcriptomic landscape of microglia in mouse models of social dysfunction and oxytocin-mediated recovery.

Journal: iScience

Authors' code: MasaTsurutani/Transcriptomic-Landscape-of-Microglia-in-Mouse-Models-of-Social-Dysfunction-and-Oxytocin-Mediated (no license)

Status: empty repository, 1 file readable

[46] Code ↔ Paper doi:10.1038/s41467-026-77168-x [paper, repository]

Cholinergic-dependent dopamine signals in mouse dorsomedial striatum are regulated by frontal but not sensory cortices.

Journal: Nature communications

Authors' code: Zenodo 21651635 (CC-BY-4.0)

Status: code verified, 27 files readable, 2 matches

[47] Code ↔ Paper doi:10.1126/sciadv.aeb3209 [paper, repository]

The actomyosin cortex controls t-tubule remodeling in skeletal muscle.

Journal: Science advances

Authors' code: Zenodo 28838 (other-open), tferr/scripts (GPL-3.0)

Status: code verified, 58 files readable, 2 matches

[48] doi:10.1126/sciadv.aeb6839 [paper, data]

A male-biased hypothalamic circuit modulates postmating sleep suppression in mice.

Journal: Science advances

Status: data only, 1 dataset cited

[49] Code ↔ Paper doi:10.1126/sciadv.aef9406 [paper, repository]

Fluorescent protein ticker tape (FPTT): Multiplexed recording of transcriptional dynamics in living cells and in vivo.

Journal: Science advances

Authors' code: Zenodo 20259137 (CC-BY-4.0)

Status: code verified

[50] Code ↔ Paper doi:10.7554/elife.105213 [paper, repository]

Mesoscale functional architecture in medial posterior parietal cortex.

Journal: eLife

Authors' code: web.ece.ucsb.edu/~riichirohira/topbm-2.05 (no license), riichirohira/BrainModules (MIT)

Status: code verified, 2 files readable

[51] Code ↔ Paper doi:10.7554/elife.111876 [paper, repository]

Distinct sensorimotor encoding in tuft dendrites and somata associated with action, correction, and learning.

Journal: eLife

Authors' code: kerlin-lab/TStracker (no license), kerlin-lab/tongue-classification (no license), kerlin-lab/Scheib_2026 (MIT)

Status: code verified, 511 files readable, 5 matches

[52] doi:10.1523/jneurosci.0925-26.2026 [paper, data]

Brain Architecture of Punishment Learning.

Journal: The Journal of neuroscience : the official journal of the Society for Neuroscience

Status: data only, 1 dataset cited

[53] Code ↔ Paper doi:10.1523/jneurosci.0295-26.2026 [paper, repository]

Detection and Removal of Hyper-synchronous Artifacts in Massively Parallel Spike Recordings.

Journal: The Journal of neuroscience : the official journal of the Society for Neuroscience

Authors' code: doi:10.12751/incf.ni2018.0019 (no license)

Status: code verified

Tuesday, 1 September 2026 (17 papers)

[54] doi:10.1111/ejn.70665 [paper]

Baseline Dynamics and Sleep Loss-Driven Changes of Electrocorticographic Aperiodic Properties Are Altered in Mice Lacking Neuroligin-2.

Journal: The European journal of neuroscience

Status: code on request

[55] Code ↔ Paper doi:10.1111/jnc.70552 [paper, repository]

Altered Retinal Dopamine Homeostasis in Murine Models of Retinitis Pigmentosa.

Journal: Journal of neurochemistry

Authors' code: UmairSeemab/RNAseqData (no license)

Status: code verified, 4 files readable, 2 matches

[56] Code ↔ Paper doi:10.1098/rstb.2024.0461 [paper, repository]

Shallow recurrent decoders for neural and behavioural dynamics.

Journal: Philosophical transactions of the Royal Society of London. Series B, Biological sciences

Authors' code: amysrude/neuralSHRED (no license), meganebers/mobileSHRED (no license)

Status: code verified, 27 files readable, 5 matches

[57] doi:10.1111/jne.70265 [paper, data]

Intracerebroventricular injection of neuropeptide Y suppresses luteinizing hormone pulses in mice.

Journal: Journal of neuroendocrinology

Status: data only, 1 dataset cited

[58] Code ↔ Paper doi:10.1093/bib/bbag490 [paper, repository]

Systematic benchmarking and optimal strategy selection of cross-species integration methods.

Journal: Briefings in bioinformatics

Authors' code: figshare 31976259 (CC-BY-4.0)

Status: code verified, 37 files readable, 9 matches

[59] doi:10.1111/ejn.70655 [paper, data]

Investigating the Contribution of the Imprinted Gene Asb4 to Parental Care.

Journal: The European journal of neuroscience

Status: data only, 1 dataset cited

[60] doi:10.1111/acer.70406 [paper, data]

Prenatal Alcohol Exposure Produces Selective Changes in Neuroimmune Gene Expression Across Brain Regions of Adult Mice.

Journal: Alcohol, clinical & experimental research

Status: data only, 1 dataset cited

[61] doi:10.1002/alz.71804 [paper, data]

A meta-refined human Alzheimer's disease-associated gene subset shows partial mouse-model pathway correspondence and limited cross-cohort machine-learning transportability.

Journal: Alzheimer's & dementia : the journal of the Alzheimer's Association

Status: data only, 1 dataset cited

[62] Code ↔ Paper doi:10.1186/s40478-026-02415-7 [paper, repository]

A standardized framework resolves ambiguity in motor neuron loss across neurodegenerative diseases.

Journal: Acta neuropathologica communications

Authors' code: a-l-norman/SMN-delta-7-meta-analysis-R-code (no license), GerstnerF/Counting-Simulation (no license)

Status: code verified, 4 files readable

[63] doi:10.1038/s44323-026-00105-0 [paper]

Tilia Tomentosa promotes sleep, preserving sleep structure.

Journal: Npj biological timing and sleep

Status: code on request

[64] Code ↔ Paper doi:10.1038/s41467-026-77248-y [paper, repository]

The mPFC-reuniens-hippocampus pathway links brain circuitry and neural plasticity in antidepressant response.

Journal: Nature communications

Authors' code: mveleanu/veleanu_et_al (MIT), Zenodo 21111701 (MIT)

Status: code verified, 22 files readable, 4 matches

[65] doi:10.1002/brb3.71701 [paper, data]

POFUT1 Serves as an Independent Prognostic Factor and Therapeutic Target by Activating the PI3K/AKT Pathway in Glioma.

Journal: Brain and behavior

Status: data only, 1 dataset cited

[66] doi:10.14814/phy2.71059 [paper, data]

Impact of aging on neck vasculature and brain biochemistry in female mice.

Journal: Physiological reports

Status: data only, 1 dataset cited

[67] doi:10.1093/brain/awag043 [paper, data]

Cytomegalovirus-induced T cell responses accelerate Alzheimer's disease progression in mice.

Journal: Brain : a journal of neurology

Status: data only, 1 dataset cited

[68] Code ↔ Paper doi:10.1002/glia.70201 [paper, repository]

Dorso-Ventral and Night-Day Regulation of Extracellular K<sup>+</sup> Dynamics in Mouse Hippocampal Astrocytes.

Journal: Glia

Authors' code: Nari-KIANI/Glia_3740732_Data (CC-BY-4.0), Zenodo 20933397 (CC-BY-4.0)

Status: code verified, 16 files readable, 4 matches

[69] doi:10.1002/npr2.70150 [paper]

Sleep Deprivation and Neuronal Hyperexcitation Share Transcriptomic Signatures.

Journal: Neuropsychopharmacology reports

Status: data only

[70] doi:10.1093/brain/awag033 [paper, data]

Impairment of hippocampal gamma oscillations, mitochondria and neurovascular function in CADASIL.

Journal: Brain : a journal of neurology

Status: data only, 1 dataset cited

Monday, 31 August 2026 (2 papers)

[71] Code ↔ Paper doi:10.1007/s10237-026-02121-2 [paper, repository]

Dynamic image-informed selection of biomechanical tumor growth models.

Journal: Biomechanics and modeling in mechanobiology

Authors' code: PCELab/RecursiveGliomaInference (no license)

Status: code verified, 5 files readable, 1 match

[72] doi:10.3390/ijms27177801 [paper, data]

Expression of the Human R163C-<i>RYR1</i> Gain-of-Function Mutation Modified 2,2',3,5',6-Pentachlorobiphenyl (PCB 95) Developmental Neurotoxicity in Weanling Mice.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

Friday, 28 August 2026 (1 paper)

[73] Code ↔ Paper doi:10.1126/sciadv.aee4940 [paper, repository]

Neuron-derived SPP1 instructs microglia to limit degeneration.

Journal: Science advances

Authors' code: doi:10.7910/dvn/wj0mji (no license)

Status: code found, not verified yet

Thursday, 27 August 2026 (4 papers)

[74] doi:10.1016/j.xpro.2026.104807 [paper]

Protocol for stereotaxic targeting of the dorsal vagal complex in mice.

Journal: STAR protocols

Status: code on request

[75] Code ↔ Paper doi:10.1016/j.xpro.2026.104804 [paper, repository]

Protocol for analyzing slow cortical dynamics in mouse neuronal recordings.

Journal: STAR protocols

Authors' code: shymkivy/slow_dynamics_protocol (no license), doi:10.5061/dryad.xsj3tx9q6 (no license)

Status: code verified, 19 files readable, 30 matches

[76] doi:10.1186/s40035-026-00570-4 [paper, data]

HSPA8 orchestrates SNARE complex assembly to drive extracellular vesicle-mediated spread of p-tau217 in Alzheimer's disease.

Journal: Translational neurodegeneration

Status: data only, 1 dataset cited

[77] doi:10.3390/ijms27177675 [paper, data]

LncRNA Gas5, a Target of the Nonsense-Mediated Decay Pathway in the Brain, Regulates Neuroinflammation and Neurodegenerative Disease Pathways in a Tauopathy Mouse Model.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

Wednesday, 26 August 2026 (7 papers)

[78] doi:10.1186/s43556-026-00546-w [paper, data]

Silencing arachidonate 15-lipoxygenase alleviates hypoxia-induced cognitive impairment through the mediation of phospholipase A2 group IVC-LPC18:0 to suppress ferroptosis.

Journal: Molecular biomedicine

Status: data only, 1 dataset cited

[79] doi:10.1371/journal.pone.0356781 [paper, data]

Bovine serum albumin sensitizes the mouse brain to lipopolysaccharides.

Journal: PloS one

Status: data only, 4 datasets cited

[80] Code ↔ Paper doi:10.1126/sciadv.aed3650 [paper, repository]

Truthful visualizations for mass spectrometry imaging enable high-spatial-resolution interactive <i>m/z</i> mapping and exploration.

Journal: Science advances

Authors' code: Zenodo 19465293 (MIT)

Status: code verified, 96 files readable, 2 matches

[81] doi:10.1126/sciadv.aef3715 [paper, data]

A cortical output channel for perceptual categorization.

Journal: Science advances

Status: data only, 1 dataset cited

[82] doi:10.1038/s41467-026-76468-6 [paper, data]

Cell autonomous regional differences in oligodendrocyte lineage development and responses to oncohistone H3.3 K27M.

Journal: Nature communications

Status: data only, 2 datasets cited

[83] doi:10.1016/j.isci.2026.117332 [paper, data]

The <i>Sox2</i> regulatory region 42 produces enhancer RNAs that influence neuronal migration during cortical development.

Journal: iScience

Status: code on request, 1 dataset cited

[84] doi:10.3389/fimmu.2026.1937738 [paper, data]

Multi-regional transcriptomic analysis reveals early nociceptive and neuroinflammatory alterations in APP/PS1 mice.

Journal: Frontiers in immunology

Status: data only, 2 datasets cited

Tuesday, 25 August 2026 (6 papers)

[85] Code ↔ Paper doi:10.1371/journal.pbio.3003960 [paper, repository]

Brachyury expression levels predict lineage potential and axis-forming ability of in vitro-derived neuromesodermal progenitors.

Journal: PLoS biology

Authors' code: Zenodo 21650680 (BSD-3-Clause), Zenodo 21676159 (MIT), Zenodo 15802710 (MIT), Zenodo 17192095 (MIT), Zenodo 17154933 (BSD-3-Clause), mattfrenchh/pringle (MIT), albertoceccarelli/brachyury-expression-levels-predict-lineage-potential (BSD-3-Clause), mattfrenchh/binagui-casas_granes_et.al._2026_fig4_6_s5_s6 (MIT)

Status: code verified, 43 files readable, 5 matches

[86] doi:10.1007/s12035-026-06155-6 [paper, data]

Sigma-1 Expression in Chronic Mouse Models of Temporal Lobe Epilepsy.

Journal: Molecular neurobiology

Status: data only, 1 dataset cited

[87] Code ↔ Paper doi:10.1016/j.xpro.2026.104787 [paper, repository]

Protocol for 3D digital dynamic histomorphometry of mouse bone via time-lapse registration of serial microCT scans.

Journal: STAR protocols

Authors' code: QMuentin/3D-digital-dynamic-histomorphometry (MIT), Zenodo 19225261 (MIT)

Status: code verified, 8 files readable, 4 matches

[88] doi:10.2147/dddt.s627186 [paper, data]

Esketamine Attenuates Postoperative Neurocognitive Disorder in Aged Mice: Associations with Bioenergetic Remodeling in Hippocampal CD11b-Enriched Cell Fractions and Glycolysis-Related Signaling.

Journal: Drug design, development and therapy

Status: data only, 1 dataset cited

[89] doi:10.1016/j.isci.2026.117335 [paper, data]

Coincidence of L1 retrotransposition and DNA repair deficiency elicits synthetic lethality in S-phase mature neurons.

Journal: iScience

Status: code on request, 1 dataset cited

[90] doi:10.3389/fnmol.2026.1844343 [paper, data]

Molecular abnormalities scale across three models of cerebral injury.

Journal: Frontiers in molecular neuroscience

Status: data only, 2 datasets cited

Monday, 24 August 2026 (2 papers)

[91] Code ↔ Paper doi:10.1016/j.xpro.2026.104801 [paper, repository]

Protocol to characterize tumor microenvironment in a diffuse midline glioma mouse model using multi-omics approach on sequential sections.

Journal: STAR protocols

Authors' code: conda-forge/miniforge (BSD-3-Clause), Zenodo 21513336 (MIT)

Status: code verified, 14 files readable

[92] Code ↔ Paper doi:10.1073/pnas.2613593123 [paper, repository]

Calbindin stratifies midbrain dopaminergic neurons governing distinct aspects of locomotion.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: poulin-lab/Bolduc-et-al-2026_Calb1-paper (no license)

Status: code verified, 38 files readable, 6 matches

Sunday, 23 August 2026 (1 paper)

[93] doi:10.3390/ijms27177542 [paper, data]

Assessment of the Association of Periodontitis and Diabetes Mellitus with Alzheimer's Disease in a Mouse Model.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

Saturday, 22 August 2026 (2 papers)

[94] doi:10.1038/s41598-026-66143-7 [paper, data]

Recombinant CXCL16 reduces brain injury by modulating microglial phenotype and attenuating apoptosis in acute ischemic stroke.

Journal: Scientific reports

Status: data only, 1 dataset cited

[95] Code ↔ Paper doi:10.1016/j.isci.2026.117269 [paper, repository]

Harnessing biological variability for mechanistic inference: A stochastic framework applied to neural stem cell dynamics.

Journal: iScience

Authors' code: Zenodo 18399730 (CC-BY-4.0)

Status: code verified, 26 files readable, 1 match

Friday, 21 August 2026 (8 papers)

[96] Code ↔ Paper doi:10.1126/sciadv.aec3893 [paper, repository]

Enriched experience increases reciprocal synaptic connectivity and coding sparsity in higher-order cortex.

Journal: Science advances

Authors' code: figshare 31878316 (CC-BY-4.0)

Status: code verified

[97] Code ↔ Paper doi:10.1126/sciadv.aed6417 [paper, repository]

Intrinsic timing, not temporal prediction, underlies ramping dynamics in visual and parietal cortex during passive behavior.

Journal: Science advances

Authors' code: najafi-laboratory/2p_imaging (no license)

Status: code verified, 63 files readable, 2 matches

[98] Code ↔ Paper doi:10.26508/lsa.202503546 [paper, repository]

Interactions of LINE-1 ORF1p with proteins and chromatin suggest a role in neuronal physiology.

Journal: Life science alliance

Authors' code: orion-cirb/Axon_Skel_Analyzer (no license), bioinfo-pf-curie/atac-seq (CECILL-2.1)

Status: code verified, 13 files readable, 1 match

[99] doi:10.1186/s40478-026-02402-y [paper, data]

Overactivation of SHH signaling induces a cascade of dedifferentiation and oncogenesis in a new mouse model for choroid plexus carcinoma.

Journal: Acta neuropathologica communications

Status: data only, 5 datasets cited

[100] Code ↔ Paper doi:10.3389/fncel.2026.1850197 [paper, repository]

Reward contingency reorganizes lateral orbitofrontal cortex pyramidal neuron activity from reward-aligned to action-aligned during associative learning.

Journal: Frontiers in cellular neuroscience

Authors' code: zichengyang/imaging_behavior (MIT)

Status: code verified, 7 files readable

[101] doi:10.3389/fmicb.2026.1907120 [paper, data]

Dual modulation of the NLRP3/CASPASE-1 inflammasome pathway and gut microbial metabolism: the antidepressant mechanism of puerarin.

Journal: Frontiers in microbiology

Status: data only, 1 dataset cited

[102] doi:10.1016/j.omta.2026.201835 [paper]

Base editing rescues a hereditary motor neuron disease in mouse and patient-derived iPSC organoid models.

Journal: Molecular therapy. Advances

Status: code on request

[103] Code ↔ Paper doi:10.1038/s41467-026-76939-w [paper, repository]

HIPPIE: a generative model for electrophysiological analysis across species, technologies, and modalities.

Journal: Nature communications

Authors' code: huggingface.co/jesusgf23/hippie (apache), braingeneers/HIPPIE (BSD-3-Clause), JesusGF1/hippie_benchmarking_release (BSD-3-Clause), EricKenjiLee/PhysMAP_Manuscript (no license), Haansololfp/NEMO_ICLR (MIT), Zenodo 21707907 (BSD-3-Clause)

Status: code verified, 253 files readable, 40 matches

Thursday, 20 August 2026 (7 papers)

[104] Code ↔ Paper doi:10.7554/elife.108941 [paper, repository]

Visuomotor mismatch EEG responses over occipital cortex of freely moving human subjects.

Journal: eLife

Authors' code: Zenodo 21838550 (CC-BY-4.0)

Status: code verified

[105] doi:10.1016/j.stemcr.2026.103049 [paper]

A human-specific non-coding RNA for EFHC1, an epilepsy-associated gene, regulates neural stem cell proliferation for cortical development.

Journal: Stem cell reports

Status: code on request

[106] doi:10.1038/s41467-026-76831-7 [paper, data]

Structural origins of species-specific differences in TRPV2 activation.

Journal: Nature communications

Status: data only, 2 datasets cited

[107] Code ↔ Paper doi:10.1002/imt2.70163 [paper, repository]

Spatial multi-omics unveils sphingolipid metabolic reprogramming within the retinal pathological niche.

Journal: iMeta

Authors' code: alserglab/fgsea (MIT), pienapple1/eyeball_STSM (no license)

Status: code verified, 99 files readable, 10 matches

[108] doi:10.3389/fnins.2026.1889410 [paper, data]

Amino acid- and lipid-related metabolic remodeling in PTZ-kindled mice reveals candidate plasma signatures of chronic epilepsy.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[109] doi:10.3389/fimmu.2026.1911726 [paper, data]

Identification of interleukin-11 as a comorbid risk factor for prostate cancer and Alzheimer's disease using integrated bioinformatics and machine learning.

Journal: Frontiers in immunology

Status: data only, 1 dataset cited

[110] doi:10.1038/s41467-026-76838-0 [paper, data]

The DLX/Notch axis is necessary for spatiotemporal regulation of neural cell fate.

Journal: Nature communications

Status: data only, 1 dataset cited

Tuesday, 18 August 2026 (4 papers)

[111] Code ↔ Paper doi:10.7554/elife.107099 [paper, repository]

Local inhibitory dynamics underpin temporal integration and functional segregation between barrels and septa in the mouse barrel cortex.

Journal: eLife

Authors' code: supp:PMC13485306/elife-107099-code1.zip (no license), supp:PMC13485306/elife-107099-code2.zip (no license), supp:PMC13485306/elife-107099-code3.zip (no license), supp:PMC13485306/elife-107099-code5.zip (no license), supp:PMC13485306/elife-107099-code6.zip (no license)

Status: code verified, 5 files readable, 3 matches

[112] doi:10.7554/elife.110458 [paper, data]

TLR4 signaling drives tissue inflammation, Claudin-5 internalization, and vascular barrier breakdown in a mouse model of neonatal meningitis.

Journal: eLife

Status: data only, 1 dataset cited

[113] Code ↔ Paper doi:10.1073/pnas.2603853123 [paper, repository]

A nose-to-brain circuit underlies anxiety regulation by nasal afferent frequency in mice.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: figshare 33136013 (CC-BY-4.0)

Status: code verified, 20 files readable

[114] doi:10.1016/j.xcrm.2026.102994 [paper, data]

Targeting of tripartite neuron-cancer-immune cell crosstalk augments response to chemotherapy and immunotherapy.

Journal: Cell reports. Medicine

Status: code on request, 1 dataset cited

Monday, 17 August 2026 (4 papers)

[115] Code ↔ Paper doi:10.1038/s41467-026-76841-5 [paper, repository]

Stable clique membership in male mouse societies requires oxytocin-enabled social sensory states.

Journal: Nature communications

Authors' code: KelschLAB/NoSeMaze (GPL-3.0), KelschLAB/NoSeMaze-stableRichClubs (CC-BY-NC-ND-4.0)

Status: code verified, 132 files readable, 10 matches

[116] doi:10.3389/fphar.2026.1830927 [paper, data]

<i>Astragalus polysaccharide</i> alleviates neuropathology and cognitive deficits by modulating gut microbiota and neuroinflammation in an Alzheimer's disease model.

Journal: Frontiers in pharmacology

Status: data only, 1 dataset cited

[117] doi:10.31083/ap51694 [paper, data]

Imatinib-Induced Changes in Anxiety-Like Behaviors are Associated With Prefrontal Cortical Metabolic Remodeling in Mice.

Journal: Alpha psychiatry

Status: data only, 1 dataset cited

[118] Code ↔ Paper doi:10.1038/s41467-026-76762-3 [paper, repository]

PD-1 regulates CD4<sup>+</sup> T cell-mediated CD8<sup>+</sup> T cell responses in the brain to balance viral control and neuroinflammation.

Journal: Nature communications

Authors' code: elizabethproctor/Luminex-Data-Cleaning (GPL-3.0), stratton-lab/alexander-2025-cxcr (EUPL-1.2), Zenodo 21179919 (eupl-1.2), Zenodo 21243082 (CC-BY-4.0), Zenodo 21076315 (GPL-3.0)

Status: code verified, 17 files readable, 7 matches

Saturday, 15 August 2026 (2 papers)

[119] doi:10.1002/advs.76803 [paper, data]

ICOS-ImmunoPET Monitors T Cell Activation After Combination Immune Checkpoint Blockade in a Mouse Model of Melanoma Brain Metastasis.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Status: data only, 1 dataset cited

[120] doi:10.1002/advs.77053 [paper, data]

Extracellular CIRP Dysregulates Microglial Efferocytosis in Acute Ischemic Stroke via the TLR4/miR-155/MafB Axis.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Status: data only, 1 dataset cited

Friday, 14 August 2026 (8 papers)

[121] Code ↔ Paper doi:10.1016/j.celrep.2026.117852 [paper, repository]

Graph theory identifies altered prefrontal microcircuit organization in Shank3 mice, a mouse Model of autism.

Journal: Cell reports

Authors' code: Zenodo 21490732 (CC-BY-4.0), liang-bo/AutoStereota (MIT)

Status: code verified, 62 files readable, 4 matches

[122] doi:10.1371/journal.pone.0355857 [paper]

Environmental enrichment attenuates chronic stress-induced disruptions in the gut microbiota, intestinal barrier, and brain.

Journal: PloS one

Status: data only

[123] Code ↔ Paper doi:10.1126/sciadv.adz4123 [paper, repository]

Highly attenuated dendritic propagation of isolated synaptic potentials in vivo.

Journal: Science advances

Authors' code: NTCColumbia (no license)

Status: code verified

[124] Code ↔ Paper doi:10.1126/sciadv.aeb4666 [paper, repository]

Strong connections of locally clustered neurons in the upper-layer cortex underlie schizophrenia-related auditory deviance detection.

Journal: Science advances

Authors' code: Zenodo 19639395 (CC-BY-4.0)

Status: code verified

[125] doi:10.1038/s41588-026-02709-5 [paper, data]

PLCG2 downregulation impairs synaptic function and increases Alzheimer's disease hallmarks in neuronal cultures.

Journal: Nature genetics

Status: data only, 3 datasets cited

[126] Code ↔ Paper doi:10.1016/j.isci.2026.117206 [paper, repository]

ReliST: A model-agnostic risk layer for spatial transcriptomics deconvolution.

Journal: iScience

Authors' code: tp5353/ReliST (MIT)

Status: code verified, 60 files readable, 24 matches

[127] Code ↔ Paper doi:10.1016/j.isci.2026.117187 [paper, repository]

Functional and structural characterization of dendritic spine pathology in a mouse model of tauopathy.

Journal: iScience

Authors' code: gtzook/iSLAB-data-analysis (no license), yuyiyi/AUTOTUNE_GUIdevelopment (GPL-3.0)

Status: code verified, 166 files readable, 1 match

[128] doi:10.1038/s41467-026-76725-8 [paper, data]

TogoPhosTAC as a delivery-ready platform for targeted protein dephosphorylation.

Journal: Nature communications

Status: data only, 1 dataset cited

Thursday, 13 August 2026 (4 papers)

[129] Code ↔ Paper doi:10.1038/s12276-026-01794-0 [paper, repository]

Extinction-restraint intervention eradicates fear memory encoded in BLA engram cells via D2 receptor-mediated dopaminergic modulation from locus coeruleus.

Journal: Experimental & molecular medicine

Authors' code: BehavioralLAB/Fiberphotometry (no license)

Status: code verified, 1 file readable

[130] Code ↔ Paper doi:10.1007/s12035-026-06122-1 [paper, repository]

Alternative Polyadenylation in the Brain is Modulated by Chronic Ethanol Exposure in a Sex- and Cell Type-Specific Manner.

Journal: Molecular neurobiology

Authors' code: alleninstitute/abc_atlas_access (BSD-2-Clause)

Status: code verified, 24 files readable

[131] doi:10.3390/ijms27167240 [paper, data]

1-Piperidine Propionic Acid Inhibits PAR2/SerpinB3 Signaling and Reduces Glioblastoma Tumor Aggressiveness.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[132] Code ↔ Paper doi:10.3389/fnagi.2026.1839445 [paper, repository]

The molecular mechanisms of Guizhi Fuling Pills in ameliorating Alzheimer's disease-like cognitive impairment: insights from transcriptomics, metabolomics, and gut microbiome.

Journal: Frontiers in aging neuroscience

Authors' code: OpenGene/fastp (MIT), tanghaibao/GOatools (BSD-2-Clause)

Status: code verified, 204 files readable, 2 matches

Wednesday, 12 August 2026 (6 papers)

[133] Code ↔ Paper doi:10.1007/s12311-026-02068-1 [paper, repository]

Generation and Validation of an Acan-Cre Mouse Line to Selectively Label Class-B Excitatory Neurons of the Cerebellar Nuclei.

Journal: Cerebellum (London, England)

Authors' code: kebschulllab/Acan-Cre-cerebellar-nucleiBARseq3 (no license)

Status: dead link

[134] Code ↔ Paper doi:10.1126/sciadv.aee9298 [paper, repository]

Synaptic zinc plasticity shapes adaptive and maladaptive cortical plasticity following cochlear injury.

Journal: Science advances

Authors' code: Zenodo 8018820 (CC-BY-4.0)

Status: code verified, 111 files readable, 5 matches

[135] doi:10.1038/s41467-026-74906-z [paper, data]

Youth-associated protein TIMP2 regulates microglial state and function in healthy and aged mice.

Journal: Nature communications

Status: data only, 1 dataset cited

[136] Code ↔ Paper doi:10.3389/ftox.2026.1816944 [paper, repository]

Neurodevelopmental outcomes relevant to autism in juvenile mice exposed to PCB 11 in the maternal diet throughout gestation and lactation.

Journal: Frontiers in toxicology

Authors' code: Zenodo 19716216 (CC-BY-4.0)

Status: code verified, 4 files readable

[137] Code ↔ Paper doi:10.1038/s41467-026-76574-5 [paper, repository]

Prefrontal-raphe-habenular circuit drives fear memory recall and updating.

Journal: Nature communications

Authors' code: nikolaskaralis (no license), Zenodo 21026721 (CC-BY-4.0)

Status: code verified, 2 files readable, 1 match

[138] doi:10.1038/s41467-026-76683-1 [paper, data]

Inflammatory neuropathy in mouse and primate models of colorectal cancer.

Journal: Nature communications

Status: data only, 3 datasets cited

Tuesday, 11 August 2026 (6 papers)

[139] doi:10.7554/elife.109083 [paper, data]

Spine nanostructure profiling of cultured neurons from mouse models reveals a schizophrenia-linked role for Ecrg4.

Journal: eLife

Status: data only, 1 dataset cited

[140] Code ↔ Paper doi:10.1038/s41467-026-76581-6 [paper, repository]

Thalamocortical bursts encode reward contingencies and drive associative learning.

Journal: Nature communications

Authors' code: bothlab/syntalos (no license), grohlab/thalamocortical-bursts-encode-reward-contingencies-and-drive-associative-learning (no license), doi:10.5061/dryad.hdr7sqvt1 (no license), Zenodo 21249852 (CC-BY-4.0), alleninstitute/ecephys_spike_sorting (BSD-2-Clause), Zenodo 13369686 (CC-BY-4.0), Zenodo 21429439 (MIT), grohlab/a-tactile-discrimination-task-to-study-neuronal-dynamics-in-freely-moving-mice (no license)

Status: code verified, 1,148 files readable, 11 matches

[141] doi:10.1016/j.isci.2026.117143 [paper, data]

Molecular heterogeneity and differential metabolic signatures in thymic adipocytes.

Journal: iScience

Status: code on request, 1 dataset cited

[142] Code ↔ Paper doi:10.1016/j.isci.2026.116021 [paper, repository]

Periostin drives psoriasis progression through the stimulation of cutaneous nerve fibers.

Journal: iScience

Authors' code: immunogenomics/harmony (no license)

Status: code verified, 32 files readable

[143] doi:10.3389/fimmu.2026.1700109 [paper]

Integrated machine learning and transcriptomics reveal immune infiltration-related orthologous transcription genes in cerebral ischemic injury.

Journal: Frontiers in immunology

Status: data only

[144] Code ↔ Paper doi:10.1038/s41467-026-76232-w [paper, repository]

Th17 effector cytokines induce shared and distinct microglial and endothelial cell responses in a mouse model for post-streptococcal encephalitis.

Journal: Nature communications

Authors' code: AgalliuLab/s-pyogenes-scRNAseq (no license)

Status: code verified, 5 files readable, 14 matches

Monday, 10 August 2026 (2 papers)

[145] Code ↔ Paper doi:10.1073/pnas.2619797123 [paper, repository]

Selective loss of primary cilia and neurotrophic signaling in G51D α-synuclein mice highlights a common pathway to Parkinson's disease.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: doi:10.5061/dryad.4xgxd25r0 (no license)

Status: code verified

[146] Code ↔ Paper doi:10.1038/s41467-026-76522-3 [paper, repository]

Transcriptomic analysis of spinal V1 interneurons informs their multifunctional role in motor output.

Journal: Nature communications

Authors' code: Bikoff-Lab (no license), Bikoff-Lab/V1_KO_analysis (MIT)

Status: code verified, 5 files readable, 5 matches

Sunday, 9 August 2026 (1 paper)

[147] doi:10.3390/ijms27167140 [paper, data]

Astrocytic HSP90AA1 Upregulation and Altered Synaptic Signaling in Parkinson's Disease: Transcriptomic Screening and In Vivo Validation.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

Saturday, 8 August 2026 (5 papers)

[148] doi:10.1016/j.celrep.2026.117803 [paper]

APOE3 and APOE4 human astrocytes differentially modulate Alzheimer's disease pathology and microglial responses in chimeric mice.

Journal: Cell reports

Status: code on request

[149] Code ↔ Paper doi:10.1016/j.isci.2026.117088 [paper, repository]

Spatial biases in visual feature representation of mouse dorsal lateral geniculate nucleus boutons.

Journal: iScience

Authors' code: Swamylab/Cha_et_al_Mouse_dLGN_FeatureMaps (no license), davidcsterratt/retistruct (no license)

Status: code verified, 131 files readable, 4 matches

[150] Code ↔ Paper doi:10.1038/s41467-026-76506-3 [paper, repository]

Allele-specific chromatin architecture shapes imprinted domains and coordinates a distal enhancer and antisense transcription at the mouse Mest-Copg2 domain.

Journal: Nature communications

Authors' code: Whipple-Lab/capture-hic-imprinting (no license), Zenodo 21224497 (CC-BY-4.0)

Status: code verified, 46 files readable, 8 matches

[151] Code ↔ Paper doi:10.1038/s41467-026-76587-0 [paper, repository]

Uncovering the signaling networks of disseminated glioblastoma cells in vivo with INSIGHT.

Journal: Nature communications

Authors' code: cycif.org (no license), ryuhjinahn (no license), hub.docker.com/r/bumproo (no license)

Status: code verified

[152] Code ↔ Paper doi:10.1038/s41467-026-75862-4 [paper, repository]

Targeting m<sup>6</sup>A writer METTL3 with engineered nanovesicles reduces neuroinflammation in vitro and in vivo.

Journal: Nature communications

Authors' code: Zenodo 20627531 (CC-BY-4.0), xulf1996-arch/mettl3_m6a_bulk_pipeline (no license)

Status: code verified, 24 files readable, 5 matches

Friday, 7 August 2026 (5 papers)

[153] Code ↔ Paper doi:10.1523/eneuro.0050-26.2026 [paper, repository]

GluN2A Enables Noradrenergic Control of Prefrontal Oscillations and Cognitive Flexibility.

Journal: eNeuro

Authors' code: NeuroDataa/PatchClampAnalysis (no license), NeuroDataa/Grin2a_LC_mPFC_pMEA_Analysis (no license), NeuroData/PatchClampAnalysis (no license), NeuroDataa/MEA_Analysis (no license)

Status: code verified, 2 files readable, 2 matches

[154] Code ↔ Paper doi:10.7554/elife.105528 [paper, repository]

Functional specialization of mPFC-BLA and mPFC-NAc pathways in affective state representation.

Journal: eLife

Authors' code: xiaoqiansun0104/caiman-based-ca2-processing (MIT), doi:10.5061/dryad.02v6wwqkj (no license)

Status: code verified, 4 files readable

[155] Code ↔ Paper doi:10.1371/journal.pcbi.1014585 [paper, repository]

Decoding behavior with minimal and interpretable agent models.

Journal: PLoS computational biology

Authors' code: giorgionicoletti/FSC-inference-MAPSO (no license)

Status: code verified, 19 files readable, 6 matches

[156] Code ↔ Paper doi:10.1126/sciadv.aeb3005 [paper, repository]

Neural competition between prefrontal and auditory cortex constrains novel sound strategy learning.

Journal: Science advances

Authors' code: Zenodo 18947789 (CC-BY-4.0), rcbliu/prefrontal-and-auditory-cortex-compete-in-learning (no license)

Status: code verified, 48 files readable

[157] Code ↔ Paper doi:10.1016/j.neuron.2026.07.016 [paper, repository]

Inferring brain-wide interactions using data-constrained recurrent neural network models.

Journal: Neuron

Authors' code: HarveyLab/Acquisition2P_class (MIT), OSF u3kcp (no license), rajanlab/CURBD (GPL-3.0)

Status: code verified, 165 files readable, 8 matches

Thursday, 6 August 2026 (8 papers)

[158] Code ↔ Paper doi:10.7554/elife.103224 [paper, repository]

Brainstem neurons coordinate the bladder and urethral sphincter for urination.

Journal: eLife

Authors' code: xieyangshuying/Brainstem-neurons-coordinate-the-bladder-and-urethral-sphincter-for-urination (Apache-2.0)

Status: code verified, 8 files readable

[159] doi:10.1111/cpr.70269 [paper, data]

Chromatin Remodeller BRD9 Orchestrates Odontoblastic Differentiation via Coordinating RUNX2-KLF4.

Journal: Cell proliferation

Status: data only, 1 dataset cited

[160] doi:10.1016/j.xpro.2026.104769 [paper]

Protocol to improve gradient-index lens implantation in the mouse medial prefrontal cortex using NeuralGlider-assisted insertion.

Journal: STAR protocols

Status: code on request

[161] Code ↔ Paper doi:10.1038/s12276-026-01801-4 [paper, repository]

Putative glioblastoma origin-like cells in the subventricular zone: isolation and characterization.

Journal: Experimental & molecular medicine

Authors' code: hoonbiolab/yugbmoc_paper (no license)

Status: code verified, 7 files readable, 6 matches

[162] Code ↔ Paper doi:10.1016/j.xpro.2026.104773 [paper, repository]

Protocol for fluorescent false neurotransmitter live imaging of dopamine release dynamics from individual synapses in acute brain slices.

Journal: STAR protocols

Authors' code: MDevineLab/FFN200-live-imaging (CC-BY-4.0)

Status: code verified, 4 files readable

[163] doi:10.3390/nu18152575 [paper, data]

Diminished Maternal Tryptophan Leads to Sexually Dimorphic Differences in the Placenta-Brain Axis.

Journal: Nutrients

Status: data only, 1 dataset cited

[164] doi:10.1016/j.isci.2026.117069 [paper]

The deficiency of KIF2C leads to abnormal distribution of cortical neurons and behavioral deficits in mice.

Journal: iScience

Status: code on request

[165] doi:10.1038/s41467-026-76286-w [paper, data]

Regional diversity of cranial skeletal stem cells governs bone morphogenetic protein-2 mediated bone regeneration.

Journal: Nature communications

Status: data only, 2 datasets cited

Wednesday, 5 August 2026 (10 papers)

[166] doi:10.1523/jneurosci.2002-24.2026 [paper, data]

Astrocyte TrkB.T1 Deficiency Disrupts Glutamatergic Synaptogenesis and Astrocyte-Synapse Interactions.

Journal: The Journal of neuroscience : the official journal of the Society for Neuroscience

Status: data only, 1 dataset cited

[167] Code ↔ Paper doi:10.7554/elife.110170 [paper, repository]

Efficient and reproducible pipelines for spike sorting large-scale electrophysiology data.

Journal: eLife

Authors' code: AllenNeuralDynamics/aind-ephys-pipeline (MIT), AllenNeuralDynamics/aind-ephys-hybrid-benchmark (MIT), hub.docker.com/r/nextflow (no license), Zenodo 19481268 (CC-BY-4.0), AllenNeuralDynamics/aind-data-schema-models (MIT)

Status: code verified, 96 files readable, 4 matches

[168] Code ↔ Paper doi:10.1126/sciadv.adw5487 [paper, repository]

Early fate diversification of radial glial progenitors during corticogenesis.

Journal: Science advances

Authors' code: Zenodo 14609057 (CC-BY-4.0)

Status: code verified, 3 files readable, 2 matches

[169] Code ↔ Paper doi:10.1016/j.xcrm.2026.102968 [paper, repository]

Corpora amylacea profiling reveals disease stage and brain region-specific alterations in glycogen metabolism in Alzheimer's disease patient brains.

Journal: Cell reports. Medicine

Authors' code: doi:10.7910/dvn/sougim (no license), forum.image.sc/t/script-for-average-non-cell-detection-area-in-multiple-annotations (no license)

Status: code verified

[170] Code ↔ Paper doi:10.1038/s41586-026-10874-0 [paper, repository]

Amygdala astrocyte primary cilium mechanisms contribute to stress behaviours.

Journal: Nature

Authors' code: hms-dbmi/UpSetR (other)

Status: code verified, 31 files readable

[171] doi:10.1038/s41593-026-02379-w [paper, data]

Norepinephrine and dopamine sensor crosstalk depends on local innervation density.

Journal: Nature neuroscience

Status: data only, 1 dataset cited

[172] Code ↔ Paper doi:10.1038/s41593-026-02388-9 [paper, repository]

Hippocampal CA3 connectomics reveals a gradient of mossy fiber inputs and selective feedforward inhibition onto pyramidal cells.

Journal: Nature neuroscience

Authors' code: seung-lab/seuron (MIT), seung-lab/cloud-volume (BSD-3-Clause), navis-org/navis-mousebrains (GPL-3.0), seung-lab/ca3_paper (CC-BY-4.0), CAVEconnectome (no license)

Status: code verified, 212 files readable, 16 matches

[173] doi:10.3389/fncel.2026.1901103 [paper]

Loss of epigenetic adaptation to a high-fat diet in alpha-synuclein transgenic mice.

Journal: Frontiers in cellular neuroscience

Status: data only

[174] Code ↔ Paper doi:10.3389/fphys.2026.1886058 [paper, repository]

Xanthohumol and its non-estrogenic derivatives link to the gut-liver-brain axis to improve cognition in mice with diet-induced obesity.

Journal: Frontiers in physiology

Authors' code: aalexiev/XanthohumolMicrobiome (no license)

Status: code verified, 15 files readable, 9 matches

[175] doi:10.3389/fphar.2026.1895800 [paper, data]

NDP-MSH rescues LPS-induced neuroinflammation, synaptic deficits, and depressive-like behaviors in mice: involvement of MC1R-cAMP/PKA signaling.

Journal: Frontiers in pharmacology

Status: data only, 1 dataset cited

Tuesday, 4 August 2026 (7 papers)

[176] doi:10.1016/j.xpro.2026.104720 [paper, data]

Protocol using AGO-APP for isolation and sequencing of argonaute-bound miRNAs in specific neuronal subtypes of the mouse brain.

Journal: STAR protocols

Status: data only, 1 dataset cited

[177] doi:10.1016/j.ebiom.2026.106416 [paper, data]

Establishing the role of ZBTB20 mutations in GnRH deficiency and impaired neurogenesis in the subventricular zone: a human cohort and animal model study.

Journal: EBioMedicine

Status: data only, 1 dataset cited

[178] doi:10.1038/s41467-026-76183-2 [paper, data]

Vestibular nucleus stimulation for ameliorating locomotor dynamics in a Parkinsonian mouse model.

Journal: Nature communications

Status: code on request, 1 dataset cited

[179] doi:10.1186/s40478-026-02399-4 [paper, data]

Overactive EAAT1 Cl<sup>-</sup> channels impair GABAergic tonic inhibition in SLC1A3-associated episodic ataxia.

Journal: Acta neuropathologica communications

Status: data only, 1 dataset cited

[180] doi:10.3389/fmicb.2026.1811435 [paper, data]

Research on the role of gut microbiota metabolites in autism by multi-omics and network pharmacology.

Journal: Frontiers in microbiology

Status: data only, 1 dataset cited

[181] Code ↔ Paper doi:10.1038/s41467-026-76132-z [paper, repository]

ATP13A4 gates extracellular polyamine levels to control excitatory synaptogenesis.

Journal: Nature communications

Authors' code: Eroglu-Lab/In-Vitro-Sholl (MIT), emsm3eus-crypto/van-Veen-et-al.-2026 (MIT), eroglu-lab/irala_2024_image_analysis (no license), Eroglu-Lab (no license), Zenodo 10779514 (CC-BY-4.0), Zenodo 20490523 (MIT), Zenodo 20137621 (MIT)

Status: code verified, 30 files readable, 3 matches

[182] Code ↔ Paper doi:10.1038/s41467-026-76341-6 [paper, repository]

Neonatal inflammation disrupts a temporally restricted postnatal Numb-enriched microglial state in mice.

Journal: Nature communications

Authors' code: fafax093-design/scRNA-neonatal-microglia-analyses-2025 (no license), Zenodo 20795495 (CC-BY-4.0)

Status: code verified, 40 files readable, 20 matches

Monday, 3 August 2026 (8 papers)

[183] doi:10.1101/gad.353596.125 [paper, data]

Functional divergence of Capicua isoforms explains differential tissue vulnerability in neurological disease.

Journal: Genes & development

Status: data only, 1 dataset cited

[184] doi:10.1002/advs.76989 [paper]

Targeting Hippocampal PTEN Suppresses Ferroptosis and Rescues Cognitive Decline in Alzheimer's Disease via Dual AKT/GSK3β/Nrf2 and AKT/STAT3 Axes.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Status: data only

[185] Code ↔ Paper doi:10.1371/journal.pcbi.1014576 [paper, repository]

A synthetic 3D human cerebrovascular model informed by histology for simulating the cortical depth-dependent BOLD fMRI signal.

Journal: PLoS computational biology

Authors' code: baezprecisionimaging-source/3dVAMOS (GPL-3.0)

Status: code verified, 1 file readable

[186] doi:10.1073/pnas.2604124123 [paper]

Bladder mucosal afferents detect UTI and aid pathogen clearance.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Status: code on request

[187] doi:10.1038/s44321-026-00482-w [paper, data]

Reducing CETP activity prevents memory decline in an Alzheimer's disease mouse model.

Journal: EMBO molecular medicine

Status: data only, 1 dataset cited

[188] Code ↔ Paper doi:10.1038/s41593-026-02350-9 [paper, repository]

Probing inter-areal computations with a two-photon holographic mesoscope.

Journal: Nature neuroscience

Authors' code: mesoholo/mesoholo (no license)

Status: code verified, 102 files readable, 8 matches

[189] Code ↔ Paper doi:10.1038/s41593-026-02387-w [paper, repository]

Developing mouse inhibitory neuron single-cell transcriptomes reveal distinct modes of cell-type diversification.

Journal: Nature neuroscience

Authors' code: Limlab-VIBCBD/Dev-SST-atlas (no license)

Status: code verified, 17 files readable, 23 matches

[190] Code ↔ Paper doi:10.1038/s44161-026-00844-0 [paper, repository]

Pericyte K<sub>ATP</sub> channel hyperactivity redistributes cortical blood flow in a CADASIL mouse model.

Journal: Nature cardiovascular research

Authors' code: ntsoukias/SVD-Blood-Flow-Simulation (other), Zenodo 20722612 (CC-BY-4.0)

Status: code verified, 12 files readable, 5 matches

Saturday, 1 August 2026 (26 papers)

[191] Code ↔ Paper doi:10.1093/brain/awaf440 [paper, repository]

Cerebrospinal fluid-driven ependymal motile cilia defects are implicated in multiple sclerosis.

Journal: Brain : a journal of neurology

Authors' code: stratton-lab/Bigotte-2025-Cilia (GPL-3.0)

Status: code verified, 3 files readable, 3 matches

[192] Code ↔ Paper doi:10.1002/glia.70181 [paper, repository]

Female Mice Show Stronger Time-of-Day Modulation of Astrocytic Ca<sup>2+</sup> Activity in the Sleep-Regulatory Ventrolateral Preoptic Nucleus.

Journal: Glia

Authors' code: louzonca/AstroNet (CC0-1.0)

Status: code verified, 16 files readable, 2 matches

[193] Code ↔ Paper doi:10.1109/tmi.2026.3704144 [paper, repository]

Microbubble Track-Based Functional Ultrasound Localization Microscopy in Awake Mice.

Journal: IEEE transactions on medical imaging

Authors' code: ekerwang/TrackBased-fULM (no license)

Status: code verified, 6 files readable

[194] doi:10.1021/acs.jmedchem.6c01461 [paper, data]

Dual Inhibitors of p38α Mitogen-Activated Protein Kinase and Butyrylcholinesterase for the Modulation of Neuroinflammation and Cognitive Dysfunction.

Journal: Journal of medicinal chemistry

Status: data only, 7 datasets cited

[195] Code ↔ Paper doi:10.1093/bioinformatics/btag652 [paper, repository]

mmVelo: a deep generative model for estimating cell state-dependent dynamics across multiple modalities.

Journal: Bioinformatics (Oxford, England)

Authors' code: nomuhyooon/mmVelo (no license), Zenodo 20103609 (CC-BY-4.0)

Status: code verified, 170 files readable, 21 matches

[196] Code ↔ Paper doi:10.1167/jov.26.8.9 [paper, repository]

Subspace reverse-correlation estimation of receptive fields during free viewing.

Journal: Journal of vision

Authors' code: figshare 32257377 (CC-BY-4.0)

Status: code verified, 1 file readable

[197] Code ↔ Paper doi:10.1002/cns.71114 [paper, repository]

Dynamic Functional Connectivity Changes in Cortical and Cortico-Striatal Strokes in Mice.

Journal: CNS neuroscience & therapeutics

Authors' code: Aswendt-Lab/AIDAmri (GPL-3.0), doi:10.12751/g-node.pmvtz1 (no license)

Status: code verified, 110 files readable, 5 matches

[198] Code ↔ Paper doi:10.1093/nar/gkag788 [paper, repository]

Neuronal activity-driven 3D chromatin dynamics in cortical pyramidal neurons depend on SATB2.

Journal: Nucleic acids research

Authors' code: sespesogil/satb2_3d_genome (no license), ay-lab/dchic (MIT), Ali-Mujahid/Satb2-3D-Genome-organization (no license), Zenodo 21534635 (CC-BY-4.0)

Status: code verified, 29 files readable, 8 matches

[199] Code ↔ Paper doi:10.1093/bioinformatics/btag424 [paper, repository]

SlotDeconv: spatial transcriptomics deconvolution via diversity-constrained prototype learning and spatial refinement.

Journal: Bioinformatics (Oxford, England)

Authors' code: HannahNJIT/SlotDeconv (MIT)

Status: code verified, 8 files readable, 4 matches

[200] doi:10.1002/ctm2.70756 [paper, data]

Chronic stress-induced brain-derived small extracellular vesicles promote colorectal cancer through Treg differentiation.

Journal: Clinical and translational medicine

Status: data only, 1 dataset cited

[201] doi:10.1002/brb3.71700 [paper, data]

Downregulation of Lgals3 Alleviates Inflammatory Response and Apoptosis in a Mouse Model of Cerebral Ischemia/Reperfusion Injury.

Journal: Brain and behavior

Status: data only, 1 dataset cited

[202] doi:10.1111/nan.70097 [paper, data]

Transgenic A53T Mice Have Astrocytic α-Synuclein Aggregates in Dopamine and Striatal Regions.

Journal: Neuropathology and applied neurobiology

Status: data only, 2 datasets cited

[203] doi:10.1167/iovs.67.10.41 [paper, data]

Ascl1 Represses Müller Glial and Promotes Rod Photoreceptor Fate Through Repressing Notch Signaling in Late Retinal Progenitor Cells.

Journal: Investigative ophthalmology & visual science

Status: data only, 1 dataset cited

[204] doi:10.1021/acs.jmedchem.6c01882 [paper, data]

Selective Brain-Penetrant TTBK1 Inhibitors Modulate TDP-43 Pathology and Rescue Cognitive Deficits in a Mouse Model of TDP-43 Proteinopathy.

Journal: Journal of medicinal chemistry

Status: data only, 4 datasets cited

[205] doi:10.1111/acel.70653 [paper, data]

Distinct Transposable Element Transcript Patterns in Microglia Across Aging and Alzheimer's Disease.

Journal: Aging cell

Status: data only, 1 dataset cited

[206] doi:10.1002/cns.71080 [paper, data]

Vorinostat Mitigates Early Brain Injury Following Subarachnoid Hemorrhage Through Modulation of the C3aR1/TGF-β/Smad Pathway.

Journal: CNS neuroscience & therapeutics

Status: data only, 1 dataset cited

[207] doi:10.1002/cns.71074 [paper, data]

Bard1-Mediated Regulation of Hnrnpa2b1 Ubiquitination and Protein Stability Contributes to Neuronal Ferroptosis and Cognitive Dysfunction Following Ischemic Stroke.

Journal: CNS neuroscience & therapeutics

Status: data only, 1 dataset cited

[208] doi:10.1002/jev2.70347 [paper]

Lymphatic Drainage of Cerebrospinal Fluid Using Lymph Node Seeker 64Cu-Labeled Gram-Negative Bacterial Extracellular Vesicles With Positron Emission Tomography (PET).

Journal: Journal of extracellular vesicles

Status: code on request

[209] doi:10.1111/acel.70646 [paper, data]

HNRNPC Succinylation Influences the Neurodegeneration of Alzheimer's Disease Through YME1L1-Mediated Mitochondrial Metabolism.

Journal: Aging cell

Status: data only, 1 dataset cited

[210] doi:10.1002/jcsm.70357 [paper, data]

Early and Divergent Lipid Mediator Remodelling in Fast Versus Slow Skeletal Muscles of Female hSOD1<sup>G93A</sup> Mice.

Journal: Journal of cachexia, sarcopenia and muscle

Status: data only, 1 dataset cited

[211] doi:10.1210/endocr/bqag087 [paper, data]

A single-nucleus multiomic study of preoptic area cells in prepubertal control vs prenatally androgenized female mice.

Journal: Endocrinology

Status: data only, 1 dataset cited

[212] Code ↔ Paper doi:10.1002/jdn.70161 [paper, repository]

Spatio-Temporal Dynamics of Macroglial Cell Organization and Proximity to Blood Vessels During Postnatal Development.

Journal: International journal of developmental neuroscience : the official journal of the International Society for Developmental Neuroscience

Authors' code: orion-cirb/VeCell (no license)

Status: code verified, 11 files readable, 4 matches

[213] Code ↔ Paper doi:10.1093/bioinformatics/btag540 [paper, repository]

Deciphering spatial heterogeneity by multimodal spatial transcriptomics modelling with SpatialModal.

Journal: Bioinformatics (Oxford, England)

Authors' code: xingyili/SpatialModal (no license), Zenodo 21264356 (CC-BY-4.0)

Status: code verified, 20 files readable, 6 matches

[214] doi:10.1158/2767-9764.crc-25-0811 [paper, data]

Targeting Wild-type NTRK in NTRK Fusion-Negative Lung Cancer Decreases Brain Metastases.

Journal: Cancer research communications

Status: data only, 1 dataset cited

[215] doi:10.1021/acschemneuro.6c00342 [paper, data]

5-HT4 Receptor Ligand RS67333 Modulates Striatal Acetylcholine and Dopamine Release via the Inhibition of Acetylcholinesterase.

Journal: ACS chemical neuroscience

Status: data only, 1 dataset cited

[216] Code ↔ Paper doi:10.1158/2767-9764.crc-25-0579 [paper, repository]

Glioblastoma Subtypes Exhibit Distinct Migration Mechanics and Immune Responses.

Journal: Cancer research communications

Authors' code: drive.google.com/file/d (no license), davidodde/shamsan_etal_codes (MIT)

Status: code verified, 7 files readable, 3 matches

Friday, 31 July 2026 (6 papers)

[217] doi:10.1242/dev.204788 [paper, data]

Combined HS6ST1 and HS6ST2 loss disrupts the formation and migration of gonadotropin-releasing hormone neurons.

Journal: Development (Cambridge, England)

Status: data only, 1 dataset cited

[218] Code ↔ Paper doi:10.1126/sciadv.adz6517 [paper, repository]

Corticosterone-linked microglial activity underpins sexually dimorphic neuroplasticity after ketamine anesthesia.

Journal: Science advances

Authors' code: siegert-lab/V1_morphOMICs (MIT), Zenodo 19057068 (CC-BY-4.0), Zenodo 19019013 (GPL-3.0), Zenodo 19071467 (CC-BY-4.0), rcubero/morphomics (GPL-3.0), thomasngl/morphomics_venturino_2025 (no license), jakeyeung/gliamultiomics (no license)

Status: code verified, 140 files readable, 4 matches

[219] Code ↔ Paper doi:10.1126/sciadv.aeb5352 [paper, repository]

Indirect pathway neurons in the tail of the striatum regulate inhibitory control over sensory driven behavior.

Journal: Science advances

Authors' code: Zenodo 20089479 (CC-BY-4.0), Fuccillo-Lab/Ferrigno-Iliakis_SciAdv2026 (no license)

Status: code verified, 122 files readable, 7 matches

[220] doi:10.1016/j.nbas.2026.100164 [paper, data]

Single-cell transcriptomic analysis reveals age-related remodeling of brain endothelial cells.

Journal: Aging brain

Status: data only, 1 dataset cited

[221] Code ↔ Paper doi:10.1038/s41467-026-75571-y [paper, repository]

Ribo-ITP enables identification of translons from limited input samples.

Journal: Nature communications

Authors' code: up114/translons (no license)

Status: code verified, 9 files readable, 7 matches

[222] doi:10.1186/s12888-026-08472-5 [paper]

Neuroscience-guided bilateral thalamic MRI deep learning for obstructive sleep apnea diagnosis: a dual-center translational study.

Journal: BMC psychiatry

Status: code on request

Thursday, 30 July 2026 (13 papers)

[223] Code ↔ Paper doi:10.1038/s41467-026-75700-7 [paper, repository]

Gene regulatory innovations from transposable elements in primate cerebellum development.

Journal: Nature communications

Authors' code: kaessmannlab/cerebellum_te (CC-BY-NC-SA-4.0), Zenodo 19354896 (CC-BY-4.0)

Status: code verified, 56 files readable, 18 matches

[224] Code ↔ Paper doi:10.1172/jci196689 [paper, repository]

AAV-mediated gene therapy demonstrates phenotypic rescue in a mouse model of Cockayne syndrome.

Journal: The Journal of clinical investigation

Authors' code: Zenodo 20072251 (MIT)

Status: code verified, 15 files readable, 1 match

[225] Code ↔ Paper doi:10.1371/journal.pcbi.1014577 [paper, repository]

Combining sampling and attractor dynamics in spiking models of head direction systems.

Journal: PLoS computational biology

Authors' code: michnard/sampl_attract_HD (GPL-3.0)

Status: code verified, 7 files readable

[226] Code ↔ Paper doi:10.1016/j.xcrm.2026.102949 [paper, repository]

Targeting G<sub>i/o</sub>-coupled GPCRs to inhibit nociceptors: Insights from the serotonin receptor Htr1b and triptans.

Journal: Cell reports. Medicine

Authors' code: Zenodo 20801945 (CC-BY-4.0)

Status: code verified, 4 files readable

[227] Code ↔ Paper doi:10.1038/s41594-026-01857-w [paper, repository]

Protein thiol alterations drive pathologic liquid-liquid phase separation in the aging brain.

Journal: Nature structural & molecular biology

Authors' code: figshare 32817593 (CC-BY-4.0)

Status: empty repository

[228] Code ↔ Paper doi:10.1038/s41593-026-02377-y [paper, repository]

Representations of the intrinsic value of information in mouse orbitofrontal cortex.

Journal: Nature neuroscience

Authors' code: Zenodo 20477351 (CC-BY-4.0), Zenodo 20479276 (CC-BY-4.0), Zenodo 20480778 (CC-BY-4.0), jjbussell/Bussell2026InfoValue (no license)

Status: code verified, 75 files readable, 21 matches

[229] doi:10.3390/cells15151379 [paper, data]

Extracellular Aβ42 Oligomers Induce ROCK2 Hyperactivation Through Dual Mediation by RhoA and GzmB: Significance of Moderate ROCK2 Activity in Neural Cells.

Journal: Cells

Status: data only, 1 dataset cited

[230] doi:10.1016/j.omta.2026.201824 [paper]

GAA engineered to improve cellular uptake enhances correction in a preclinical hematopoietic stem cell gene therapy model of Pompe disease.

Journal: Molecular therapy. Advances

Status: code on request

[231] doi:10.1038/s41467-026-76141-y [paper, data]

The basolateral amygdala decodes visceral pain and itch via distinct circuits and molecules.

Journal: Nature communications

Status: data only, 1 dataset cited

[232] Code ↔ Paper doi:10.1038/s41467-026-76103-4 [paper, repository]

Low-intensity pulsed ultrasound-mediated nose-to-brain co-delivery of β-blockers and aPD-L1 enhances glioblastoma immunotherapy.

Journal: Nature communications

Authors' code: OpenGene/fastp (MIT)

Status: code verified, 68 files readable, 2 matches

[233] Code ↔ Paper doi:10.1038/s41467-026-76156-5 [paper, repository]

Longitudinal analysis reveals myeloid cell contributions to murine neuroPASC pathogenesis.

Journal: Nature communications

Authors' code: lutan3/neuroPASC-scRNA-seq-data-analysis (Apache-2.0)

Status: empty repository, 2 files readable

[234] doi:10.1038/s41467-026-76161-8 [paper, data]

The m⁶A reader YTHDF2 regulates mRNA transport and axon outgrowth in developing neurons.

Journal: Nature communications

Status: data only, 2 datasets cited

[235] Code ↔ Paper doi:10.1186/s12864-026-13024-y [paper, repository]

Long-read RNA-seq maps the isoform landscape of the trigeminal ganglion in an allergic rhinitis mouse model.

Journal: BMC genomics

Authors' code: yerry77/TG-full-length (no license)

Status: code verified, 7 files readable, 5 matches

Wednesday, 29 July 2026 (12 papers)

[236] doi:10.1523/jneurosci.2320-25.2026 [paper, data]

The Synaptic Vesicle Priming Protein Munc13 Mediates Evoked Somatodendritic Dopamine Release.

Journal: The Journal of neuroscience : the official journal of the Society for Neuroscience

Status: data only, 1 dataset cited

[237] doi:10.1080/10717544.2026.2708389 [paper, data]

Ultrasound-triggered platelet vehicles loading fluorescein for targeted sonodynamic therapy of glioblastoma.

Journal: Drug delivery

Status: data only, 1 dataset cited

[238] doi:10.7554/elife.108845 [paper, data]

Acute opioid responses are modulated by dynamic interactions of <i>Oprm1</i> and <i>Fgf12</i>.

Journal: eLife

Status: data only, 1 dataset cited

[239] Code ↔ Paper doi:10.1126/sciadv.aef6777 [paper, repository]

Astrocyte redox imbalance underlies prelimbic neuronal hypoactivity and maladaptive affective behaviors in epilepsy.

Journal: Science advances

Authors' code: KunYang99/ALDH7A1 (no license), Zenodo 20719402 (CC-BY-4.0)

Status: code verified, 10 files readable, 1 match

[240] Code ↔ Paper doi:10.1126/sciadv.aeh9771 [paper, repository]

Lipidomic profiling reveals age-dependent changes in plasma membrane lipids that affect neural stem cell aging.

Journal: Science advances

Authors' code: xiaoaizhao/Neural-stem-cell-NSC-aging-lipidomics (no license), Zenodo 20416165 (CC-BY-4.0)

Status: code verified, 178 files readable, 25 matches

[241] Code ↔ Paper doi:10.1126/sciadv.aee8648 [paper, repository]

IoT-enabled wireless neural implant for chronic, programmable neuropharmacology and optogenetics.

Journal: Science advances

Authors' code: Zenodo 20063531 (CC-BY-4.0), jey0920/aee8648_firmware (MIT)

Status: code verified, 6 files readable

[242] Code ↔ Paper doi:10.1126/sciadv.aed9386 [paper, repository]

Shared striatal neurons exhibit context-specific dynamics for internally and externally driven actions.

Journal: Science advances

Authors' code: Zenodo 16333867 (CC-BY-4.0)

Status: code verified

[243] doi:10.1016/j.neurot.2026.e00977 [paper, data]

Exosome-mediated delivery of 3-n-butylphthalide rescues microglial energy crisis and ameliorates neuroinflammation in ischemic stroke.

Journal: Neurotherapeutics : the journal of the American Society for Experimental NeuroTherapeutics

Status: data only, 1 dataset cited

[244] doi:10.1016/j.mocell.2026.100387 [paper, data]

USP15 mutation associated with autism spectrum disorder alters progenitor fate and neuronal maturation in human brain organoids.

Journal: Molecules and cells

Status: data only, 1 dataset cited

[245] Code ↔ Paper doi:10.1038/s41593-026-02384-z [paper, repository]

cGAS-mediated type I IFN signaling contributes to disease progression in drug-refractory epilepsy.

Journal: Nature neuroscience

Authors' code: aertslab/SCENIC (GPL-3.0), Jackson-Kyle-CCOM/Automated-EEG-Algorithm (AGPL-3.0), Zenodo 20545168 (CC-BY-4.0), lifan36/Huang-Dravet-2026 (no license), Zenodo 20545167 (CC-BY-4.0)

Status: code verified, 118 files readable, 15 matches

[246] doi:10.1186/s40035-026-00567-z [paper, data]

Transaldolase 1 contributes to pentose phosphate pathway disruption and synaptic dysfunction in Alzheimer's disease.

Journal: Translational neurodegeneration

Status: data only, 3 datasets cited

[247] doi:10.7150/thno.134644 [paper, data]

miR-15a-5p outperforms anti-VEGF drug in ocular neovascularization by providing dual anti-angiogenic and neuroprotective effects.

Journal: Theranostics

Status: data only, 1 dataset cited

Tuesday, 28 July 2026 (8 papers)

[248] Code ↔ Paper doi:10.7554/elife.107531 [paper, repository]

CellCover defines marker gene panels capturing developmental progression in neocortical neural stem cell identity.

Journal: eLife

Authors' code: lanlanji/CoveringPackage (no license)

Status: code verified, 5 files readable

[249] doi:10.7554/elife.109001 [paper, data]

Excitatory cholecystokinin neurons in the CA3 area regulate the navigation learning and neuroplasticity.

Journal: eLife

Status: data only, 1 dataset cited

[250] Code ↔ Paper doi:10.1016/j.neuron.2026.07.007 [paper, repository]

Human-specific SRGAP2 paralogs synchronize neotenic microglial maturation and synaptic development.

Journal: Neuron

Authors' code: Zenodo 20618142 (MIT), bhaduri-lab/dev-ctx-meta-atlas (MIT)

Status: code verified, 6 files readable, 1 match

[251] Code ↔ Paper doi:10.1162/imag.a.1310 [paper, repository]

Experimental quality control induces changes in Allen mouse brain connectomes.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: vik16nathan/allen_connectome_qc (no license)

Status: code verified, 40 files readable, 15 matches

[252] doi:10.3389/fncel.2026.1886995 [paper]

CD22 regulates Aβ clearance in microglia through INPP5D signaling.

Journal: Frontiers in cellular neuroscience

Status: data only

[253] Code ↔ Paper doi:10.1038/s41467-026-75792-1 [paper, repository]

Temporal drift of sleep-wake representations in hypothalamic neuronal ensembles.

Journal: Nature communications

Authors' code: ZENLabCode (no license), Zenodo 20747987 (CC-BY-4.0), zenlabcode/calciumimaging (no license)

Status: code verified, 8 files readable, 2 matches

[254] Code ↔ Paper doi:10.1038/s41467-026-75194-3 [paper, repository]

Leucine-rich repeat kinase 2 impairs the release sites of Parkinson's disease vulnerable dopamine axons.

Journal: Nature communications

Authors' code: curtain.proteo.info (no license), Zenodo 19930567 (CC-BY-4.0), Zenodo 20244434 (CC-BY-4.0), DombeckLab/lrrk2_photometry_analysis (MIT)

Status: code verified, 19 files readable, 7 matches

[255] Code ↔ Paper doi:10.1038/s41467-026-76118-x [paper, repository]

Control of associative learning by the mediodorsal thalamus-orbitofrontal cortex circuit.

Journal: Nature communications

Authors' code: Zenodo 21332049 (CC-BY-4.0)

Status: code verified, 22 files readable, 5 matches

Monday, 27 July 2026 (7 papers)

[256] doi:10.1002/advs.76695 [paper, data]

NSD2 Coordinates the Neurogenic-to-Gliogenic Transition via H3K36me2-Dependent Activation of the EGFR-ERK Pathway.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Status: data only, 1 dataset cited

[257] Code ↔ Paper doi:10.7554/elife.107635 [paper, repository]

Stable excitatory-inhibitory synapse balance despite dynamic turnover.

Journal: eLife

Authors' code: datajamesallen/Garbett_2026_eLife (MIT)

Status: code verified, 69 files readable, 11 matches

[258] Code ↔ Paper doi:10.1038/s41467-026-75706-1 [paper, repository]

Dissociable roles of prefrontal plasticity in decision-making strategy and execution of habitual behavior.

Journal: Nature communications

Authors' code: Nozomi-Asaoka/Custom-code-for-Asaoka-et-al-2026 (MIT)

Status: code verified, 5 files readable

[259] Code ↔ Paper doi:10.1038/s42003-026-10646-6 [paper, repository]

Energy paradox in REM sleep: balancing supply and consumption in brain metabolism.

Journal: Communications biology

Authors' code: ContextLab/seqnmf (MIT)

Status: code verified, 7 files readable

[260] doi:10.1093/pnasnexus/pgag254 [paper, data]

Intermittent fasting rewires tissue-specific gene-transposable element regulatory networks.

Journal: PNAS nexus

Status: data only, 1 dataset cited

[261] doi:10.1016/j.isci.2026.116945 [paper]

Neurodegeneration in the olfactory system in Niemann Pick type C1 disease.

Journal: iScience

Status: code on request

[262] doi:10.1016/j.omta.2026.201820 [paper]

i.c.v. delivery of AAV9-synapsin-promoted caveolin-1 attenuates neuromuscular deficits and neuromuscular degeneration in hSOD1<sup>G93A</sup> mice.

Journal: Molecular therapy. Advances

Status: code on request

Saturday, 25 July 2026 (2 papers)

[263] doi:10.3390/bios16080405 [paper]

A Low-Power PLL-Less Wideband OOK Wireless Neural-Signal Transmitter for Miniaturized Neural Interfaces with In Vivo Validation in Freely Moving Mice.

Journal: Biosensors

Status: code on request

[264] doi:10.3390/antiox15080926 [paper, data]

NRF2 Deletion Results in Mobility Impairment in A53TSyn Model of Synucleinopathy.

Journal: Antioxidants (Basel, Switzerland)

Status: data only, 1 dataset cited

Friday, 24 July 2026 (7 papers)

[265] Code ↔ Paper doi:10.1371/journal.pcbi.1014573 [paper, repository]

Cell-type-specific m1A dynamics are associated with microglial phenotypic transition and neuronal metabolic adaptation during spinal cord injury.

Journal: PLoS computational biology

Authors' code: Magetutor/m1A_score_manuscript (MIT)

Status: code verified, 28 files readable, 15 matches

[266] Code ↔ Paper doi:10.1038/s42003-026-10485-5 [paper, repository]

Dopamine dynamics as a regulatory mechanism for shifting between defensive and reward-seeking behaviors.

Journal: Communications biology

Authors' code: itk2219/TSdopamine_behavior_photometry_optogenetics (no license)

Status: code verified, 3 files readable

[267] Code ↔ Paper doi:10.1038/s41467-026-75492-w [paper, repository]

Place and behavioral modulation of hippocampal neurons during immobility.

Journal: Nature communications

Authors' code: BurgalossiPublic/HP-BehModulation (no license)

Status: code verified, 19 files readable, 23 matches

[268] Code ↔ Paper doi:10.3390/ijms27156614 [paper, repository]

Candidalysin Inhibits <i>Porphyromonas gingivalis</i> Lipoprotein-Induced IL-1β Production in BV-2 Microglia via Hydrophobic Microbial Interactions.

Journal: International journal of molecular sciences

Authors' code: sokrypton/colabfold (MIT)

Status: code verified, 64 files readable, 2 matches

[269] doi:10.1016/j.omta.2026.201818 [paper]

Antisense oligonucleotide treatment following viral delivery of artificial SOD1-targeting miRNA shows improved efficacy in SOD1-G93A mice.

Journal: Molecular therapy. Advances

Status: code on request

[270] doi:10.3390/antiox15080921 [paper, data]

Pyrroloquinoline Quinone Improves Cognitive-Related Behavioral Performance Associated with Enhanced Mitochondrial Bioenergetics in Naturally Aged Mice.

Journal: Antioxidants (Basel, Switzerland)

Status: data only, 1 dataset cited

[271] Code ↔ Paper doi:10.3390/biomedicines14081670 [paper, repository]

Limited Detectability of Network Functional Alterations in a Tauopathy Model Using Mouse Primary Cortical Cultures.

Journal: Biomedicines

Authors' code: Zenodo 1119025 (MIT)

Status: code verified, 949 files readable, 3 matches

Thursday, 23 July 2026 (12 papers)

[272] doi:10.1083/jcb.202509110 [paper, data]

The missing link: Piccolino is essential for tethering synaptic vesicles to rod photoreceptor ribbons.

Journal: The Journal of cell biology

Status: data only, 1 dataset cited

[273] Code ↔ Paper doi:10.1172/jci.insight.207270 [paper, repository]

Progressive hypothalamic neuroinflammation in ovariectomized mice parallels aging-related transcriptomic changes in the female human hypothalamus.

Journal: JCI insight

Authors' code: jcbloom/hypo_menopauseNavarro (no license)

Status: code verified, 9 files readable, 6 matches

[274] Code ↔ Paper doi:10.1126/sciadv.aee6579 [paper, repository]

Dopamine D2 receptors bypass canonical signaling to directly tune NMDA receptor function and aversive learning.

Journal: Science advances

Authors' code: Zenodo 19076090 (MIT), fordlab/d2-glun2b-paper (MIT)

Status: code verified, 20 files readable, 1 match

[275] Code ↔ Paper doi:10.1038/s41467-026-74968-z [paper, repository]

Activity-dependent ribosome profiling reveals the landscape of canonical and non-canonical translation in brain tissue.

Journal: Nature communications

Authors' code: nayanvs/Suryawanshi_et_al._2026 (no license), Zenodo 21273040 (CC-BY-4.0)

Status: code verified, 6 files readable

[276] doi:10.1038/s41467-026-74958-1 [paper, data]

Acute rapamycin treatment reveals distinct mechanisms of dysfunction in a maternal inflammation mouse model.

Journal: Nature communications

Status: data only, 2 datasets cited

[277] Code ↔ Paper doi:10.1038/s41593-026-02354-5 [paper, repository]

Focal astrocyte loss reveals nuclear translocation during lesion repopulation.

Journal: Nature neuroscience

Authors' code: alasne-uzh/migratory-astrocytes-ST (no license), doi:10.17632/xw8fv8gt8f.1 (no license)

Status: code verified, 9 files readable, 6 matches

[278] Code ↔ Paper doi:10.1038/s41593-026-02362-5 [paper, repository]

Replay of procedural memory is independent of the hippocampus.

Journal: Nature neuroscience

Authors' code: SainsburyWellcomeCentre/BakingTray (LGPL-3.0), Zenodo 363160 (no license), lindermanlab/ppseq.jl (MIT), stephensonjoneslab/thompson_et_al_2026 (MIT)

Status: code verified, 404 files readable, 19 matches

[279] Code ↔ Paper doi:10.1093/braincomms/fcag239 [paper, repository]

Extracellular matrix remodelling in degenerative cervical myelopathy.

Journal: Brain communications

Authors' code: noahdavidpoulin/ECM-in-DCM (no license)

Status: code verified, 1 file readable

[280] Code ↔ Paper doi:10.1016/j.isci.2026.116906 [paper, repository]

Evaluating exon skipping in the central nervous system in Duchenne muscular dystrophy using spatial transcriptomics.

Journal: iScience

Authors' code: Qirongmao97/Xenium_DMD_brain (GPL-3.0)

Status: code verified, 12 files readable, 8 matches

[281] Code ↔ Paper doi:10.1038/s41467-026-75162-x [paper, repository]

Dyscoordination of thalamic reticular spindles is associated with social memory deficits in mice and humans with autism spectrum disorder.

Journal: Nature communications

Authors' code: Zenodo 20755328 (CC-BY-4.0)

Status: code verified, 5 files readable, 3 matches

[282] Code ↔ Paper doi:10.1038/s41467-026-75723-0 [paper, repository]

Spatial transcriptomics reveals distinct cell type dynamics following opioid dependence in female mice with the common human μ-opioid receptor variant Oprm1 A118G.

Journal: Nature communications

Authors' code: GoogleXie/CellDynamicST (other)

Status: code verified, 36 files readable, 40 matches

[283] Code ↔ Paper doi:10.1038/s41467-026-75837-5 [paper, repository]

A hierarchical framework for cortical and subcortical gray-matter parcellation across rodents, primates, and humans.

Journal: Nature communications

Authors' code: Zenodo 17653308 (MIT), sivaven/omniconnectmodel (MIT)

Status: code verified, 38 files readable, 22 matches

Wednesday, 22 July 2026 (6 papers)

[284] doi:10.1007/s12975-026-01471-4 [paper]

Loss of Vascular TMEM16A Impairs Cerebral Autoregulation and Exacerbates Ischemia-reperfusion Injury.

Journal: Translational stroke research

Status: code on request

[285] Code ↔ Paper doi:10.1073/pnas.2605466123 [paper, repository]

Parabrachial <i>Ntsr1</i> neurons modulate food intake and anxiety through a projection to the ventromedial hypothalamus.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: JLPauli/PBN-Ntsr1-Analysis (no license)

Status: code verified, 2 files readable

[286] doi:10.1016/j.xcrm.2026.102929 [paper]

Fatty-acid-based antimiR-23b delivery in the DMSXL model: A potential therapeutic strategy for brain dysfunction in myotonic dystrophy type 1.

Journal: Cell reports. Medicine

Status: code on request

[287] Code ↔ Paper doi:10.1038/s41593-026-02358-1 [paper, repository]

Cerebral venous blood flow regulates intracerebral pressure and brain clearance via meningeal lymphatic vessels.

Journal: Nature neuroscience

Authors' code: Zenodo 17453925 (no license)

Status: code verified, 1 file readable

[288] doi:10.1016/j.omtn.2026.103036 [paper]

NADPH oxidase 3 inhibition preserves hearing in mice after stereotactic radiosurgery.

Journal: Molecular therapy. Nucleic acids

Status: code on request

[289] Code ↔ Paper doi:10.1038/s41467-026-75444-4 [paper, repository]

Structural insights enable drug discovery for the neuronal NBCn2 carbonate transporter.

Journal: Nature communications

Authors' code: google-deepmind/alphafold3 (Apache-2.0), knk9596/SLC4A10_Modeling (no license)

Status: code verified, 137 files readable, 1 match

Tuesday, 21 July 2026 (9 papers)

[290] Code ↔ Paper doi:10.1016/j.ebiom.2026.106362 [paper, repository]

Neuron-derived neurotrophic factor-positive interneurons: a cellular target for anti-seizure therapies.

Journal: EBioMedicine

Authors' code: KullmannLab/pyecog2 (GPL-3.0)

Status: code verified, 70 files readable

[291] doi:10.1172/jci197345 [paper, data]

Catecholamine-mediated release of miR-133a-3p from adipocytes regulates the onset of chronic primary pain.

Journal: The Journal of clinical investigation

Status: data only, 1 dataset cited

[292] doi:10.1016/j.xpro.2026.104715 [paper]

Protocol for one-step design of a triple sgRNA-based CRISPR/Cas9 construct for neuronal gene knockout in the mouse brain.

Journal: STAR protocols

Status: code on request

[293] Code ↔ Paper doi:10.1038/s41467-026-75347-4 [paper, repository]

Sleep reveals dynamics integrating and segregating movement and stimulus representations in V1.

Journal: Nature communications

Authors' code: cortex-lab/phy (BSD-3-Clause), buzsakilab/buzcode (GPL-3.0), joao-semedo/communication-subspace (MIT), SjulsonLab/deOliveira_Kim_SleepV1_2026 (no license), Zenodo 20024211 (CC-BY-4.0)

Status: code verified, 2,360 files readable, 22 matches

[294] doi:10.1038/s44321-026-00491-9 [paper]

β-hydroxybutyrate restores social deficits by suppressing HDAC9 in the ACC of Shank3B-deficient mice.

Journal: EMBO molecular medicine

Status: data only

[295] doi:10.1016/j.isci.2026.116784 [paper, data]

Age-dependent axonal dysfunctions and altered sharp-wave ripple oscillations in <i>Scn1a</i> <sup><i>+/-</i></sup> mice.

Journal: iScience

Status: code on request, 1 dataset cited

[296] Code ↔ Paper doi:10.1016/j.isci.2026.116825 [paper, repository]

Social hierarchy shapes behavioral and transcriptional responses to chronic stress and ketamine in male mice.

Journal: iScience

Authors' code: LopezLab-KI/Behavioral_analysis_SB (no license), sgoldenlab/simba (BSD-3-Clause)

Status: code verified, 430 files readable, 4 matches

[297] Code ↔ Paper doi:10.1093/braincomms/fcag286 [paper, repository]

β-catenin deficiency in forebrain excitatory neurons induces fear memory deficits and physiological alterations.

Journal: Brain communications

Authors' code: doi:10.5061/dryad.kh18932pg (no license)

Status: code verified

[298] doi:10.1016/j.omtn.2026.103028 [paper]

Intranasal Tat-modified PEG-PCL nanomicelles delivering anti-RelA siRNA attenuate ischemia-reperfusion injury.

Journal: Molecular therapy. Nucleic acids

Status: code on request

Monday, 20 July 2026 (8 papers)

[299] Code ↔ Paper doi:10.1371/journal.pbio.3003915 [paper, repository]

Noise-invariant representations of sound emerge along the canonical cortical hierarchy.

Journal: PLoS biology

Authors' code: WilliamsonLab-Pitt/BackgroundNoise-Characterization (MIT), RichieHakim/ROICaT (GPL-3.0)

Status: code verified, 342 files readable, 9 matches

[300] Code ↔ Paper doi:10.1073/pnas.2614867123 [paper, repository]

Glucocorticoid receptors in oligodendrocyte precursor cells regulate hippocampal network plasticity and stress-induced behavior in mice.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: aAbdz/nodes-of-Ranvier (MIT)

Status: code verified, 2 files readable

[301] Code ↔ Paper doi:10.1038/s41467-026-74823-1 [paper, repository]

Cerebellar activity is triggered by reach endpoint during learning of a complex locomotor task.

Journal: Nature communications

Authors' code: mgraupe/LocoReach-analysis-2026 (gpl)

Status: code verified, 55 files readable, 23 matches

[302] Code ↔ Paper doi:10.1038/s41467-026-75244-w [paper, repository]

Neural dynamics of temporal interference stimulation monitoring by soft liquid metal interfaces across neural systems.

Journal: Nature communications

Authors' code: codeocean:2937886 (no license)

Status: code found, not verified yet

[303] Code ↔ Paper doi:10.1016/j.cpblue.2026.100072 [paper, repository]

NodoMap: A single-cell and spatial transcriptomic atlas of the mouse nodose ganglion.

Journal: Cell press blue

Authors' code: sc2470/NodoMap (MIT), Zenodo 20329018 (MIT)

Status: code verified, 72 files readable, 25 matches

[304] Code ↔ Paper doi:10.1016/j.isci.2026.116119 [paper, repository]

Distinctly structured social behavior across three rodent strains is associated with different neural activity patterns.

Journal: iScience

Authors' code: 98rishika/Mouse-rat_analysis (no license)

Status: code verified, 6 files readable, 1 match

[305] doi:10.3390/ijms27146442 [paper, data]

Phenotype-Specific Transcriptomic Responses to Glucocorticoid Signaling in the Prefrontal Cortex and Dorsal Raphe Nucleus Following Chronic Social Stress.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[306] Code ↔ Paper doi:10.1364/boe.605322 [paper, repository]

Generalized plaque digitization framework for multi-dimensional mesoscopic images.

Journal: Biomedical optics express

Authors' code: Brainsmatics/GPDigit (no license)

Status: code verified, 41 files readable, 6 matches

Saturday, 18 July 2026 (3 papers)

[307] Code ↔ Paper doi:10.1002/mrm.70514 [paper, repository]

Brain Clearance of Contrast Agent in Intravenous DCE-MRI Is Measurable and Cannot Be Explained by Clearance Across the BBB Alone.

Journal: Magnetic resonance in medicine

Authors' code: nimo-group/DCE-MRI-brain-clearance-2025 (no license)

Status: code verified, 6 files readable, 2 matches

[308] doi:10.1038/s41467-026-75697-z [paper, data]

Delayed astrocyte development impairs Sema6a-Plxna2/4-mediated astrocyte-neuron crosstalk and causes depressive-like behavior.

Journal: Nature communications

Status: data only, 1 dataset cited

[309] doi:10.3390/brainsci16070757 [paper, data]

Low-Intensity Focused Ultrasound Alters Alzheimer's Disease Pathology, In Vivo, as a Function of Ultrasound Dose and Age.

Journal: Brain sciences

Status: data only, 1 dataset cited

Friday, 17 July 2026 (7 papers)

[310] doi:10.3892/mmr.2026.13967 [paper, data]

Sedanolide alleviates LPS‑induced depressive‑like behaviors by modulating the C3a/C3aR signaling axis and microglial glycolysis.

Journal: Molecular medicine reports

Status: data only, 1 dataset cited

[311] doi:10.1126/sciadv.aed6825 [paper, data]

SORLA up-regulation suppresses pathological effects in aged tauopathy mouse brain.

Journal: Science advances

Status: data only, 1 dataset cited

[312] Code ↔ Paper doi:10.1126/sciadv.aec3961 [paper, repository]

Linking functional and structural dendritic spine remodeling during fear learning and extinction in vivo.

Journal: Science advances

Authors' code: Zenodo 20301802 (CC-BY-4.0), 4768/reversible_spine_model (no license)

Status: code verified, 543 files readable, 2 matches

[313] Code ↔ Paper doi:10.1038/s41467-026-74202-w [paper, repository]

Repetitive neuronal activation regulates cellular maturation state via nuclear reprogramming.

Journal: Nature communications

Authors' code: tmurano/REPeatedOPtogeneticStimulation (MIT), Zenodo 19904295 (MIT)

Status: code verified, 25 files readable, 2 matches

[314] doi:10.1038/s41467-026-75424-8 [paper, data]

Major urinary protein 1 modulates neuronal excitability in the medial prefrontal cortex in a male mouse model of affective empathy.

Journal: Nature communications

Status: data only, 2 datasets cited

[315] doi:10.1038/s41467-026-75726-x [paper, data]

Misregulation of T-box transcription factors drives BNP-NPR1 signalling underlying chronic itch.

Journal: Nature communications

Status: data only, 2 datasets cited

[316] Code ↔ Paper doi:10.1038/s41467-026-75650-0 [paper, repository]

Reduced melanocortin tone modulates feeding during pregnancy in mice.

Journal: Nature communications

Authors' code: SweeneyLab-UIUC/NCOMMS-25-67317A (no license)

Status: code verified, 17 files readable, 12 matches

Thursday, 16 July 2026 (8 papers)

[317] doi:10.1007/s12035-026-06058-6 [paper, data]

2-Phenyl-3-(Phenylselanyl)Benzofuran As a Promising Antidepressant Candidate: Mechanistic Insights Into Nitrergic Modulation and Subchronic Efficacy and Safety Profiling.

Journal: Molecular neurobiology

Status: data only, 1 dataset cited

[318] doi:10.1159/000553608 [paper, data]

The Mechanism of Carboxypeptidase E Regulating NLRP3 Inflammasome Signaling in the Pathogenesis of Depression-Like Behaviors in Mice.

Journal: Neuroimmunomodulation

Status: data only, 1 dataset cited

[319] Code ↔ Paper doi:10.1371/journal.pgen.1012242 [paper, repository]

Wiz regulates clustered protocadherin genes by restricting CTCF/cohesin loop extrusion in a genomic-distance biased manner.

Journal: PLoS genetics

Authors' code: ljw20180420/COP (MIT)

Status: code verified, 80 files readable, 14 matches

[320] doi:10.1016/j.stemcr.2026.103013 [paper]

Targeting mitotic kinesin KIF20A: A differentiation-based therapeutic strategy for glioblastoma stem/progenitor cells.

Journal: Stem cell reports

Status: code on request

[321] Code ↔ Paper doi:10.1016/j.stemcr.2026.103015 [paper, repository]

Brain injury reactivates a developmental program driving genesis and integration of transient LGE-class interneurons.

Journal: Stem cell reports

Authors' code: bunbunet (no license), mtvector/dev-and-evo-of-primate-inhibitory-neurons (no license)

Status: code verified, 40 files readable, 5 matches

[322] doi:10.1038/s41467-026-75367-0 [paper, data]

Heterogenous microglial reactivity contrasts with stable vascular transcriptional programs in mouse models of Alzheimer's, CADASIL, and Traumatic Brain Injury.

Journal: Nature communications

Status: data only, 1 dataset cited

[323] doi:10.1016/j.isci.2026.116843 [paper]

A<sub>3</sub> adenosine receptor regulates depression-like behaviors through astrocyte-nourished excitatory synapse formation.

Journal: iScience

Status: code on request

[324] doi:10.3390/antiox15070882 [paper, data]

<i>Lactobacillus reuteri</i> DSM 17938 and Its Supernatant Ameliorate Parkinson's Disease in Association with Modulation of Gut Microbiota and Its Tryptophan Metabolism.

Journal: Antioxidants (Basel, Switzerland)

Status: data only, 1 dataset cited

Wednesday, 15 July 2026 (7 papers)

[325] Code ↔ Paper doi:10.1007/s00429-026-03146-0 [paper, repository]

Efferent projections of topographically distinct relaxin family peptide receptor-3 (RXFP3) lateral hypothalamus/zona incerta cells.

Journal: Brain structure & function

Authors' code: BrandonKR1 (no license)

Status: code verified

[326] Code ↔ Paper doi:10.1073/pnas.2601657123 [paper, repository]

Mitofusin-2 in ventral striatal D1 neurons regulates effort-based motivation through sex-specific mitochondrial-synaptic reprogramming.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: figshare 32252133 (CC-BY-4.0)

Status: code verified, 2 files readable

[327] Code ↔ Paper doi:10.1126/sciadv.aee3529 [paper, repository]

Learning dynamically regulates stimulus discrimination of ventral striatal D1 receptor expressing neurons.

Journal: Science advances

Authors' code: Zenodo 19024141 (CC-BY-4.0)

Status: code verified, 6 files readable, 3 matches

[328] Code ↔ Paper doi:10.1038/s41386-026-02492-1 [paper, repository]

Proximity in mice induced by an auditory-conditioned stimulus.

Journal: Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology

Authors' code: wataruito/Codes_in_Threat-induced_proximity_Ito_et_al (no license)

Status: code verified, 3 files readable, 5 matches

[329] Code ↔ Paper doi:10.1038/s44319-026-00855-9 [paper, repository]

IRAK4 constrains cellular plasticity during chemically-induced cell fate reprogramming into multiple lineages.

Journal: EMBO reports

Authors' code: junjunlab/scRNAtoolVis (other)

Status: code verified, 15 files readable, 1 match

[330] Code ↔ Paper doi:10.1038/s41592-026-03154-2 [paper, repository]

Simultaneous single-cell calcium imaging of neuronal population activity and brain-wide BOLD fMRI.

Journal: Nature methods

Authors' code: rlemubaghs/camri (no license)

Status: code verified, 160 files readable, 11 matches

[331] doi:10.1016/j.isci.2026.116676 [paper]

Sleep differentially modulates synaptic vesicle protein 2A and spine density across cortical regions and development.

Journal: iScience

Status: code on request

Tuesday, 14 July 2026 (9 papers)

[332] Code ↔ Paper doi:10.7554/elife.108663 [paper, repository]

The Crunchometer, a low-cost, open-source acoustic analysis of feeding microstructure.

Journal: eLife

Authors' code: OSF bmkdc (no license), RanierLabNeurobiologyAppetite2026/TheCrunchometerPy (MIT), Zenodo 8422691 (other-open), Zenodo 8423311 (other-open), perezortegaj/moussionenergy (GPL-3.0), perezortegaj/xsembles2p (GPL-3.0)

Status: code verified, 298 files readable, 18 matches

[333] doi:10.1128/mbio.01294-26 [paper, data]

Single-cell analysis of Powassan virus-infected brains reveals age-dependent neuroinflammatory crosstalk and progressive Alzheimer's-like APP/Aβ accumulation.

Journal: mBio

Status: code on request, 1 dataset cited

[334] doi:10.1073/pnas.2537017123 [paper, data]

Distinct cell type-specific mechanisms underlie cognitive dysfunction during persistent integrated stress response activation.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Status: data only, 1 dataset cited

[335] Code ↔ Paper doi:10.1002/advs.202515913 [paper, repository]

Intravital Multimodal Imaging of Human Cortical Organoid Transplantation in a Mouse Model of Chronic Stroke.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Authors' code: liangy10/MIPOT (no license)

Status: empty repository, 1 file readable

[336] doi:10.1002/ame2.70252 [paper, data]

Single-cell atlas of neuroglial dynamics in SNCA-A53T Parkinson's disease mouse model.

Journal: Animal models and experimental medicine

Status: data only, 1 dataset cited

[337] doi:10.1038/s41467-026-75522-7 [paper, data]

High ambient temperature activates a neural circuit for gut glucose uptake in male mice.

Journal: Nature communications

Status: data only, 1 dataset cited

[338] Code ↔ Paper doi:10.1038/s41467-026-74959-0 [paper, repository]

Sensory nerve-derived signaling coordinates oropharyngeal structural organization that supports suckling and vocalization in neonatal mice.

Journal: Nature communications

Authors' code: Zenodo 20251696 (CC-BY-4.0), Zenodo 15085996 (CC-BY-4.0), chailabusc/code (no license)

Status: code verified, 14 files readable, 5 matches

[339] Code ↔ Paper doi:10.1038/s41593-026-02376-z [paper, repository]

A framework for comparative analysis of human and mouse cortical neuron dendrites in corresponding brain regions.

Journal: Nature neuroscience

Authors' code: vaa3d/vaa3d_tools (MIT), YunZhixi98/Mouse_Human_Comparison (MIT), Vaa3D (no license)

Status: code verified, 2,016 files readable, 7 matches

[340] Code ↔ Paper doi:10.3389/fnins.2026.1843319 [paper, repository]

Humanized APOE mouse brain volume increases over age irrespective of sex and APOE genotype: implications for translational validity to the human.

Journal: Frontiers in neuroscience

Authors' code: CoBrALab/minc-toolkit-extras (other), CoBrALab/optimized_antsMultivariateTemplateConstruction (other)

Status: code verified, 60 files readable, 3 matches

Monday, 13 July 2026 (9 papers)

[341] doi:10.1016/j.celrep.2026.117685 [paper]

Tanycyte BMAL1 regulates high-fat diet weight gain and shapes arcuate neurogenesis in female mice.

Journal: Cell reports

Status: code on request

[342] Code ↔ Paper doi:10.1016/j.celrep.2026.117646 [paper, repository]

Medial entorhinal-hippocampal desynchronization parallels the emergence of memory impairment in a mouse model of Alzheimer's disease pathology.

Journal: Cell reports

Authors' code: ZachPenn/CellCounting (no license), buzsakilab/buzcode (GPL-3.0), Zenodo 20314327 (GPL-3.0), shumanlab/vetere-et-al-2026-cell-reports (GPL-3.0)

Status: code verified, 2,220 files readable, 14 matches

[343] Code ↔ Paper doi:10.1016/j.celrep.2026.117670 [paper, repository]

Sustained AMPAR expression in CA3 neurons may mediate neuroprotection following FLASH-RT.

Journal: Cell reports

Authors' code: gitlab.unige.ch/lirr/nanostring_flash_mouse_brain (no license)

Status: dead link

[344] Code ↔ Paper doi:10.1371/journal.pbio.3003897 [paper, repository]

Meis1 isoform diversity orchestrates neural progenitor differentiation by regulating ATOH1 degradation at distinct subcellular compartments.

Journal: PLoS biology

Authors' code: Zenodo 20581171 (CC-BY-4.0), hoshino-lab/meis1-isoform-code (no license)

Status: code verified, 12 files readable, 5 matches

[345] Code ↔ Paper doi:10.1038/s41467-026-75371-4 [paper, repository]

Cerebellar neural populations orchestrate dopamine reward signaling with single-trial precision.

Journal: Nature communications

Authors' code: leomol/FPA (GPL-3.0), cnchi/HappyML (GPL-3.0), Zenodo 19331923 (CC-BY-4.0)

Status: code verified, 65 files readable, 4 matches

[346] Code ↔ Paper doi:10.1038/s42255-026-01555-3 [paper, repository]

The perineurium integrates leptin with its sympathetic outflow to protect against obesity.

Journal: Nature metabolism

Authors' code: automet26/Sympathetic_Perineurium_Leptin_Obesity (MIT)

Status: code verified, 23 files readable, 15 matches

[347] doi:10.1038/s43587-026-01154-7 [paper, data]

Spatial mapping and senolytic targeting of senescent and disease-associated microglia in aged mouse brain white matter.

Journal: Nature aging

Status: data only, 1 dataset cited

[348] doi:10.1186/s12935-026-04370-8 [paper]

Machine learning-based prognostic model and single-cell transcriptomic integration for identifying brain metastasis-associated malignant subpopulations and potential therapeutic targets in lung adenocarcinoma.

Journal: Cancer cell international

Status: data only

[349] doi:10.1186/s13020-026-01445-6 [paper, data]

Electroacupuncture enhances anti-tumor immunity in TNBC by reducing NE release and blocking α2-AR-mediated NGF/Hippo signaling.

Journal: Chinese medicine

Status: data only, 2 datasets cited

Sunday, 12 July 2026 (1 paper)

[350] doi:10.1093/braincomms/fcag268 [paper, data]

A single mild closed-head injury disrupts synaptic strength and promotes hippocampal hyperexcitability in mice.

Journal: Brain communications

Status: data only, 1 dataset cited

Friday, 10 July 2026 (13 papers)

[351] doi:10.1523/eneuro.0441-25.2026 [paper, data]

Adolescent Social Isolation Induces Persistent Impairments in Emotional Discrimination and Helping Behavior.

Journal: eNeuro

Status: data only, 1 dataset cited

[352] Code ↔ Paper doi:10.7554/elife.105774 [paper, repository]

Anterior cingulate cortex monitors action state and action content in complex associative learning.

Journal: eLife

Authors' code: figshare 32591976 (CC-BY-4.0)

Status: code verified

[353] doi:10.1080/17590914.2026.2696821 [paper, data]

Hijacking Sodium-Glucose Cotransporters: Fructose Drives Neuronal and Microglial Dysfunction.

Journal: ASN neuro

Status: data only, 1 dataset cited

[354] doi:10.1128/msystems.00149-26 [paper, data]

Effects of gut microbiota on the susceptibility of ischemic stroke in mice.

Journal: mSystems

Status: data only, 2 datasets cited

[355] doi:10.1371/journal.ppat.1014395 [paper, data]

Characterization of an immunocompetent, young adult mouse model for studying chikungunya virus neuroinvasion and central nervous system infection.

Journal: PLoS pathogens

Status: data only, 1 dataset cited

[356] doi:10.1371/journal.pone.0352693 [paper, data]

Loss of Fmr1 reorganizes the multi-elemental composition across tissues in Fragile X Syndrome mice.

Journal: PloS one

Status: data only, 1 dataset cited

[357] Code ↔ Paper doi:10.1126/sciadv.ady6498 [paper, repository]

A prolactin-receptive neural circuit drives maternal interactions with pups in mice.

Journal: Science advances

Authors' code: Zenodo 14254094 (GPL-3.0), Michael-Perkinson/NeuroSyncApp (GPL-3.0)

Status: code verified, 181 files readable

[358] Code ↔ Paper doi:10.1038/s41467-026-75275-3 [paper, repository]

Molecularly defined auditory neuron subtypes show different vulnerabilities to noise- and age-related synaptopathy in mice.

Journal: Nature communications

Authors' code: GoodrichLab/SynAnalyzer (MIT), Zenodo 20517243 (MIT)

Status: code verified, 8 files readable, 3 matches

[359] doi:10.1038/s41467-026-75340-x [paper, data]

A circuit linking dentate gyrus and retrosplenial granular cortex regulates fracture healing in male mice.

Journal: Nature communications

Status: data only, 1 dataset cited

[360] Code ↔ Paper doi:10.1038/s44318-026-00848-3 [paper, repository]

Mechanical constraints regulate embryonic stem cell mitosis in the developing brain.

Journal: The EMBO journal

Authors' code: Anne-SophieMACE/MitoticCellVolume_EB1cometAnalysis (MIT)

Status: empty repository, 1 file readable

[361] doi:10.1038/s44319-026-00858-6 [paper, data]

Ligand-independent EPHA2 signaling sustains neural progenitors via ECSIT and NAD<sup/>.

Journal: EMBO reports

Status: data only, 1 dataset cited

[362] doi:10.3390/foods15142451 [paper, data]

Camel Milk Alleviates Chronic Fatigue Syndrome-like Symptoms in Mice by Modulating the Small Intestinal Microbiota and Inflammation.

Journal: Foods (Basel, Switzerland)

Status: data only, 1 dataset cited

[363] doi:10.1016/j.apsb.2026.07.009 [paper, data]

Neutrophil-mediated BDNF delivery for the treatment of moderate to severe Alzheimer's disease.

Journal: Acta pharmaceutica Sinica. B

Status: data only, 1 dataset cited

Thursday, 9 July 2026 (7 papers)

[364] doi:10.1016/j.stemcr.2026.103012 [paper, data]

Identification of novel genes with enriched expression in human intermediate progenitors reveals a key role for CDKN3 in cortical development.

Journal: Stem cell reports

Status: code on request, 1 dataset cited

[365] doi:10.1038/s41467-026-74904-1 [paper, data]

FcγR- and CD9-dependent synapse-engulfing microglia in the thalamus drive cognitive impairment following cortical brain damage in mice.

Journal: Nature communications

Status: data only, 1 dataset cited

[366] doi:10.1038/s41467-026-74888-y [paper, data]

Engineered zwitterion-nanodelivery for precision targeting of brain metastases.

Journal: Nature communications

Status: data only, 1 dataset cited

[367] doi:10.1186/s40035-026-00563-3 [paper, data]

Protein kinase CK2α' as a dual modulator of neuroimmune signaling and synaptic dysfunction in tauopathy.

Journal: Translational neurodegeneration

Status: data only, 3 datasets cited

[368] doi:10.1093/pnasnexus/pgag239 [paper, data]

Ankyrin-B and ankyrin-G are required for synaptic integrity in the mouse outer retina.

Journal: PNAS nexus

Status: data only, 2 datasets cited

[369] doi:10.3389/fimmu.2026.1798798 [paper, data]

Mitochondrial microprotein MOCCI controls neuroinflammation by altering glial activation states.

Journal: Frontiers in immunology

Status: data only, 2 datasets cited

[370] doi:10.3390/nu18142234 [paper, data]

Neuroprotective Effects of Lycopene in Parkinson's Disease Mice: Potential Modulation of DAT/SLC6A3-Mediated Dopaminergic Pathway.

Journal: Nutrients

Status: data only, 1 dataset cited

Wednesday, 8 July 2026 (9 papers)

[371] Code ↔ Paper doi:10.1523/jneurosci.1594-25.2026 [paper, repository]

KIASORT: Knowledge-Integrated Automated Spike Sorting for Geometry-Free Neuron Tracking.

Journal: The Journal of neuroscience : the official journal of the Society for Neuroscience

Authors' code: kiasort.com (no license)

Status: code verified

[372] doi:10.7554/elife.110964 [paper, data]

Medial prefrontal cortex encodes but is not required to generate goal-directed actions under threat.

Journal: eLife

Status: data only, 1 dataset cited

[373] Code ↔ Paper doi:10.1038/s41386-026-02483-2 [paper, repository]

Long-term effects of adolescent risperidone treatment on the mouse cortex.

Journal: Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology

Authors' code: Hahn-BorgmannWinter/Adolescent_antipsychotics (no license)

Status: code verified, 2 files readable, 4 matches

[374] Code ↔ Paper doi:10.1038/s41586-026-10755-6 [paper, repository]

An intrinsic cytoskeletal oscillator establishes neuronal polarity.

Journal: Nature

Authors' code: Zenodo 20081075 (CC-BY-4.0), darkbreaker0/IJ_NeuriteGrowthScript (GPL-3.0), darkbreaker0/Arp3_neuronal_polarization_2026 (MIT)

Status: code verified, 103 files readable, 17 matches

[375] doi:10.1038/s41593-026-02348-3 [paper, data]

Microglial TDP-43 mediates myelin refinement and represses Tyrobp cryptic exon inclusion in mice.

Journal: Nature neuroscience

Status: data only, 1 dataset cited

[376] Code ↔ Paper doi:10.1186/s13073-026-01704-z [paper, repository]

Gene expression profiling enables refined parcellation of cortical layers in the heterogeneous human cerebral cortex.

Journal: Genome medicine

Authors' code: YanrongWei/GD-Ls (MIT), Zenodo 20199715 (MIT)

Status: code verified, 49 files readable, 19 matches

[377] doi:10.1186/s40035-026-00565-1 [paper, data]

Plant-derived mitochondria mitigate aging-related neurodegeneration by reprogramming microglial mitochondrial energy metabolism.

Journal: Translational neurodegeneration

Status: data only, 1 dataset cited

[378] Code ↔ Paper doi:10.1016/j.isci.2026.116355 [paper, repository]

Tera-MIND: Tera-scale mouse brain simulation via spatial mRNA-guided diffusion.

Journal: iScience

Authors' code: Zenodo 14826874 (MIT), CTPLab/Tera-MIND (MIT), musikisomorphie/tera-mind (no license)

Status: code verified, 41 files readable, 3 matches

[379] doi:10.3389/fimmu.2026.1845312 [paper, data]

Prenatal immune activation and adult Poly(I:C) re-challenge promote neuroimmune priming and AD-related behavioural, cellular and molecular alterations in wild-type mice.

Journal: Frontiers in immunology

Status: data only, 1 dataset cited

Tuesday, 7 July 2026 (4 papers)

[380] doi:10.1038/s41467-026-74782-7 [paper, data]

Anti-PD-1 plus anti-CTLA-4 blockade overcomes immune exclusion in NSCLC brain metastases by enhancing CD8&lt;sup&gt;+&lt;/sup&gt; T cell responses and promoting tertiary lymphoid structure formation.

Journal: Nature communications

Status: data only, 1 dataset cited

[381] doi:10.1038/s42003-026-10525-0 [paper, data]

Efficient and specific selection of high-affinity DNA aptamers targeting μ-opioid receptor via functional extracellular vesicles.

Journal: Communications biology

Status: data only, 2 datasets cited

[382] doi:10.1186/s12974-026-03951-8 [paper, data]

Forkhead box versus NF-κB hippocampal snRNA-seq profiles distinguish anti-Drebrin- and anti-GAD65-positive encephalitis.

Journal: Journal of neuroinflammation

Status: data only, 3 datasets cited

[383] doi:10.1016/j.isci.2026.116628 [paper]

Continuous flash suppression responses in mouse visual cortex: Stimulus laterality and anesthesia effects.

Journal: iScience

Status: code on request

Monday, 6 July 2026 (6 papers)

[384] Code ↔ Paper doi:10.7554/elife.107085 [paper, repository]

Activity-dependent CO&lt;sub&gt;2&lt;/sub&gt; production in the axon triggers opening of Connexin32 in the Schwann cell paranode.

Journal: eLife

Authors' code: supp:PMC13336771/elife-107085-code1.zip (no license), supp:PMC13336771/elife-107085-code2.zip (no license), supp:PMC13336771/elife-107085-code3.zip (no license)

Status: empty repository

[385] Code ↔ Paper doi:10.1371/journal.pcbi.1014424 [paper, repository]

Combinatorial multiomic analysis from a pedigree of Sox10Dom Hirschsprung mice identifies multiple high confidence candidate modifiers of Enteric Nervous System development.

Journal: PLoS computational biology

Authors' code: Zenodo 20671852 (CC-BY-4.0)

Status: code verified, 21 files readable, 20 matches

[386] Code ↔ Paper doi:10.1073/pnas.2511442123 [paper, repository]

Time-resolved morphological and transcriptomic characterization of early enteric neuron subtype emergence in chick.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: forge.univ-lyon1.fr/melis/castellani_lab (no license)

Status: code verified

[387] Code ↔ Paper doi:10.1038/s41467-026-74869-1 [paper, repository]

Complementary roles of cell-type-specific plasticity in shaping neocortical dynamics for learning action timing.

Journal: Nature communications

Authors' code: inagaki-lab/Majumder_et_al (no license), Zenodo 20314082 (CC-BY-4.0)

Status: code verified, 5 files readable, 3 matches

[388] doi:10.1177/0271678x261468891 [paper, data]

Endothelial estrogen receptor alpha (ESR1) regulates cerebral cavernous malformation pathogenesis via MEKK3-KLF signaling pathway.

Journal: Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism

Status: data only, 1 dataset cited

[389] doi:10.3389/fimmu.2026.1835359 [paper, data]

Perinatal morphine exposure induces chromatin and transcriptomic remodeling to alter immune and metabolic function.

Journal: Frontiers in immunology

Status: data only, 1 dataset cited

Saturday, 4 July 2026 (2 papers)

[390] Code ↔ Paper doi:10.1038/s41467-026-74822-2 [paper, repository]

A likelihood-based method for identifying replay from spike sequences.

Journal: Nature communications

Authors' code: figshare 31942599 (CC-BY-4.0)

Status: code verified, 14 files readable, 3 matches

[391] doi:10.3390/ijms27136020 [paper, data]

Investigating the Kidney-Gut-Brain Axis in CKD: Uremic Toxins and Brain Microhemorrhages.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

Friday, 3 July 2026 (7 papers)

[392] Code ↔ Paper doi:10.7554/elife.109240 [paper, repository]

Neural activity profiles reveal overlapping, intermingled subpopulations spanning area borders in mouse sensorimotor cortex.

Journal: eLife

Authors' code: kaufmanlab/SGK26-public (CC0-1.0)

Status: code verified, 132 files readable, 24 matches

[393] doi:10.1080/21505594.2026.2697518 [paper, data]

Encephalomyocarditis virus impairs the blood-brain barrier by degrading tight junction proteins via AKT3-dependent autophagic and apoptotic pathways.

Journal: Virulence

Status: data only, 1 dataset cited

[394] Code ↔ Paper doi:10.1126/sciadv.adx5109 [paper, repository]

Substance P regulates Tacr1 neurons, which control nitric oxide-mediated neurovascular coupling in the mouse cortex.

Journal: Science advances

Authors' code: Zenodo 10656014 (CC-BY-4.0), neuroimlabpitt/tacr1-paper2024_functions (no license)

Status: code verified, 298 files readable

[395] Code ↔ Paper doi:10.1126/sciadv.aed3610 [paper, repository]

Dexterous single sniffs for ethological active olfaction.

Journal: Science advances

Authors' code: Zenodo 17065558 (CC-BY-4.0)

Status: code verified, 14 files readable, 5 matches

[396] doi:10.1126/sciadv.aed8653 [paper, data]

Targeting astrocytic Dp71 attenuates BBB disruption after traumatic brain injury through WTAP-associated m&lt;sup&gt;6&lt;/sup&gt;A regulation of MMP2.

Journal: Science advances

Status: data only, 1 dataset cited

[397] doi:10.1038/s43587-026-01166-3 [paper, data]

Therapeutic targeting of the conserved region within the low-complexity domain of TDP-43 is neuroprotective and extends survival in amyotrophic lateral sclerosis mice.

Journal: Nature aging

Status: data only, 2 datasets cited

[398] doi:10.1038/s44319-026-00846-w [paper]

GATOR1 signaling defects promote astrocytic metabolic rewiring and excitatory neurotransmitter cycling.

Journal: EMBO reports

Status: data only

Thursday, 2 July 2026 (11 papers)

[399] Code ↔ Paper doi:10.1016/j.xpro.2026.104678 [paper, repository]

Protocol for longitudinal two-photon calcium imaging and holographic optogenetic manipulation to investigate memory in mice.

Journal: STAR protocols

Authors' code: Zenodo 16830880 (GPL-3.0), ariadneunsworth/findusn (GPL-3.0)

Status: code verified, 228 files readable, 2 matches

[400] Code ↔ Paper doi:10.1371/journal.pbio.3003831 [paper, repository]

Disinhibitory signaling enables flexible coding of top-down information in cortical networks.

Journal: PLoS biology

Authors' code: Zenodo 20148662 (CC-BY-4.0)

Status: code verified, 123 files readable, 20 matches

[401] Code ↔ Paper doi:10.1016/j.stemcr.2026.102997 [paper, repository]

BDNF regulates pituitary stem cell engagement toward precursor state.

Journal: Stem cell reports

Authors' code: jinworks/CellChat (GPL-3.0), alexdobin/STAR (MIT)

Status: code verified, 354 files readable, 6 matches

[402] Code ↔ Paper doi:10.1038/s12276-026-01764-6 [paper, repository]

Oligodendrocyte prosaposin restores subarachnoid haemorrhage-induced consciousness impairment.

Journal: Experimental & molecular medicine

Authors' code: Zenodo 15275572 (no license)

Status: dead link

[403] doi:10.1038/s44321-026-00473-x [paper, data]

OTUB1 non-canonically inhibits TAB2 ubiquitination to govern microglia-mediated neuroinflammation.

Journal: EMBO molecular medicine

Status: data only, 1 dataset cited

[404] Code ↔ Paper doi:10.3389/fncel.2026.1870679 [paper, repository]

Pharmacological activation of cGMP signaling promotes astrocyte remodeling and enrichment of perivascular GLUT1 in the murine retina.

Journal: Frontiers in cellular neuroscience

Authors' code: scikit-fmm/scikit-fmm (BSD-3-Clause)

Status: code verified, 25 files readable, 1 match

[405] doi:10.3389/fcell.2026.1809251 [paper, data]

Pbx1 and Pbx3 cooperatively regulate intermediate progenitor genesis and corticogenesis in the mouse neocortex.

Journal: Frontiers in cell and developmental biology

Status: data only, 3 datasets cited

[406] doi:10.3389/fnins.2026.1862571 [paper, data]

Integrated bulk, single-cell, and spatial transcriptomic analyses prioritize NOTCH1 as a candidate gene associated with neurovascular and immune-related alterations in Parkinson's disease.

Journal: Frontiers in neuroscience

Status: code on request, 1 dataset cited

[407] doi:10.3389/fimmu.2026.1775662 [paper, data]

&lt;i&gt;Blomia tropicalis&lt;/i&gt; allergens induce lung DNA methylation changes in neuroimmune genes in a mouse model of airway inflammation.

Journal: Frontiers in immunology

Status: data only, 1 dataset cited

[408] doi:10.3389/fmicb.2026.1765044 [paper, data]

Integrating serum pharmacology, network pharmacology, and molecular biology analysis to reveal the mechanisms of Baihe Dihuang decoction in treating Alzheimer's disease.

Journal: Frontiers in microbiology

Status: data only, 1 dataset cited

[409] doi:10.1016/j.isci.2026.116563 [paper]

Microglia and its P2RY12 receptors regulate seizure severity.

Journal: iScience

Status: code on request

Wednesday, 1 July 2026 (22 papers)

[410] Code ↔ Paper doi:10.1093/brain/awag080 [paper, repository]

Early glymphatic failure in AppNL-F knock-in mice is linked to parenchymal border macrophages loss.

Journal: Brain : a journal of neurology

Authors' code: kswanberg/osv (no license)

Status: code verified, 30 files readable, 2 matches

[411] doi:10.1093/neuonc/noag053 [paper, data]

ONC206 demonstrates potent antitumorigenic activity and is a potential novel therapeutic strategy for high-risk medulloblastoma.

Journal: Neuro-oncology

Status: data only, 1 dataset cited

[412] Code ↔ Paper doi:10.1158/0008-5472.can-25-4018 [paper, repository]

MIF-Induced CD74+ Microglia and Macrophages Promote Progression of Brain Metastasis and Are Clinically Relevant across Central Nervous System Disorders.

Journal: Cancer research

Authors' code: osvaldogc/nextpresso1.9.2 (CC-BY-NC-ND-4.0)

Status: code verified, 15 files readable, 1 match

[413] Code ↔ Paper doi:10.1093/neuonc/noag068 [paper, repository]

PTBP1 knockdown reprograms glioma stem cells into neuronal-like cells and suppresses tumorigenesis via the DUSP5-ERK1/2 signaling pathway.

Journal: Neuro-oncology

Authors' code: YuhaoMa522/Glioma-CellCounter (no license)

Status: code verified, 4 files readable

[414] doi:10.1093/neuonc/noag080 [paper, data]

Laser interstitial thermal therapy enhances bidirectional blood-brain barrier permeability in glioblastoma.

Journal: Neuro-oncology

Status: data only, 1 dataset cited

[415] Code ↔ Paper doi:10.1093/nar/gkag454 [paper, repository]

RegRegSEA: a web server for regulatory region set enrichment analysis of epigenomic data.

Journal: Nucleic acids research

Authors' code: CCB-SB/RegRegSEA (MIT), Zenodo 19731482 (MIT)

Status: code verified, 10 files readable, 2 matches

[416] Code ↔ Paper doi:10.1111/apha.70264 [paper, repository]

Clustering Properties of Neuronal Ryanodine Receptor 2 and Remodeling in the APP/PS1 Mouse Model of Alzheimer's Disease.

Journal: Acta physiologica (Oxford, England)

Authors' code: david_baddeley/python-microscopy (no license)

Status: dead link

[417] doi:10.1038/s41467-026-75063-z [paper, data]

Loss of Echs1 in neural stem and progenitor cells impairs neurogenesis via ER stress activation and lipid metabolic reprogramming.

Journal: Nature communications

Status: data only, 1 dataset cited

[418] Code ↔ Paper doi:10.1038/s41467-026-74834-y [paper, repository]

Voltage imaging of CA1 pyramidal cells and SST+ interneurons reveals stability and plasticity mechanisms of spatial firing.

Journal: Nature communications

Authors' code: yoavadamlab (no license)

Status: code verified

[419] Code ↔ Paper doi:10.1038/s41586-026-10641-1 [paper, repository]

Dual tumour-myeloid targeting of glioblastoma with GPNMB CAR-T cells.

Journal: Nature

Authors' code: NMikolajewicz/Savage-2026 (no license)

Status: code verified, 5 files readable, 5 matches

[420] Code ↔ Paper doi:10.1038/s41586-026-10671-9 [paper, repository]

Restoring cortical disinhibition improves Huntington's disease phenotypes.

Journal: Nature

Authors' code: Zenodo 20750675 (no license)

Status: dead link

[421] Code ↔ Paper doi:10.1038/s41586-026-10699-x [paper, repository]

Competing programs shape cortical sensorimotor-association axis development.

Journal: Nature

Authors' code: danjgale/surfplot (BSD-3-Clause), sestanlab/MIND (no license)

Status: code verified, 41 files readable, 8 matches

[422] doi:10.1186/s13073-026-01699-7 [paper, data]

De novo variants in NPTN cause a neurodevelopmental disorder with autism and neuroplastin-PMCA hypofunction.

Journal: Genome medicine

Status: data only, 1 dataset cited

[423] Code ↔ Paper doi:10.1111/jnc.70502 [paper, repository]

The Converging Effects of Different Categories of Antidepressants on the Brain: A Systematic Meta-Analysis of Public Transcriptional Profiling Data From the Hippocampus and Cortex.

Journal: Journal of neurochemistry

Authors' code: evageoghegan/AntidepressantMetaAnalysis (no license)

Status: code verified, 47 files readable, 22 matches

[424] Code ↔ Paper doi:10.1093/bioinformatics/btag220 [paper, repository]

Riemannian metric learning for alignment of spatial multiomics.

Journal: Bioinformatics (Oxford, England)

Authors' code: raphael-group/MGW (no license), Zenodo 20074368 (CC-BY-4.0)

Status: code verified, 6 files readable, 1 match

[425] Code ↔ Paper doi:10.1111/jcmm.71280 [paper, repository]

Rapamycin Partially Reverts Cavernoma Endothelial Cell Phenotype and, When Combined With Lapatinib, Ameliorates Chronic Lesions.

Journal: Journal of cellular and molecular medicine

Authors' code: dvidmd/GSE298723_Differential_Gene_Expression_Analysis_Garcia_Colomer_et_al (no license)

Status: code verified, 12 files readable, 2 matches

[426] doi:10.1167/iovs.67.8.32 [paper, data]

FLVCR2 Regulation of Intracellular Heme Modulates Vascular Tip/Stalk Specification During Retinal Angiogenesis.

Journal: Investigative ophthalmology & visual science

Status: data only, 1 dataset cited

[427] Code ↔ Paper doi:10.3389/fphar.2026.1813396 [paper, repository]

LTF promotes central nervous system leukemia progression via neutrophil serine proteases.

Journal: Frontiers in pharmacology

Authors' code: HuasongYu/GO_Gene_Search (no license)

Status: code verified, 2 files readable

[428] doi:10.1093/nar/gkag695 [paper, data]

Programmed repair of disease-causing UGA premature termination codons in mammalian brain.

Journal: Nucleic acids research

Status: data only, 1 dataset cited

[429] doi:10.1016/j.isci.2026.116650 [paper]

PTH-induced behavioral and metabolic alterations in mouse models of hyperparathyroidism.

Journal: iScience

Status: code on request

[430] Code ↔ Paper doi:10.1016/j.phro.2026.101056 [paper, repository]

Toward uncertainty-aware manual delineation of brain tumours using eye-tracking and image-derived features.

Journal: Physics and imaging in radiation oncology

Authors' code: gitlab.ethz.ch/bmdslab/publications/oncology/manual-segmentation-uncertainty-using-eyetracking (no license)

Status: code verified, 34 files readable, 7 matches

[431] doi:10.1117/1.nph.13.3.035008 [paper]

Metabolism and oxygen tension in Alzheimer's disease mouse model using two-photon FLIM-PLIM microscopy.

Journal: Neurophotonics

Status: code on request

Tuesday, 30 June 2026 (10 papers)

[432] Code ↔ Paper doi:10.1038/s41467-026-74779-2 [paper, repository]

TRPC4/TRPC5 are critical for neuronal modulation by transcranial focused ultrasound in retrosplenial cortex in male mice.

Journal: Nature communications

Authors' code: awnsjjj/TRPC4-TRPC5-are-critical-for-neuronal-modulation-by-tFUS-in-retrosplenial-cortex-in-male-mice (MIT), Zenodo 15128201 (CC-BY-4.0), codeocean:1809197 (no license)

Status: code verified, 4 files readable, 1 match

[433] doi:10.1128/jvi.00656-26 [paper, data]

Neurotropism and interferon-dominated immune responses in a mouse-adapted coxsackievirus A16 infection model.

Journal: Journal of virology

Status: data only, 1 dataset cited

[434] doi:10.1172/jci195639 [paper, data]

Therapeutic delivery of microRNAs discovered to target deregulated glioblastoma pathways inhibits tumor growth in mice.

Journal: The Journal of clinical investigation

Status: code on request, 1 dataset cited

[435] doi:10.1016/j.celrep.2026.117599 [paper]

Immunotherapy with B28, an antibody to Aβ oligomers, potently decreases amyloid plaques, microgliosis, and memory decline in APP knock-in mice.

Journal: Cell reports

Status: code on request

[436] Code ↔ Paper doi:10.1371/journal.ppat.1014315 [paper, repository]

A single Citrobacter rodentium infection in Pink1 knockout and wild-type mice leads to regional blood-brain-barrier perturbation and limited microglial activation without dopamine neuron axon terminal loss.

Journal: PLoS pathogens

Authors' code: liu-yikang/sherm-rodentskullstrip (GPL-3.0), louis-erictrudeau/trudeau-lab (MIT)

Status: code verified, 21 files readable, 5 matches

[437] Code ↔ Paper doi:10.1038/s41467-026-74227-1 [paper, repository]

Age-related changes in behavioural and neural variability in a decision-making task.

Journal: Nature communications

Authors' code: Fenying-Zang/Ageing_behavioral_and_neural_variability (MIT)

Status: code verified, 36 files readable, 16 matches

[438] doi:10.1038/s41598-026-56101-8 [paper, data]

Topological modeling of gene expression in the brain with Huntington's disease reveals selective disruption of co-expression network.

Journal: Scientific reports

Status: data only, 1 dataset cited

[439] doi:10.1038/s41467-026-74775-6 [paper, data]

Select microbial metabolites promote tau aggregation in a murine tauopathy model.

Journal: Nature communications

Status: data only, 2 datasets cited

[440] doi:10.1016/j.xpro.2026.104667 [paper, data]

Protocol for diffusion magnetic resonance imaging and tractography in ex vivo mouse models.

Journal: STAR protocols

Status: data only, 2 datasets cited

[441] doi:10.1016/j.isci.2026.116626 [paper, data]

Phospholipid flippases ATP8A1 and ATP8A2 regulate GABA&lt;sub&gt;A&lt;/sub&gt; receptor trafficking through distinct mechanisms in hippocampal neurons.

Journal: iScience

Status: code on request, 1 dataset cited

Monday, 29 June 2026 (5 papers)

[442] doi:10.1002/advs.76336 [paper, data]

Biodegradable Acoustic Targeting for Ultrasound-Supported Gene Therapy (BATUS) in Glioblastoma.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Status: data only, 1 dataset cited

[443] Code ↔ Paper doi:10.7554/elife.109717 [paper, repository]

Retrosplenial cortex enables context-dependent goal-directed sensorimotor transformation.

Journal: eLife

Authors' code: LSENS-BMI-EPFL/behavior_control (no license), LSENS-BMI-EPFL/NWB_converter (no license), LSENS-BMI-EPFL/Bech_Dard_process_NWB (no license), LSENS-BMI-EPFL/Bech_Dard_plot_figures (MIT), Zenodo 17424306 (CC-BY-4.0)

Status: code verified, 144 files readable, 21 matches

[444] Code ↔ Paper doi:10.1038/s41467-026-74976-z [paper, repository]

Real-time robust autofocus method enabling sustained intravital scanning light field imaging.

Journal: Nature communications

Authors' code: yuedi-wang/AFsLF (GPL-2.0), Zenodo 20695290 (GPL-2.0)

Status: code verified, 6 files readable

[445] Code ↔ Paper doi:10.1186/s13059-026-04177-w [paper, repository]

Genomic sequence evolution underlying human neocortical interareal diversification.

Journal: Genome biology

Authors' code: JCVenterInstitute/NSForest (CC-BY-4.0), yal054/snATACutils (MIT), FduZhuLab/spatial_and_snMultiome (MIT), Zenodo 20581795 (MIT)

Status: code verified, 227 files readable, 27 matches

[446] doi:10.1186/s13020-026-01446-5 [paper, data]

The IL-17A modulating astrocytic activity was associated with the electroacupuncture-mediated improvement of sensorimotor ability after stroke.

Journal: Chinese medicine

Status: data only, 4 datasets cited

Saturday, 27 June 2026 (5 papers)

[447] doi:10.1038/s41467-026-74819-x [paper, data]

The role of supraoptic hypothalamic arginine vasopressin neurons in aging-associated water balance and thermoregulatory deficits in male mice.

Journal: Nature communications

Status: data only, 1 dataset cited

[448] Code ↔ Paper doi:10.1038/s41467-026-74722-5 [paper, repository]

Covalent pan-TEAD inhibitors block YAP activity and demonstrate brain penetrance in a Hippo-dependent cancer model.

Journal: Nature communications

Authors' code: broadinstitute/cdsr_models (no license)

Status: code verified, 5 files readable, 2 matches

[449] doi:10.1038/s41419-026-09062-9 [paper]

Knockdown of endothelial Serpine1 improves stroke recovery by attenuating peri-infarct blood flow and blood-brain barrier disruption.

Journal: Cell death & disease

Status: code on request

[450] doi:10.1186/s12974-026-03910-3 [paper, data]

Hereditary spastic paraplegia (HSP) gene 11 (Spg11) attenuates lipid accumulation in myeloid cells and neuroinflammation in the midbrain without affecting α-synuclein pathology.

Journal: Journal of neuroinflammation

Status: data only, 1 dataset cited

[451] doi:10.3390/antiox15070807 [paper, data]

Betaine Attenuates Hyperhomocysteinemia-Induced Cognitive Impairment by Suppressing Oxidative Stress and Activating the PI3K/AKT/GSK-3β Pathway.

Journal: Antioxidants (Basel, Switzerland)

Status: data only, 1 dataset cited

Friday, 26 June 2026 (6 papers)

[452] Code ↔ Paper doi:10.1080/19490976.2026.2693397 [paper, repository]

Gut &lt;i&gt;Proteobacteria&lt;/i&gt; glycine metabolism regulates neuroplasticity, motivation, and reinstatement of cocaine self-administration in mice.

Journal: Gut microbes

Authors' code: mooredf22/quasispectral (no license)

Status: code verified, 2 files readable, 1 match

[453] doi:10.1002/advs.76340 [paper, data]

Molecular and Cellular Hallmarks of Age-Related Vestibular Hair Cell Degeneration.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Status: data only, 1 dataset cited

[454] Code ↔ Paper doi:10.1038/s41467-026-74817-z [paper, repository]

Early-Stage Corticostriatal Hyperactivity Impairs Cognitive Flexibility Alongside Striatal Cholinergic Dysfunction in an Alzheimer's Disease Model.

Journal: Nature communications

Authors' code: chen-ruifeng/ex-vivo-confocal (no license)

Status: code verified, 28 files readable

[455] doi:10.1038/s44321-026-00459-9 [paper, data]

Anle138b ameliorates pathological phenotypes in mouse and cellular models of Huntington's disease.

Journal: EMBO molecular medicine

Status: data only, 1 dataset cited

[456] doi:10.1186/s13024-026-00965-x [paper, data]

Early binding of anti-amyloid antibodies to CAA drives complement activation, inflammation and ARIA in mice.

Journal: Molecular neurodegeneration

Status: data only, 1 dataset cited

[457] Code ↔ Paper doi:10.1016/j.isci.2026.116498 [paper, repository]

The Tower Foraging Park: A paradigm for studying cognitive and motor processes underlying behavioral flexibility in freely moving mice.

Journal: iScience

Authors' code: robbe-neuroteam/TowerForagingPark_Hardware (other), robbe-neuroteam/TowerForagingPark_iScience_Figures (no license)

Status: code verified, 18 files readable, 14 matches

Thursday, 25 June 2026 (6 papers)

[458] doi:10.1016/j.jneumeth.2026.110839 [paper, data]

Methods for measuring neural activity during voluntary wheel running.

Journal: Journal of neuroscience methods

Status: data only, 1 dataset cited

[459] doi:10.1038/s41467-026-73802-w [paper, data]

Karyoptosis mediates cell death and neurodegeneration upon proteotoxic stress.

Journal: Nature communications

Status: data only, 12 datasets cited

[460] Code ↔ Paper doi:10.1038/s41467-026-74124-7 [paper, repository]

Glioma-intrinsic MAPK/ERK signaling promotes immunotherapy efficacy through T cell infiltration and interferon responses.

Journal: Nature communications

Authors' code: Zenodo 22040374 (MIT)

Status: code verified, 12 files readable, 1 match

[461] Code ↔ Paper doi:10.1186/s12967-026-08414-5 [paper, repository]

Integrative transcriptomic analysis identifies meningeal-hippocampal immune communication in Alzheimer's disease.

Journal: Journal of translational medicine

Authors' code: yccbio/ad (no license)

Status: empty repository

[462] doi:10.1186/s13059-026-04126-7 [paper, data]

Srr2-dependent SOX2 levels govern the chromatin and transcriptional landscape of adult neural stem cell fate decisions in mouse.

Journal: Genome biology

Status: data only, 3 datasets cited

[463] doi:10.3389/fcell.2026.1816627 [paper, data]

Integrative transcriptomic and proteomic profiling reveals altered thymocyte development and microenvironment remodeling during natural thymic atrophy.

Journal: Frontiers in cell and developmental biology

Status: data only, 1 dataset cited

Wednesday, 24 June 2026 (7 papers)

[464] doi:10.1038/s41398-026-04202-3 [paper]

Single-nucleus transcriptomic atlas of sexually dimorphic molecular responses to sub-chronic variable stress in the mouse hippocampus.

Journal: Translational psychiatry

Status: code on request

[465] Code ↔ Paper doi:10.1038/s41467-026-74768-5 [paper, repository]

Parallel cholinergic circuit in oculomotor nucleus to control eye movements and REM sleep.

Journal: Nature communications

Authors' code: codeocean:9306840 (no license), 18810386233/Parallel-circuit-in-oculomotor-nucleus-to-control-eye-movements-and-REM-sleep (MIT), codeocean:7736716 (no license)

Status: code verified, 10 files readable, 2 matches

[466] doi:10.1038/s41467-026-74814-2 [paper, data]

Structural mechanism of Necrocide 1 activation of human TRPM4 that triggers necrosis by sodium overload.

Journal: Nature communications

Status: data only, 2 datasets cited

[467] Code ↔ Paper doi:10.1038/s42003-026-10382-x [paper, repository]

ScQCenrich enables multi-metric quality control for single-cell RNA sequencing.

Journal: Communications biology

Authors' code: lemonlyy755/scQCenrich (other), Zenodo 20050798 (CC-BY-4.0)

Status: code verified, 62 files readable, 13 matches

[468] doi:10.1080/19490976.2026.2689121 [paper, data]

Microbiome-driven alterations in tryptophan metabolism contribute to behavioral comorbidities in the Muc2 knockout mouse model of chronic colitis.

Journal: Gut microbes

Status: data only, 1 dataset cited

[469] Code ↔ Paper doi:10.1186/s12916-026-05014-4 [paper, repository]

Targeting the posterior thalamic hub: hemispheric-specific encoding of pain-depression comorbidity after hemorrhagic stroke.

Journal: BMC medicine

Authors' code: demianw/tract_querier (BSD-3-Clause)

Status: code verified, 39 files readable

[470] Code ↔ Paper doi:10.3390/ijms27135713 [paper, repository]

Chronic Administration of Marinobufagenin in Mice Causes Hyperlocomotion and Decrease in Anxiety by Altering Monoamine Turnover Unaccompanied by Motor Deficits or Oxidative Stress.

Journal: International journal of molecular sciences

Authors' code: OSF 4rtsg (no license)

Status: code verified, 7 files readable, 10 matches

Tuesday, 23 June 2026 (11 papers)

[471] Code ↔ Paper doi:10.1038/s41467-026-74171-0 [paper, repository]

Cluster replicability in single-cell and single-nucleus atlases of the mouse brain.

Journal: Nature communications

Authors' code: gillislab/mouse_brain_cluster_replicability (MIT), Zenodo 19901057 (MIT)

Status: code verified, 52 files readable, 18 matches

[472] Code ↔ Paper doi:10.1161/jaha.125.046088 [paper, repository]

Systematic Identification of Therapeutic Targets and Repurposed Drugs for Stroke: From Genome Causal Analysis to Multilevel Validation.

Journal: Journal of the American Heart Association

Authors' code: AzumitoAsneuet112358/MR-Target-in-STROKE (no license)

Status: dead link

[473] Code ↔ Paper doi:10.1016/j.cell.2026.05.047 [paper, repository]

An emergent disease-associated motor neuron state precedes cell death in ALS.

Journal: Cell

Authors' code: omgautier/Gautier_Blum_2026 (no license)

Status: code verified, 14 files readable, 40 matches

[474] Code ↔ Paper doi:10.1038/s41467-026-74455-5 [paper, repository]

Neuron type-specific translatomes in dorsal hippocampus during early memory consolidation.

Journal: Nature communications

Authors' code: Oli-Mauricio/Oliveira_etal_2026 (no license)

Status: code verified, 5 files readable, 9 matches

[475] Code ↔ Paper doi:10.1038/s41467-026-74569-w [paper, repository]

Motor cortex directly excites the substantia nigra pars reticulata, the basal ganglia output nucleus.

Journal: Nature communications

Authors' code: wstho/brainblenda (GPL-3.0)

Status: code verified, 5 files readable

[476] doi:10.1186/s12936-026-05981-2 [paper, data]

Plasmodium-induced disruption of brain endothelial barrier integrity in vitro and in mice is prevented by inhibitors of farnesyltransferase.

Journal: Malaria journal

Status: data only, 1 dataset cited

[477] doi:10.1016/j.isci.2026.116478 [paper]

Deletion of Snap25 disrupts glial remodeling in aging mouse brain.

Journal: iScience

Status: code on request

[478] doi:10.1016/j.isci.2026.116484 [paper, data]

Molecular taxonomy and spatial organization define neuronal subtypes in the mouse inferior colliculus.

Journal: iScience

Status: code on request, 1 dataset cited

[479] doi:10.3389/fimmu.2026.1852083 [paper, data]

Astrocyte-derived HMGB1 compromises the integrity of the blood-brain barrier through the CaM/CaMKII/AQP4 pathway and the protective function of trifluoperazine.

Journal: Frontiers in immunology

Status: data only, 1 dataset cited

[480] doi:10.3389/fnins.2026.1849896 [paper, data]

Dynamic changes of gut microbiota during progression of three Alzheimer's disease mice models.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[481] Code ↔ Paper doi:10.1016/j.nbscr.2026.100149 [paper, repository]

Molecular correlates of sleep deprivation in the mouse brain identified by meta-analysis of microarray data.

Journal: Neurobiology of sleep and circadian rhythms

Authors' code: FHSProject139/FSH-Project-Notebooks-and-Files (no license), ohabdalla1/Dexras1_Behavioural_Sleep (MIT)

Status: code verified, 32 files readable

Monday, 22 June 2026 (8 papers)

[482] Code ↔ Paper doi:10.1242/dev.205342 [paper, repository]

Proteomic profile of hippocampal growth cones through early postnatal development.

Journal: Development (Cambridge, England)

Authors' code: Quattrocolo-Lab/krause-et-al-2026 (MIT), gaospecial/ggVennDiagram (GPL-3.0), mbojan/alluvial (other)

Status: code verified, 71 files readable, 13 matches

[483] Code ↔ Paper doi:10.7554/elife.107670 [paper, repository]

Paraventricular thalamus hyperactivity mediates stress-induced sensitization of unlearned fear but not stress-enhanced fear learning (SEFL).

Journal: eLife

Authors' code: kjnish/fiberphotometry (MIT)

Status: code verified, 2 files readable

[484] doi:10.1002/advs.202524167 [paper, data]

Lilrb4a Suppression Reprograms Microglia to Mitigate APOE4-Associated Amyloid Plaques and Cerebral Amyloid Angiopathy in Association With a PPAR-Linked Pro-Clearance State.

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Status: data only, 1 dataset cited

[485] doi:10.1038/s41419-026-09021-4 [paper, data]

ACLY alleviates cerebral ischemia/reperfusion injury by reducing oxidative stress and enhancing mitochondrial function via histone acetylation.

Journal: Cell death & disease

Status: data only, 1 dataset cited

[486] doi:10.1038/s41398-026-04214-z [paper]

Regulation of oligodendrocyte metabolism and myelination by acetyl-L-carnitine in a mouse model of post-weaning social isolation.

Journal: Translational psychiatry

Status: code on request

[487] Code ↔ Paper doi:10.1038/s41592-026-03111-z [paper, repository]

A cloud-based miniscope for neurosurveillance of brain health and disease in freely behaving animals.

Journal: Nature methods

Authors' code: codeocean:4182092 (no license)

Status: code found, not verified yet

[488] doi:10.1186/s13195-026-02121-5 [paper, data]

HDAC7 acts as an astrocytic mediator of Aβ pathology that directly engages IKK to drive astrocyte neurotoxicity and neurodegeneration in Alzheimer's disease.

Journal: Alzheimer's research & therapy

Status: data only, 1 dataset cited

[489] doi:10.1128/iai.00231-26 [paper, data]

Group B streptococcal membrane vesicles induce proinflammatory responses in neonatal meninges.

Journal: Infection and immunity

Status: data only, 1 dataset cited

Saturday, 20 June 2026 (8 papers)

[490] doi:10.1038/s41598-026-54533-w [paper, data]

Hyperlipidemia induces hippocampal inflammation and loss of vascularity and can be rescued by silencing RIPK1.

Journal: Scientific reports

Status: data only, 1 dataset cited

[491] Code ↔ Paper doi:10.1038/s44271-026-00485-w [paper, repository]

Auditory perceptual maps in humans and mice share common structures and predict perceptual decisions in discrimination learning.

Journal: Communications psychology

Authors' code: doi:10.12751/g-node.bgb999 (no license), g-node.org (no license)

Status: code verified

[492] doi:10.1186/s12929-026-01271-w [paper, data]

Lack of cortistatin drives neuroimmune and vascular dysfunction in brain ischemia.

Journal: Journal of biomedical science

Status: data only, 11 datasets cited

[493] doi:10.1002/ana.78283 [paper, data]

Gut-Brain Axis Modulation by Short-Chain Fatty Acids Exerts Disease-Modifying Effects in a Murine Model of Drug-Resistant Epilepsy.

Journal: Annals of neurology

Status: data only, 1 dataset cited

[494] Code ↔ Paper doi:10.1016/j.celrep.2026.117590 [paper, repository]

Impaired behavioral inhibition in Fmr1 KO mice is linked to disrupted visual cortex theta oscillations.

Journal: Cell reports

Authors' code: chubykin/V1-HPC-PFC-Behavior-Oscillations (no license), cortex-lab/allenCCF (no license)

Status: code verified, 91 files readable, 20 matches

[495] doi:10.1038/s41467-026-74712-7 [paper, data]

Trigger-day hCG effects on DNA methylation and neurodevelopment in ART offspring.

Journal: Nature communications

Status: data only, 2 datasets cited

[496] Code ↔ Paper doi:10.1038/s41467-026-74598-5 [paper, repository]

A synaptoid connectome differentiates tanycytic subpopulations and underlies neuroglial communication and neuroendocrine regulation.

Journal: Nature communications

Authors' code: umitozorhan/Tanybase (AGPL-3.0), Zenodo 19912027 (apgl-v3)

Status: code verified, 22 files readable, 4 matches

[497] Code ↔ Paper doi:10.1038/s41598-026-57519-w [paper, repository]

Automated segmentation of neurons and spinal cord structures in immunofluorescence images using SpineDL.

Journal: Scientific reports

Authors' code: biapy.readthedocs.io (no license), biapyx/biapy (MIT)

Status: code verified, 153 files readable, 6 matches