histology / microscopy

Modality: 229 papers with a page, 124 of them with their authors' code.

Saturday, 26 September 2026 (2 papers)

[1] Code ↔ Paper doi:10.1007/s00429-026-03166-w [paper, repository]

Autoencoders for unsupervised analysis of rat myeloarchitecture.

Journal: Brain structure & function

Authors' code: UEF-Multiscale-Imaging/AE-and-GMM-myelin-stained-tissue (MIT)

Status: code verified, 53 files readable, 6 matches

[2] 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

Thursday, 17 September 2026 (1 paper)

[3] doi:10.1038/s41467-026-77508-x [paper, data]

Structures of the volume-regulated anion channel LRRC8A/D in activating and inhibiting conditions.

Journal: Nature communications

Status: data only, 4 datasets cited

Wednesday, 16 September 2026 (2 papers)

[4] Code ↔ Paper doi:10.1002/advs.77822 [paper, repository]

Temporal Trajectories of the Tau Aggregate Interactome Reveal Stage-Specific Vulnerabilities in Alzheimer's Disease.

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

Authors' code: Zenodo 17990783 (MIT), dboeken/boeken_tau_aggregate_interactome (MIT)

Status: code verified, 19 files readable, 2 matches

[5] doi:10.1038/s41377-026-02416-0 [paper, data]

Gigavoxel-scale multiple-scattering-aware lensless holotomography.

Journal: Light, science & applications

Status: data only, 1 dataset cited

Tuesday, 15 September 2026 (1 paper)

[6] 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

Thursday, 10 September 2026 (1 paper)

[7] Code ↔ Paper doi:10.1371/journal.pbio.3003959 [paper, repository]

Recurrent synapses between CO2-sensitive olfactory sensory neurons enable robust CO2 detection in Aedes aegypti mosquitoes.

Journal: PLoS biology

Authors' code: htem/aedes_public (GPL-3.0), Zenodo 21403889 (GPL-3.0)

Status: code verified, 142 files readable, 4 matches

Tuesday, 8 September 2026 (3 papers)

[8] 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

[9] Code ↔ Paper doi:10.1093/braincomms/fcag323 [paper, repository]

Induced epileptic seizures in larval zebrafish reveal a synaptic modulation associated with the post-ictal state.

Journal: Brain communications

Authors' code: OSF sd5jy (no license)

Status: code verified, 24 files readable, 5 matches

[10] Code ↔ Paper doi:10.1007/s12021-026-09815-z [paper, repository]

BasNet: Attention U-Net-Based Automated Axon Segmentation in Bielschowsky Silver-Stained Histology.

Journal: Neuroinformatics

Authors' code: Zenodo 19455087 (MIT), lukasschoenenberger/basnet (MIT)

Status: code verified, 28 files readable, 15 matches

Friday, 4 September 2026 (1 paper)

[11] 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

Thursday, 3 September 2026 (3 papers)

[12] doi:10.1016/j.isci.2026.117380 [paper, data]

<i>N</i>-propargylputrescine as a minimal-tag probe for imaging putrescine dynamics in cellular homeostasis and stress.

Journal: iScience

Status: code on request, 1 dataset cited

[13] doi:10.1016/j.isci.2026.117343 [paper, data]

Zebrafish larvae reveal early neuropathology and host responses to nervous necrosis virus.

Journal: iScience

Status: data only, 2 datasets cited

[14] 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

Tuesday, 1 September 2026 (4 papers)

[15] Code ↔ Paper doi:10.1002/alz.71773 [paper, repository]

Brain-derived plasma p-tau217 shows enhanced dynamic range for Alzheimer's disease neuropathological change.

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

Authors' code: ysu001/PUP (BSD-3-Clause)

Status: code verified, 277 files readable, 1 match

[16] 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

[17] Code ↔ Paper doi:10.1093/neuonc/noag119 [paper, repository]

Single-nucleus profiling of postmortem diffuse midline gliomas identifies mitochondrial biogenesis as a resistance mechanism to imipridone therapy.

Journal: Neuro-oncology

Authors' code: CancerGenomicsLab/DMG_ONC201 (MIT)

Status: code verified, 9 files readable, 2 matches

[18] 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 (1 paper)

[19] doi:10.1038/s41597-026-08133-y [paper, data]

A neuroimaging atlas of the nigrosomes in the substantia nigra based on 3D histology.

Journal: Scientific data

Status: data only, 1 dataset cited

Friday, 28 August 2026 (2 papers)

[20] Code ↔ Paper doi:10.1038/s41598-026-61605-4 [paper, repository]

Learning precise segmentation of neurofibrillary tangles from rapid manual point annotations.

Journal: Scientific reports

Authors' code: keiserlab/tangle-tracer (MIT)

Status: code verified, 31 files readable, 16 matches

[21] Code ↔ Paper doi:10.1038/s41594-026-01866-9 [paper, repository]

Structural and mechanistic insights into gating and allosteric modulation of GluN1-GluN3A NMDA receptors.

Journal: Nature structural & molecular biology

Authors' code: Zenodo 8161179 (CC-BY-4.0)

Status: code verified, 2 files readable

Thursday, 27 August 2026 (3 papers)

[22] doi:10.1007/s10974-026-09738-x [paper, data]

Cloning and characterization of intermediate Homer1E of human skeletal muscle.

Journal: Journal of muscle research and cell motility

Status: data only, 1 dataset cited

[23] Code ↔ Paper doi:10.1038/s41588-026-02722-8 [paper, repository]

A multiancestry polygenic risk score for Alzheimer's disease is associated with cognitive decline and neuropathological hallmarks in diverse populations.

Journal: Nature genetics

Authors' code: nkurniansyah/PRSsum_Simple (no license), nkurniansyah/Alzheimer_PRS (no license), nkurniansyah (no license), Zenodo 20818015 (CC-BY-4.0)

Status: code verified, 16 files readable, 8 matches

[24] Code ↔ Paper doi:10.1016/j.xpro.2026.104802 [paper, repository]

Protocol for pH correction of FRET-based fluorescent biosensor imaging in dissociated Drosophila neurons.

Journal: STAR protocols

Authors' code: kvenkatachalam-lab/Price_and_Rastegari_2026 (no license), Zenodo 20649762 (CC-BY-4.0)

Status: code verified, 4 files readable

Wednesday, 26 August 2026 (3 papers)

[25] 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

[26] 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

[27] Code ↔ Paper doi:10.3389/fncom.2026.1862383 [paper, repository]

Microstructural spine alterations increase neuronal excitability in focal cortical dysplasia Type I.

Journal: Frontiers in computational neuroscience

Authors' code: jawonGim/Simulation_SpineAlterationFocalCorticalDysplasia (CC-BY-NC-4.0)

Status: code verified, 19 files readable, 3 matches

Tuesday, 25 August 2026 (1 paper)

[28] 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

Monday, 24 August 2026 (2 papers)

[29] 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

[30] doi:10.1002/ame2.70277 [paper]

A rhesus macaque model of α-dystroglycanopathy caused by a POMT1 splice altering variant.

Journal: Animal models and experimental medicine

Status: data only

Friday, 21 August 2026 (2 papers)

[31] doi:10.1007/s00401-026-03062-x [paper]

Genetic subtypes of multiple sclerosis severity are uncoupled from inflammatory lesion burden.

Journal: Acta neuropathologica

Status: code on request

[32] doi:10.3389/fcell.2026.1876873 [paper, data]

Multi-omics integration reveals TIM-4 as a master regulatory hub of neuroinflammation and neuronal cell death.

Journal: Frontiers in cell and developmental biology

Status: data only, 1 dataset cited

Thursday, 20 August 2026 (1 paper)

[33] 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

Tuesday, 18 August 2026 (1 paper)

[34] doi:10.1007/s10143-026-04450-3 [paper]

Sarcopenic obesity and cachexia as nutritional risk phenotypes and histology-specific outcomes after intracranial tumor resection: a histology-stratified NSQIP analysis of 27,057 cases.

Journal: Neurosurgical review

Status: code on request

Monday, 17 August 2026 (3 papers)

[35] doi:10.1186/s43556-026-00514-4 [paper, data]

Transcription-protein dissociation reveals disrupted cellular stress pathways in the prefrontal cortex of depression and schizophrenia subjects.

Journal: Molecular biomedicine

Status: data only, 1 dataset cited

[36] doi:10.1371/journal.pone.0355740 [paper, data]

A public generalizable AI tool for automated segmentation of coronal brain tissue slabs for 3D neuropathology.

Journal: PloS one

Status: data only, 1 dataset cited

[37] 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

Saturday, 15 August 2026 (1 paper)

[38] Code ↔ Paper doi:10.1038/s41467-026-76688-w [paper, repository]

Transcriptome profiling of human hypothalamic agouti-related protein and proopiomelanocortin neurons regulating energy homeostasis.

Journal: Nature communications

Authors' code: goczbalazs/PRJNA1305226_1305334 (no license)

Status: code verified, 5 files readable, 6 matches

Friday, 14 August 2026 (5 papers)

[39] Code ↔ Paper doi:10.1002/advs.77075 [paper, repository]

BraMARS: An Interpretable Histopathology-Driven Deep Learning Model for Brain Metastasis Risk Stratification in Surgically Resected Limited-Stage SCLC.

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

Authors' code: ZhoulabCPH/BraMARS (no license)

Status: code verified, 8 files readable, 3 matches

[40] 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

[41] Code ↔ Paper doi:10.1038/s41592-026-03179-7 [paper, repository]

Voltage imaging of neurons distributed across entire brains of larval zebrafish.

Journal: Nature methods

Authors' code: Zenodo 14920628 (CC-BY-4.0)

Status: code verified, 4 files readable, 1 match

[42] Code ↔ Paper doi:10.1016/j.isci.2026.117212 [paper, repository]

Critical neuronal avalanches arise from excitation-inhibition balanced spontaneous activity.

Journal: iScience

Authors' code: adrianponce/ExcInh_Neuronal_Avalanches (no license)

Status: code verified, 8 files readable, 8 matches

[43] 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

Thursday, 13 August 2026 (2 papers)

[44] Code ↔ Paper doi:10.1371/journal.pone.0355739 [paper, repository]

The effects of blast-induced traumatic brain injury on brain cellular mechanics and differentiation.

Journal: PloS one

Authors' code: kaggle.com/datasets/masudnabila (no license)

Status: dead link

[45] 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 (1 paper)

[46] Code ↔ Paper doi:10.1126/sciadv.aef9926 [paper, repository]

aDISCO: A clearing method to enable 3D microscopy of large archival paraffin-embedded human tissue blocks.

Journal: Science advances

Authors' code: ptrrupprecht/cell_detection (GPL-3.0), Zenodo 20443377 (GPL-3.0)

Status: code verified, 6 files readable, 3 matches

Tuesday, 11 August 2026 (3 papers)

[47] 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

[48] doi:10.1038/s41467-026-75877-x [paper, data]

Structure of NHE6 and its lipid-mediated interactions regulating endosomal pH.

Journal: Nature communications

Status: data only, 2 datasets cited

[49] doi:10.1038/s41467-026-76368-9 [paper, data]

Integrative structural analysis of human endosomal NHE6 reveals a lipid-associated gate and disordered C-terminus.

Journal: Nature communications

Status: data only, 5 datasets cited

Monday, 10 August 2026 (1 paper)

[50] doi:10.1002/ame2.70276 [paper, data]

The diagnostic value of the circadian rhythm gene KLF10 in anxiety-depressive disorders and its neuroimmune regulatory mechanisms.

Journal: Animal models and experimental medicine

Status: data only, 1 dataset cited

Friday, 7 August 2026 (2 papers)

[51] Code ↔ Paper doi:10.1016/j.xpro.2026.104766 [paper, repository]

Protocol for live-imaging of blood flow and vascular permeability in zebrafish larvae.

Journal: STAR protocols

Authors' code: Zenodo 14770236 (CC0-1.0), preethirajamannar/zebrafish-pituitary-blood-flow (CC0-1.0)

Status: code verified, 4 files readable

[52] Code ↔ Paper doi:10.3389/fnbeh.2026.1895371 [paper, repository]

Discrete and differentiated encoding of distinct components of spatial experience occurs within the proximodistal subfields of the dorsoventral axis of the hippocampus.

Journal: Frontiers in behavioral neuroscience

Authors' code: stardist/stardist (BSD-3-Clause)

Status: code verified, 59 files readable, 1 match

Thursday, 6 August 2026 (1 paper)

[53] 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

Wednesday, 5 August 2026 (3 papers)

[54] 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

[55] 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

[56] Code ↔ Paper doi:10.1016/j.isci.2026.117108 [paper, repository]

PVT inhibition mitigates neuropathology and cognitive deficits in chronic cerebral hypoperfusion.

Journal: iScience

Authors' code: SunLab-code/WGCNA-CCH-iScience (no license)

Status: code verified, 2 files readable, 1 match

Monday, 3 August 2026 (2 papers)

[57] 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

[58] doi:10.3390/ijms27156964 [paper, data]

Senescence Markers and Associated Transcriptomic Changes Are Expressed at Early Stages of Alzheimer's Neuropathology but Are Not Independently Related to Dementia.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

Saturday, 1 August 2026 (4 papers)

[59] 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

[60] Code ↔ Paper doi:10.1002/alz.71745 [paper, repository]

Regional astrocyte dysregulation and altered glymphatic-related markers in Alzheimer's disease frontal cortex.

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

Authors' code: xanthippilouka/Human_Brain_Image_Analysis (no license)

Status: code verified, 8 files readable, 2 matches

[61] Code ↔ Paper doi:10.1016/j.isci.2026.117010 [paper, repository]

Deep learning-assisted mapping of dendritic spines using sequential 2D two-photon calcium imaging.

Journal: iScience

Authors' code: dcupolillo/ROIpy (MIT), Zenodo 21334250 (MIT), dcupolillo/spyne (no license), Zenodo 21334656 (CC-BY-4.0), dcupolillo/calcium_event_classifier (no license), Zenodo 21334890 (CC-BY-4.0)

Status: code verified, 182 files readable, 21 matches

[62] 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

Wednesday, 29 July 2026 (3 papers)

[63] Code ↔ Paper doi:10.1038/s41467-026-76146-7 [paper, repository]

Resolving endogenous protein organization in cells with nanometer resolution.

Journal: Nature communications

Authors' code: Zenodo 21290042 (CC-BY-4.0)

Status: code verified

[64] doi:10.1038/s41467-026-75997-4 [paper, data]

Active conformations of neuronal Na<sup>+</sup>, K<sup>+</sup>-ATPase isoforms and a disease-causing mutant.

Journal: Nature communications

Status: data only, 2 datasets cited

[65] Code ↔ Paper doi:10.1093/braincomms/fcag264 [paper, repository]

Elevated intron retention implicates neuroinflammation in brains of individuals with alcohol use disorder.

Journal: Brain communications

Authors' code: cpdong/IntronNeoantigen (no license)

Status: code verified, 5 files readable, 1 match

Monday, 27 July 2026 (2 papers)

[66] Code ↔ Paper doi:10.1038/s41467-026-75749-4 [paper, repository]

SLC26A11 is an atypical solute carrier with dual transport-channel function mediating lysosomal sulfate transport.

Journal: Nature communications

Authors' code: jugit.fz-juelich.de/computational-neurophysiology/slc26a11-ion-binding (no license)

Status: code verified

[67] doi:10.1038/s41467-026-75941-6 [paper, data]

Structural and functional studies of inward rectifier Kir7.1 and its regulation by the Melanocortin-4 receptor.

Journal: Nature communications

Status: data only, 2 datasets cited

Thursday, 23 July 2026 (2 papers)

[68] Code ↔ Paper doi:10.1111/joa.70213 [paper, repository]

Multiscale analysis of the adult human superior hypogastric plexus and hypogastric nerve.

Journal: Journal of anatomy

Authors' code: alicia-ziying-yang/syglass-multichannel-io-utils (CC-BY-NC-4.0)

Status: code verified, 4 files readable

[69] 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

Wednesday, 22 July 2026 (5 papers)

[70] doi:10.1186/s40478-026-02382-z [paper, data]

Methylation profiling and alternative classification approaches in a glioma-enriched FFPE stereotaxic biopsy cohort.

Journal: Acta neuropathologica communications

Status: data only, 1 dataset cited

[71] Code ↔ Paper doi:10.3390/antiox15070908 [paper, repository]

Convergent Lower Expression of Redox-Linked Stress-Adaptation and Synaptic-Plasticity Genes in Major Depressive Disorder Across Seven Postmortem dlPFC Cohorts.

Journal: Antioxidants (Basel, Switzerland)

Authors' code: OSF 8bfrs (no license)

Status: empty repository

[72] 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

[73] doi:10.1038/s41467-026-75895-9 [paper, data]

Distinct Filament Conformation for Receptor-Bound Amyloid-β from Alzheimer's Disease Brain.

Journal: Nature communications

Status: data only, 6 datasets cited

[74] Code ↔ Paper doi:10.1038/s41467-026-75806-y [paper, repository]

Cryo-EM insights into isoform-specific properties of the IP<sub>3</sub>R2 channel.

Journal: Nature communications

Authors' code: mlbaker-uth/pyHole (GPL-3.0)

Status: code verified, 17 files readable, 2 matches

Friday, 17 July 2026 (3 papers)

[75] Code ↔ Paper doi:10.1371/journal.pone.0353790 [paper, repository]

Do common dopaminergic variants modulate processing speed in cognitive aging? A longitudinal candidate gene study.

Journal: PloS one

Authors' code: supp:PMC13379125/pone.0353790.s022.zip (no license)

Status: code verified, 14 files readable, 20 matches

[76] 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

[77] doi:10.3390/ijms27146373 [paper, data]

Morphological Changes in the Rat Brain in the Early Post-Resuscitation Period: The Relationship Between Hypoxia-Sensitive Immunohistochemical Markers, Hemodynamic and Acid-Base Status.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

Thursday, 16 July 2026 (4 papers)

[78] 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

[79] doi:10.1038/s41467-026-75564-x [paper, data]

Cooperative mechanism of neurotransmitter recognition and transport by the human vesicular polyamine transporter.

Journal: Nature communications

Status: data only, 1 dataset cited

[80] doi:10.1038/s41594-026-01845-0 [paper, data]

Conformational plasticity of human acid-sensing ion channel 1a.

Journal: Nature structural & molecular biology

Status: data only, 2 datasets cited

[81] doi:10.3390/ijms27146326 [paper]

Increased Cannabinoid Receptor 1-Immunopositive Perisomatic Input of Principal Cells in Human Epileptic Patients in Focal Cortical Dysplasia Type IIB.

Journal: International journal of molecular sciences

Status: code on request

Wednesday, 15 July 2026 (1 paper)

[82] 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 (2 papers)

[83] 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

[84] Code ↔ Paper doi:10.1162/imag.a.1279 [paper, repository]

Multimodal laminar characterization of visual areas along the cortical hierarchy.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: 27-apizzuti/multimodal_layers (no license), 27-apizzuti/meso_motionquartet (no license), ofgulban/segmentator (BSD-3-Clause), figshare 26045911 (CC-BY-4.0)

Status: code verified, 236 files readable, 14 matches

Monday, 13 July 2026 (2 papers)

[85] 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

[86] Code ↔ Paper doi:10.1093/braincomms/fcag272 [paper, repository]

Strenuous physical activity is associated with a younger age of amyotrophic lateral sclerosis onset in two independent cohorts.

Journal: Brain communications

Authors' code: Zenodo 18508813 (CC-BY-4.0)

Status: code verified, 2 files readable, 6 matches

Sunday, 12 July 2026 (1 paper)

[87] 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

Thursday, 9 July 2026 (1 paper)

[88] 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

Wednesday, 8 July 2026 (1 paper)

[89] Code ↔ Paper doi:10.1007/s00401-026-03039-w [paper, repository]

Correlative ultrastructural mapping of Lewy pathology reveals regional diversity in Parkinson's and dementia with Lewy bodies.

Journal: Acta neuropathologica

Authors' code: LBEM-CH/mitoanalyzer (GPL-3.0)

Status: code verified, 5 files readable

Tuesday, 7 July 2026 (2 papers)

[90] doi:10.1038/s41467-026-75306-z [paper, data]

Substrate recognition and transport mechanism of the human proton-coupled amino-acid transporter 1 (SLC36A1).

Journal: Nature communications

Status: data only, 5 datasets cited

[91] doi:10.1038/s41598-026-60250-1 [paper, data]

Method for AFM investigation of lateral forces required for the surface detachment of neurites.

Journal: Scientific reports

Status: data only, 1 dataset cited

Monday, 6 July 2026 (1 paper)

[92] Code ↔ Paper doi:10.1021/acscentsci.6c00422 [paper, repository]

Multimodal FRACTAL-MSI and Image Fusion Improves Detection and Resolution of Biomolecule Imaging.

Journal: ACS central science

Authors' code: davepbish/FRACTAL-MSI (MIT)

Status: code verified, 4 files readable

Friday, 3 July 2026 (2 papers)

[93] Code ↔ Paper doi:10.1111/joa.70203 [paper, repository]

Two-step workflow integrating automatic registration and manual refinement for the accurate alignment of serial histological sections in 3D reconstruction.

Journal: Journal of anatomy

Authors' code: SatoruMuro/AlignRef (Apache-2.0), SatoruMuro/SAM2GUIfor3Drecon (Apache-2.0)

Status: code verified, 135 files readable, 1 match

[94] Code ↔ Paper doi:10.1016/j.xpro.2026.104675 [paper, repository]

Protocol for semi-automatic quantitative bioimaging analysis of synapse loss.

Journal: STAR protocols

Authors' code: ekatrukha/ComDet (GPL-3.0), neuroagingandAD/Synapsepunctaanalysis (no license)

Status: code verified, 21 files readable, 2 matches

Thursday, 2 July 2026 (2 papers)

[95] 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

[96] 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

Wednesday, 1 July 2026 (9 papers)

[97] doi:10.1007/s00401-026-03050-1 [paper]

Molecular changes during AT/RT progression associated with epithelial-mesenchymal transition and extracellular matrix changes.

Journal: Acta neuropathologica

Status: data only

[98] Code ↔ Paper doi:10.1167/iovs.67.8.9 [paper, repository]

Müller Glia-Exclusive CLRN1 Expression Drives Non-Cell-Autonomous Photoreceptor Degeneration in Usher Syndrome Type 3A.

Journal: Investigative ophthalmology & visual science

Authors' code: doyang-um/CLRN1_snRNAseq_10M (MIT)

Status: code verified, 16 files readable, 11 matches

[99] doi:10.1111/jne.70230 [paper, data]

Single-nuclei RNA sequencing reveals heterogeneity within developing GnRH3 neurons in zebrafish.

Journal: Journal of neuroendocrinology

Status: data only, 1 dataset cited

[100] doi:10.1002/2056-4538.70106 [paper]

Mechanosensitive TRPV4 immunohistochemistry improves deep learning-based classification of ductal carcinoma in situ beyond H&E morphology.

Journal: The journal of pathology. Clinical research

Status: code on request

[101] Code ↔ Paper doi:10.1002/alz.71649 [paper, repository]

Postmortem brain MRI reveals differential associations of subcortical and limbic volumes with cortical thinning and neurodegenerative pathologies.

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

Authors' code: Pulkit-Khandelwal/purple-mri (no license), Pulkit-Khandelwal/postmortem-subcortical-limbic-pathologies (no license)

Status: code verified, 74 files readable, 11 matches

[102] doi:10.1002/cne.70184 [paper, data]

The Neural Distribution of Vasotocin, Oxytocin, Dopamine, and Serotonin in Two Australian Skinks With Contrasting Social Lives.

Journal: The Journal of comparative neurology

Status: data only, 1 dataset cited

[103] Code ↔ Paper doi:10.1117/1.nph.13.3.035007 [paper, repository]

Analytical model enabling the correction of absorption and scattering in dual-color ratiometric multiphoton microscopy of brain tissue.

Journal: Neurophotonics

Authors' code: laboratory-charpak/Multiphoton-Ratiometric-Measurements-Model (MIT)

Status: code verified, 21 files readable

[104] Code ↔ Paper doi:10.1117/1.bios.3.3.035001 [paper, repository]

Transient infrared laser exposure modulates calcium activity in cortical dendritic spines.

Journal: Biophotonics discovery

Authors' code: PanPandaPan615/Photothermal-Spine-Activity (no license)

Status: code verified, 7 files readable, 8 matches

[105] 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

Monday, 29 June 2026 (4 papers)

[106] Code ↔ Paper doi:10.1371/journal.pgen.1012170 [paper, repository]

Genome wide association study meta-analysis of neuropathologic lesions of Alzheimer's disease and related dementias in a multi-site autopsy cohort.

Journal: PLoS genetics

Authors' code: beecham-lab/ADRD-Neuropathology-Scripts (MIT)

Status: code verified, 61 files readable, 4 matches

[107] Code ↔ Paper doi:10.1073/pnas.2604111123 [paper, repository]

Multiscale characterization of the human claustrum from histology to MRI.

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

Authors' code: navonacalarco/Claustrum (CC-BY-4.0)

Status: code verified, 5 files readable, 2 matches

[108] 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

[109] doi:10.17879/freeneuropathology-2026-9593 [paper, data]

Expansion microscopy of banked brain tissue.

Journal: Free neuropathology

Status: data only, 3 datasets cited

Thursday, 25 June 2026 (2 papers)

[110] Code ↔ Paper doi:10.1016/j.xpro.2026.104659 [paper, repository]

Protocol for simultaneous in vivo two-photon imaging and locomotion quantification during olfactory stimulation and pharmacology in walking Drosophila.

Journal: STAR protocols

Authors' code: SunLabWestlake/cia (no license)

Status: code verified, 9 files readable, 2 matches

[111] 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 (1 paper)

[112] 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

Tuesday, 23 June 2026 (1 paper)

[113] Code ↔ Paper doi:10.1021/acsphotonics.5c02836 [paper, repository]

A Dispersive Image Scanning Microscope for Multi-color High-resolution Imaging.

Journal: ACS photonics

Authors' code: ebensteinLab/SPECIALS (MIT), ebensteinLab (no license)

Status: code verified, 16 files readable, 1 match

Sunday, 21 June 2026 (1 paper)

[114] Code ↔ Paper doi:10.1038/s41398-026-04200-5 [paper, repository]

Postmortem brain single-nucleus and bulk gene expression analyses identify shared and distinct abnormalities in bipolar disorder and major depressive disorder.

Journal: Translational psychiatry

Authors' code: PsychiatKobeUniv-singlecell/Code_brain_mood_disorders (no license)

Status: code verified, 22 files readable, 7 matches

Saturday, 20 June 2026 (3 papers)

[115] 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

[116] doi:10.1038/s41598-026-59183-6 [paper, data]

Neuron-specific expression of transmembrane protein 130 (TMEM130).

Journal: Scientific reports

Status: data only, 1 dataset cited

[117] Code ↔ Paper doi:10.21769/bioprotoc.5591 [paper, repository]

Using Combined Fluorescent In Situ Hybridization With Immunohistochemistry to Co-localize mRNA in Diverse Neuronal Cell Types.

Journal: Bio-protocol

Authors' code: mkb142-art/Image-J-Macro-code-for-analyzing-mRNA-and-IHC-co-localization (no license)

Status: empty repository

Thursday, 18 June 2026 (1 paper)

[118] doi:10.1371/journal.ppat.1014314 [paper, data]

Chemo-omic pipeline enables discovery of prion synaptotoxic pathways and inhibitory drugs.

Journal: PLoS pathogens

Status: data only, 1 dataset cited

Tuesday, 16 June 2026 (1 paper)

[119] Code ↔ Paper doi:10.1186/s13073-026-01698-8 [paper, repository]

From aging to Alzheimer's disease: concordant brain DNA methylation changes in late life.

Journal: Genome medicine

Authors' code: TransBioInfoLab/AD-aging-brain-samples-analysis (MIT)

Status: code verified, 35 files readable, 13 matches

Monday, 15 June 2026 (3 papers)

[120] doi:10.1007/s00401-026-03035-0 [paper]

Expression of GPR34 in microglia remains stable in human Alzheimer's disease.

Journal: Acta neuropathologica

Status: code on request

[121] Code ↔ Paper doi:10.1371/journal.pone.0351431 [paper, repository]

Revisiting the role of structural connectivity-based parcellation in thalamic nuclei segmentation: Benchmarking against recent state-of-the-art methods.

Journal: PloS one

Authors' code: Zenodo 20473971 (CC-BY-4.0)

Status: code verified, 3 files readable, 2 matches

[122] doi:10.1038/s41467-026-74279-3 [paper, data]

Structural basis for activation and potentiation in a human α5β3 GABA<sub>A</sub> receptor.

Journal: Nature communications

Status: data only, 7 datasets cited

Friday, 12 June 2026 (1 paper)

[123] doi:10.3389/fgene.2026.1818975 [paper, data]

Clock-related neuropeptides in <i>Acyrthosiphon pisum</i>.

Journal: Frontiers in genetics

Status: data only, 1 dataset cited

Thursday, 11 June 2026 (1 paper)

[124] Code ↔ Paper doi:10.1038/s41467-026-74231-5 [paper, repository]

Threat intensity shapes cortical engram architecture supporting remote memory retrieval.

Journal: Nature communications

Authors' code: AllenInstitute/MIES (BSD-2-Clause), PantheaNemat/Mitric-Beerens_etal_2026_Nat.Commun (no license), Zenodo 19483826 (CC-BY-4.0), pantheanemat/mitric-beerens_etal_2026_nat.commun. (no license)

Status: code verified, 52 files readable, 3 matches

Tuesday, 9 June 2026 (1 paper)

[125] doi:10.1038/s41592-026-03125-7 [paper]

Simultaneous two- and three-photon multiplane imaging across cortical layers in freely moving mice.

Journal: Nature methods

Status: code on request

Saturday, 6 June 2026 (1 paper)

[126] Code ↔ Paper doi:10.1038/s41467-026-74087-9 [paper, repository]

Cryo-EM structures of heteromeric Kir4.1/5.1 channel suggest mechanisms of inward rectification and channel blockage.

Journal: Nature communications

Authors' code: Zenodo 20374687 (CC-BY-4.0)

Status: code verified

Friday, 5 June 2026 (3 papers)

[127] Code ↔ Paper doi:10.1016/j.crmeth.2026.101476 [paper, repository]

Unsupervised deep learning enables blur-free resolution enhancement in two-photon microscopy.

Journal: Cell reports methods

Authors' code: HaLU-9000/TENET (no license), Zenodo 19663648 (CC-BY-4.0)

Status: code verified, 47 files readable, 5 matches

[128] Code ↔ Paper doi:10.1038/s41467-026-73858-8 [paper, repository]

A pegivirus associated with encephalitis in red-legged partridges shows neurotropism across avian species.

Journal: Nature communications

Authors' code: nicola-palmieri/TableAnalyzer (MIT), Zenodo 19233119 (CC-BY-4.0)

Status: code verified, 114 files readable

[129] Code ↔ Paper doi:10.1016/j.bpj.2026.06.005 [paper, repository]

Curvature-based machine-learning method for automated segmentation of dendritic spines.

Journal: Biophysical journal

Authors' code: aka-gera/curvature-based-machine-learning-for-automated-segmentation-of-dendritic-spines (no license), Zenodo 19593999 (CC-BY-4.0)

Status: code verified, 47 files readable, 7 matches

Thursday, 4 June 2026 (2 papers)

[130] doi:10.1111/joa.70183 [paper, data]

The MacBrain Resource Center (MBRC) rhesus macaque postnatal brain histology datasets: Enabling new discoveries through NHP tissue and digital data Repositories.

Journal: Journal of anatomy

Status: data only, 1 dataset cited

[131] Code ↔ Paper doi:10.1016/j.celrep.2026.117500 [paper, repository]

Spatio-molecular gene expression reflects dorsal anterior cingulate cortex structure and function in the human brain.

Journal: Cell reports

Authors' code: LieberInstitute/spatialdACC (no license), Zenodo 15830481 (CC-BY-4.0), research.libd.org/globus (no license)

Status: code verified, 2,000 files readable, 40 matches

Wednesday, 3 June 2026 (2 papers)

[132] Code ↔ Paper doi:10.1177/13872877261453512 [paper, repository]

Fluorescence spectroscopy and machine learning methods for detection of Alzheimer's disease from circulating white blood cells.

Journal: Journal of Alzheimer's disease : JAD

Authors' code: Zenodo 18217440 (CC-BY-4.0)

Status: code verified, 1 file readable, 4 matches

[133] Code ↔ Paper doi:10.3389/fendo.2026.1828487 [paper, repository]

Castration-induced nigrostriatal deficits are linked to reduced TrkB and loss of mature spines in the dorsal striatum.

Journal: Frontiers in endocrinology

Authors' code: YttriLab/B-SOID (GPL-3.0)

Status: code verified, 124 files readable, 4 matches

Tuesday, 2 June 2026 (3 papers)

[134] doi:10.1002/advs.75905 [paper, data]

stMixer for Scalable Mosaic Integration and Label Transfer in Spatial Histology and Multi-Omics.

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

Status: data only, 2 datasets cited

[135] doi:10.1186/s12974-026-03898-w [paper]

TGR5 is essential for protecting from chronic stress-induced learning and memory impairments in mice by modulating inflammation associated with the gut-brain axis.

Journal: Journal of neuroinflammation

Status: data only

[136] Code ↔ Paper doi:10.1186/s40478-026-02252-8 [paper, repository]

Temporal dynamics of neuroplasticity and neurodegeneration in the central auditory system following noise-induced hearing loss: a multimodal imaging and histological study.

Journal: Acta neuropathologica communications

Authors' code: ChariteExpMri/rodentDtiConnectomics (no license), doi:10.12751/g-node.yx9wb4 (no license)

Status: code verified, 11 files readable, 2 matches

Monday, 1 June 2026 (8 papers)

[137] Code ↔ Paper doi:10.1093/brain/awaf435 [paper, repository]

SUR1-TRPM4 is expressed in human epilepsy and promotes neuron hyperactivity and seizures in rodents.

Journal: Brain : a journal of neurology

Authors' code: Zenodo 14908460 (MIT), brain-research-laboratory/sur1-trpm4 (MIT)

Status: code verified, 6 files readable

[138] doi:10.1093/sleep/zsag041 [paper, data]

Dim light at night impacts circadian rhythms and Alzheimer's disease-like neuroinflammation and neuropathology in humanized APP SAA knock-in mice.

Journal: Sleep

Status: data only, 1 dataset cited

[139] doi:10.1073/pnas.2610646123 [paper, data]

GPIHBP1 on oligodendrocytes binds lipoprotein lipase within the human brain.

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

Status: data only, 1 dataset cited

[140] Code ↔ Paper doi:10.1016/j.crmeth.2026.101472 [paper, repository]

Rapid neuronal labeling and functional imaging in the developing mouse brain with AAV-PHP.eB.

Journal: Cell reports methods

Authors' code: Zenodo 19838893 (CC-BY-4.0), cdeister/imageAnalysis_gui (MIT)

Status: code verified, 2,165 files readable

[141] doi:10.1038/s41598-026-54509-w [paper]

Identification and validation of palmitoylation-associated biomarkers in major depressive disorder.

Journal: Scientific reports

Status: data only

[142] doi:10.1186/s12929-026-01257-8 [paper, data]

Distinct and combined interferon-ɑ/β-receptor-1 loss in neurons and astrocytes disrupt brain energy metabolism and drive Parkinsonian dementia.

Journal: Journal of biomedical science

Status: data only, 2 datasets cited

[143] Code ↔ Paper doi:10.1186/s40644-026-01052-6 [paper, repository]

Microstructure mapping with time-dependent diffusion MRI differentiates primary central nervous system lymphoma from glioblastoma.

Journal: Cancer imaging : the official publication of the International Cancer Imaging Society

Authors' code: zjuzzl/prostate_mri (MIT)

Status: code verified, 2 files readable

[144] Code ↔ Paper doi:10.1111/acel.70577 [paper, repository]

Nuclear Enlargement as a Histological Hallmark of Skeletal Muscle Aging, Revealed by Deep Learning-Driven Analysis and Validated in Inflammatory Myopathies.

Journal: Aging cell

Authors' code: openzoom/deepzoom.py (BSD-3-Clause), tamdao216/nuclei (no license)

Status: code verified, 9 files readable

Friday, 29 May 2026 (2 papers)

[145] doi:10.1186/s13293-026-00930-9 [paper, data]

Early, sex-dependent and progressive proteomic imbalance in the amygdala during Alzheimer´s disease continuum.

Journal: Biology of sex differences

Status: data only, 1 dataset cited

[146] Code ↔ Paper doi:10.1016/j.crmeth.2026.101471 [paper, repository]

Development of far-red fluorescent proteins for temporal domain multiplexing and super-resolution imaging.

Journal: Cell reports methods

Authors' code: Fakorede-Olumayowa/Temporal_Domain_Multiplexing (no license), Fakorede-Olumayowa/BAMM (no license), Zenodo 19615672 (bsd-2-clause-netbsd), Zenodo 19616489 (CC-BY-4.0), gitlab.wllsb.edu.cn/blank22/kiryl-piatkevich (no license)

Status: code verified, 8 files readable, 1 match

Thursday, 28 May 2026 (1 paper)

[147] Code ↔ Paper doi:10.1038/s41598-026-50475-5 [paper, repository]

Segmentation and classification of hippocampal subregions using multi-task generative adversarial networks.

Journal: Scientific reports

Authors' code: MLBC-lab/MT-UGAN (MIT)

Status: code verified, 10 files readable, 6 matches

Wednesday, 27 May 2026 (1 paper)

[148] Code ↔ Paper doi:10.1186/s12916-026-04957-y [paper, repository]

Thyroid-stimulating hormone receptor mediates peripheral-central neuroimmune crosstalk in autoimmune thyroid diseases.

Journal: BMC medicine

Authors' code: researcher24k/GWAS_TED (no license)

Status: code verified, 7 files readable, 7 matches

Tuesday, 26 May 2026 (1 paper)

[149] Code ↔ Paper doi:10.17879/freeneuropathology-2026-9411 [paper, repository]

Brain extraction for fixed tissue banking: a technical report.

Journal: Free neuropathology

Authors' code: andymckenzie/Brain_extraction (MIT)

Status: code verified, 2 files readable

Monday, 25 May 2026 (1 paper)

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

Diffusion-relaxation MRI as virtual histology: separable microstructural signatures of AD pathology in ex vivo human brain

Journal: Research square

Authors' code: pyushkevich/greedy (Apache-2.0), dan-benjamini/madco (no license)

Status: code verified, 854 files readable

Saturday, 23 May 2026 (1 paper)

[151] doi:10.1038/s41467-026-73409-1 [paper, data]

Cryo-EM Structure of the TRPC1/5 Heteromer Enables Design of Antidepressant and Anxiolytic Drug with Reduced Side Effects.

Journal: Nature communications

Status: data only, 2 datasets cited

Friday, 22 May 2026 (4 papers)

[152] Code ↔ Paper doi:10.1038/s41592-026-03066-1 [paper, repository]

A multimodal adaptive optical microscope for in vivo imaging from molecules to organisms.

Journal: Nature methods

Authors' code: scopetools/cudasirecon (GPL-3.0), abcucberkeley/PetaKit5D (GPL-3.0)

Status: code verified, 783 files readable, 4 matches

[153] doi:10.1186/s12974-026-03868-2 [paper]

Translational evidence for increased central amygdala IL-6 activity in alcohol dependence.

Journal: Journal of neuroinflammation

Status: data only

[154] doi:10.1186/s13024-026-00948-y [paper, data]

Dual orexin receptor antagonism with lemborexant enhances microglial clearance of β-amyloid in mice.

Journal: Molecular neurodegeneration

Status: data only, 1 dataset cited

[155] doi:10.3389/fnmol.2026.1815858 [paper]

Mass spectrometry-based proteomic profiling of human tauopathy brains suggests mitochondria-associated alterations.

Journal: Frontiers in molecular neuroscience

Status: data only

Thursday, 21 May 2026 (2 papers)

[156] doi:10.1186/s13041-026-01312-3 [paper, data]

Sevoflurane ameliorates cerebral ischemia-reperfusion injury by modulating mitochondrial dynamics and attenuating apoptosis via Shh-YAP1 signaling pathway.

Journal: Molecular brain

Status: data only, 1 dataset cited

[157] doi:10.31083/ap46200 [paper]

<i>GRIA</i> Gene Expression in Schizophrenia: A Participant-Level Meta-Analysis.

Journal: Alpha psychiatry

Status: data only

Wednesday, 20 May 2026 (3 papers)

[158] Code ↔ Paper doi:10.7554/elife.104778 [paper, repository]

Twelve phosphomimetic mutations induce the assembly of recombinant full-length human tau into paired helical filaments.

Journal: eLife

Authors' code: Zenodo 18236965 (CC-BY-4.0), Zenodo 18236945 (CC-BY-4.0), tkatsine/counting-protein-aggregates (no license), tkatsine/nuclear-counting (no license)

Status: code verified, 8 files readable

[159] Code ↔ Paper doi:10.1016/j.xpro.2026.104591 [paper, repository]

Protocol for using the multi-cellular analysis toolbox in ImageJ for single-cell calcium imaging analysis.

Journal: STAR protocols

Authors' code: Zenodo 17610801 (MIT)

Status: code verified, 21 files readable, 1 match

[160] Code ↔ Paper doi:10.1038/s41467-026-73389-2 [paper, repository]

Physics-informed multi-encoder adaptive optics enables rapid aberration correction for intravital microscopy of deep complex tissue.

Journal: Nature communications

Authors' code: Zenodo 17118222 (CC-BY-4.0), lukachan41/MeNet-AO (MIT), Zenodo 19315205 (MIT)

Status: code verified, 52 files readable, 4 matches

Tuesday, 19 May 2026 (4 papers)

[161] Code ↔ Paper doi:10.1038/s41377-026-02337-y [paper, repository]

Multispectral extended depth-of-field fluorescence microscopy with co-designed meta-optics and neural reconstruction.

Journal: Light, science & applications

Authors' code: humeyracaglayan/MANTIS (MIT)

Status: code verified, 8 files readable, 2 matches

[162] Code ↔ Paper doi:10.1038/s41467-026-72710-3 [paper, repository]

A modular multi-color fluorescence microscope for simultaneous tracking of cellular activity and behavior.

Journal: Nature communications

Authors' code: scholz-lab.github.io/glowtracker (no license), scholz-lab/Macroscope-Paper (no license), scholz-lab/GlowTracker (GPL-3.0)

Status: code verified, 47 files readable, 6 matches

[163] Code ↔ Paper doi:10.1038/s41467-026-72709-w [paper, repository]

An epifluorescence microscope design for naturalistic behavior and cellular activity in freely moving Caenorhabditis elegans.

Journal: Nature communications

Authors' code: Zenodo 19477903 (CC-BY-4.0), Hendricks-Worm-Lab/WormsPy_paper_analysis (no license), sebzdead.github.io/wormspy (no license), Zenodo 19477899 (CC-BY-4.0), Zenodo 19477902 (CC-BY-4.0), hendricks-worm-lab/gcamp_analysis (no license)

Status: code verified, 63 files readable, 2 matches

[164] doi:10.1038/s42003-026-10141-y [paper, data]

Directionally biased neuronal responses to pitch-axis vestibular stimulation in larval zebrafish compared to roll-axis responses.

Journal: Communications biology

Status: code on request, 1 dataset cited

Monday, 18 May 2026 (1 paper)

[165] Code ↔ Paper doi:10.64898/2026.05.08.26352549 [paper, repository]

Pre- and Post-synapses Contain Lecanemab-reactive Amyloid-β in Post-mortem Human Alzheimer’s Disease Brain

Journal: medRxiv (preprint)

Authors' code: datashare.ed.ac.uk/handle/10283 (no license)

Status: code verified

Saturday, 16 May 2026 (1 paper)

[166] Code ↔ Paper doi:10.1038/s41467-026-73045-9 [paper, repository]

Aberration-aware 3D localization microscopy via self-supervised neural-physics learning.

Journal: Nature communications

Authors' code: Li-Lab-SUSTech/LUNAR (GPL-3.0), jdeschamps/htSMLM (LGPL-2.1), Zenodo 19586991 (GPL-3.0)

Status: code verified, 147 files readable, 16 matches

Thursday, 14 May 2026 (2 papers)

[167] Code ↔ Paper doi:10.1371/journal.pcbi.1013499 [paper, repository]

VesiclePy: A machine learning vesicle analysis toolbox for volume electron microscopy.

Journal: PLoS computational biology

Authors' code: pytorchconnectomics/vesiclepy (MIT), Zenodo 16644943 (CC-BY-4.0)

Status: code verified, 67 files readable, 4 matches

[168] doi:10.3390/biomedicines14051110 [paper, data]

Ligand-Receptor Interaction Combined with Histopathology Improves Glioma Prognostic Model.

Journal: Biomedicines

Status: data only, 1 dataset cited

Wednesday, 13 May 2026 (4 papers)

[169] Code ↔ Paper doi:10.7554/elife.109888 [paper, repository]

Intravital calcium imaging of meningeal macrophages reveals niche-specific dynamics and aberrant responses to brain hyperexcitability.

Journal: eLife

Authors' code: levylabheadache/movieprocessing (GPL-3.0), levylabheadache/locomotion (GPL-3.0), levylabheadache/Aqua2Processing (GPL-3.0), levylabheadache/vasculature (no license), levylabheadache/GeneralLinearModel_Macrophages (GPL-3.0)

Status: code verified, 288 files readable, 20 matches

[170] Code ↔ Paper doi:10.1007/s00429-026-03103-x [paper, repository]

Location and mapping of the human rostromedial tegmental nucleus and associated midbrain inhibitory nuclei regulating dopamine neurons.

Journal: Brain structure & function

Authors' code: Zenodo 17946370 (CC-BY-4.0)

Status: code verified

[171] Code ↔ Paper doi:10.1038/s41514-026-00391-9 [paper, repository]

Region-specific transcriptional signatures of brain aging in the absence of neuropathology at the single-cell level.

Journal: npj aging

Authors' code: neurogenetics/adrd_brain_aging (no license), Zenodo 14040699 (CC-BY-4.0), neurogenetics/saha (MIT)

Status: code verified, 134 files readable, 15 matches

[172] doi:10.1016/j.crmeth.2026.101455 [paper]

An optimized method to visualize lipid droplets in mouse brain tissue.

Journal: Cell reports methods

Status: code on request

Tuesday, 12 May 2026 (1 paper)

[173] Code ↔ Paper doi:10.7554/elife.110277 [paper, repository]

Functional imaging of nine distinct neuronal populations under a miniscope in freely behaving animals.

Journal: eLife

Authors' code: Neurocipher/PythonPipeline (no license), MetaCell/Zeiss-Data-Science (MIT)

Status: code verified, 27 files readable, 2 matches

Monday, 11 May 2026 (1 paper)

[174] doi:10.1002/ana.78227 [paper]

Alzheimer's Disease Co-Pathology and Cognitive Impairment in Amyotrophic Lateral Sclerosis.

Journal: Annals of neurology

Status: code on request

Friday, 8 May 2026 (2 papers)

[175] Code ↔ Paper doi:10.1186/s13293-026-00870-4 [paper, repository]

Sex-biased transcriptomic landscapes in bipolar disorder: integrating neurobiology and clinical heterogeneity through cross-study meta-analysis.

Journal: Biology of sex differences

Authors' code: kazemisafa94-boop/bipolar-meta-analysis (no license)

Status: empty repository

[176] doi:10.1016/j.neuroimage.2026.121986 [paper]

Automated detection of cerebral microbleeds on ex-vivo MRI scans of community-based older adults.

Journal: NeuroImage

Status: code on request

Thursday, 7 May 2026 (2 papers)

[177] doi:10.1186/s40478-026-02302-1 [paper, data]

Ovarian central nervous system-type tumors: integrated neuropathological and methylation-based classification reveals site-related features.

Journal: Acta neuropathologica communications

Status: data only, 2 datasets cited

[178] Code ↔ Paper doi:10.1016/j.xpro.2026.104550 [paper, repository]

Protocol for a saline-free surgical preparation of adult Drosophila for chronic in vivo brain imaging.

Journal: STAR protocols

Authors' code: Zenodo 18675613 (CC-BY-4.0)

Status: code verified

Wednesday, 6 May 2026 (1 paper)

[179] doi:10.1038/s41467-026-72780-3 [paper, data]

Structural basis for the transport mechanism and cholesterol modulation of the human proline transporter.

Journal: Nature communications

Status: data only, 1 dataset cited

Tuesday, 5 May 2026 (2 papers)

[180] doi:10.1007/s00429-026-03102-y [paper, data]

Selective alterations in CA1 spine morphology following dietary fructose intake.

Journal: Brain structure & function

Status: data only, 1 dataset cited

[181] Code ↔ Paper doi:10.1016/j.crmeth.2026.101429 [paper, repository]

DRIFT-EM enables direct wafer retrieval of ultrathin serial sections for large-volume electron microscopy.

Journal: Cell reports methods

Authors' code: Zenodo 19380076 (CC-BY-4.0), figshare 31836088 (CC-BY-4.0), Zenodo 19372693 (MIT), Zenodo 19380050 (CC-BY-4.0), boergens/DRIFT-EM (no license), templiert/MagC (GPL-3.0)

Status: code verified, 43 files readable, 3 matches

Saturday, 2 May 2026 (1 paper)

[182] doi:10.1038/s41467-026-71835-9 [paper, data]

In vivo imaging of central nervous system fluid spaces using synchrotron radiation-based micro computed tomography.

Journal: Nature communications

Status: data only, 11 datasets cited

Friday, 1 May 2026 (5 papers)

[183] doi:10.1093/brain/awag015 [paper, data]

Brainstem pathology in anti-IgLON5 disease: new insights into early events and tau progression.

Journal: Brain : a journal of neurology

Status: data only, 1 dataset cited

[184] Code ↔ Paper doi:10.1093/jnen/nlaf163 [paper, repository]

Quantification of Ki-67 labeling index in pediatric brain tumor immunohistochemistry images.

Journal: Journal of neuropathology and experimental neurology

Authors' code: Christoforos-Spyretos/QuPath-Automatic-Cell-Detection-for-Ki-67-WSIs (GPL-3.0)

Status: code verified, 3 files readable, 2 matches

[185] Code ↔ Paper doi:10.1002/hbm.70515 [paper, repository]

From Low Field to High Value: Robust Cortical Mapping From Low-Field MRI.

Journal: Human brain mapping

Authors' code: surfer.nmr.mgh.harvard.edu/fswiki/reconany (no license)

Status: code verified

[186] doi:10.1002/ctm2.70668 [paper, data]

Single-nucleus RNA sequencing reveals ferroptosis as a potential contributor to the pathogenesis of focal cortical dysplasia.

Journal: Clinical and translational medicine

Status: data only, 2 datasets cited

[187] doi:10.1002/alz.71453 [paper]

Correlation between in vivo <sup>18</sup>F-flortaucipir PET and whole-brain postmortem histological tau signals in Alzheimer's disease.

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

Status: code on request

Wednesday, 29 April 2026 (1 paper)

[188] doi:10.1186/s12967-026-08207-w [paper, data]

Comprehensive multiomics analyses identify guanylate cyclase activator 1A as a photoreceptor-specific target in a murine model of oxygen-induced retinopathy.

Journal: Journal of translational medicine

Status: data only, 1 dataset cited

Monday, 27 April 2026 (3 papers)

[189] Code ↔ Paper doi:10.21203/rs.3.rs-9427214/v1 [paper, repository]

Structural basis of IgLON5 autoantibody recognition in autoimmune encephalitis

Journal: Research Square (preprint)

Authors' code: MathildeFogPerez/manuscript-iglon5-D1 (MIT)

Status: code verified, 4 files readable, 2 matches

[190] Code ↔ Paper doi:10.1038/s41467-026-72180-7 [paper, repository]

Probing molecular diversity and ultrastructure of brain cells with fluorescent aptamers.

Journal: Nature communications

Authors' code: YuelongWu/feabas (MIT), google/ffn (Apache-2.0), google/neuroglancer (Apache-2.0)

Status: code verified, 1,006 files readable

[191] doi:10.1080/07853890.2026.2663133 [paper, data]

Glimepiride alleviates blood-brain barrier disruption and neuroinflammation in mice with intracerebral haemorrhage.

Journal: Annals of medicine

Status: data only, 1 dataset cited

Friday, 24 April 2026 (1 paper)

[192] Code ↔ Paper doi:10.1002/epi4.70270 [paper, repository]

MiR-30a-5p mediates epileptogenesis in epilepsy models by targeting SOX4 to regulate the Wnt/β-catenin pathway.

Journal: Epilepsia open

Authors' code: supp:PMC13238734/EPI4-11-983-s003.r (no license)

Status: code verified, 1 file readable, 1 match

Thursday, 23 April 2026 (2 papers)

[193] doi:10.1016/j.crmeth.2026.101418 [paper]

Single-molecule detection methods to study alpha-synuclein aggregation in postmortem Parkinson's disease brains.

Journal: Cell reports methods

Status: code on request

[194] doi:10.3389/fphys.2026.1781613 [paper, data]

Transcriptomic analysis and experimental verification reveal the involvement of PI3K/AKT signaling pathway in high-altitude cognitive dysfunction.

Journal: Frontiers in physiology

Status: data only, 1 dataset cited

Wednesday, 22 April 2026 (4 papers)

[195] doi:10.1371/journal.pbio.3003777 [paper, data]

Structure of the human P2X3 receptor reveals the basis for subtype-selective inhibition by sivopixant.

Journal: PLoS biology

Status: data only, 2 datasets cited

[196] Code ↔ Paper doi:10.1038/s41467-026-71614-6 [paper, repository]

Interferometric ultra-high resolution 3D imaging through brain sections.

Journal: Nature communications

Authors' code: HuanglabPurdue/4Pi-BRAINSPOT (other)

Status: code verified, 79 files readable, 8 matches

[197] Code ↔ Paper doi:10.1016/j.isci.2026.115861 [paper, repository]

Functional organization of dendritic spines in mouse visual cortex layer 2/3 neurons.

Journal: iScience

Authors' code: Zenodo 18552067 (CC-BY-4.0), surlab/jenks_synaptic_organization_of_layer_2-3_neurons_in_mouse_visual_cortex (no license)

Status: code verified

[198] doi:10.3390/biom16050621 [paper, data]

Calretinin and Parvalbumin Trapping of TDP43 and XRCC1 Instructs Neocortical Interneuron Death in Neonatal Hypoxic-Ischemic Encephalopathy.

Journal: Biomolecules

Status: data only, 2 datasets cited

Tuesday, 21 April 2026 (3 papers)

[199] doi:10.1242/jcs.264353 [paper, data]

Alternatively spliced STIM2.3 is an evolutionarily late store-operated Ca2+ entry regulator expressed in brain.

Journal: Journal of cell science

Status: data only, 4 datasets cited

[200] Code ↔ Paper doi:10.1038/s41598-026-48666-1 [paper, repository]

Multimodal survival analysis of glioblastoma using whole-slide histopathology, gene expression, clinical variables and language-model-derived mutation features.

Journal: Scientific reports

Authors' code: tongjie-w/MUSA (no license)

Status: code verified, 13 files readable

[201] Code ↔ Paper doi:10.1162/imag.a.1212 [paper, repository]

Intracortical microstructure profiling: A cross-modal method for indexing cortical lamination.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: caseypaquola/CortPro (MIT)

Status: code verified, 20 files readable, 8 matches

Monday, 20 April 2026 (2 papers)

[202] Code ↔ Paper doi:10.1523/eneuro.0468-25.2026 [paper, repository]

A Multi-Network Approach Identifies Proteins Related to Dendritic Spines in Alzheimer's Disease.

Journal: eNeuro

Authors' code: ehobby33/eNeuro-repo (MIT)

Status: code verified, 3 files readable, 9 matches

[203] doi:10.3389/fmed.2026.1811410 [paper]

<i>Epimedium</i> attenuates neuroinflammation and ameliorates Alzheimer's disease through a KAT2B-dependent mechanism.

Journal: Frontiers in medicine

Status: data only

Saturday, 18 April 2026 (1 paper)

[204] Code ↔ Paper doi:10.1038/s41746-026-02651-0 [paper, repository]

AI Augmented Confocal Laser Endomicroscopy for Rapid Intraoperative Diagnosis of Brain Tumors.

Journal: NPJ digital medicine

Authors' code: ImpelKorea/AI-agumented-CLE-Imaging-npj-Digital-Medicine (no license)

Status: code verified, 252 files readable, 2 matches

Friday, 17 April 2026 (2 papers)

[205] Code ↔ Paper doi:10.1038/s41467-026-71595-6 [paper, repository]

A single-cell and spatial atlas of early human olfactory development.

Journal: Nature communications

Authors' code: ymbouamboua/HuDeCa (GPL-3.0), cobioda/human_fetal_olfactory_system (no license)

Status: code verified, 37 files readable, 26 matches

[206] Code ↔ Paper doi:10.1038/s41594-026-01789-5 [paper, repository]

Calcium dependent activation of the TMEM16F scramblase and ion channel.

Journal: Nature structural & molecular biology

Authors' code: figshare 29298167 (CC-BY-4.0), figshare 29298431 (CC-BY-4.0), figshare 29286710 (CC-BY-4.0), figshare 29294237 (CC-BY-4.0)

Status: code verified, 32 files readable

Thursday, 16 April 2026 (2 papers)

[207] doi:10.1038/s41467-026-71619-1 [paper, data]

Structurally exclusive Teneurin complexes orchestrate divergent programs in early cortical development.

Journal: Nature communications

Status: code on request, 6 datasets cited

[208] doi:10.1038/s41467-026-71935-6 [paper, data]

Transport and inhibition mechanisms of human glycine transporter 2.

Journal: Nature communications

Status: data only, 4 datasets cited

Wednesday, 15 April 2026 (2 papers)

[209] Code ↔ Paper doi:10.1038/s41592-026-03043-8 [paper, repository]

Designer indicators for two-photon recording of subthreshold voltage dynamics.

Journal: Nature methods

Authors' code: reimerlab/jedi3-paper (no license)

Status: code verified, 11 files readable, 5 matches

[210] doi:10.1117/1.nph.13.2.025007 [paper]

Inducing and monitoring photothrombotic stroke in anesthetic neuroprotection-free mice using functional photoacoustic microscopy.

Journal: Neurophotonics

Status: code on request

Tuesday, 14 April 2026 (2 papers)

[211] Code ↔ Paper doi:10.1186/s12864-026-12834-4 [paper, repository]

EMGMDA: a multi-modal graph neural framework for robust prediction of miRNA-disease associations.

Journal: BMC genomics

Authors' code: sjnnnn/emgmda](https: (no license)

Status: dead link

[212] doi:10.1080/19490976.2026.2659393 [paper, data]

<i>Blastocystis</i> sp. induces neurocognitive deficits in mice via p38 MAPK-mediated downregulation of NR4A1.

Journal: Gut microbes

Status: data only, 1 dataset cited

Monday, 13 April 2026 (3 papers)

[213] doi:10.1038/s41377-026-02252-2 [paper, data]

Ultra-wide-field, deep, adaptive two-photon microscopy for multi-scale neuronal imaging.

Journal: Light, science & applications

Status: data only, 1 dataset cited

[214] doi:10.1038/s41467-026-71746-9 [paper, data]

Double-helix optical point spread function enables real-time mesoscopic 3D functional microangiography in the living mouse brain and skull.

Journal: Nature communications

Status: code on request, 1 dataset cited

[215] doi:10.3389/fnins.2026.1738756 [paper, data]

Transcriptomic profiling and targeted validation reveal molecular mechanisms of oxygen therapy in high-altitude cerebral injury.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

Friday, 10 April 2026 (2 papers)

[216] Code ↔ Paper doi:10.1038/s41467-026-71720-5 [paper, repository]

RESCUE: recovery of unattributed expression patterns in spatial transcriptomics.

Journal: Nature communications

Authors' code: brunoyjlee/RESCUE (no license), LieberInstitute/spatialLIBD (Artistic-2.0), Zenodo 18965449 (CC-BY-4.0)

Status: code verified, 112 files readable, 3 matches

[217] doi:10.1007/s10616-026-00950-8 [paper, data]

Stable mammalian expression of His-tagged prestin in Chinese hamster ovary cells.

Journal: Cytotechnology

Status: data only, 3 datasets cited

Wednesday, 8 April 2026 (1 paper)

[218] Code ↔ Paper doi:10.1038/s41594-026-01787-7 [paper, repository]

Microtubules in the axon are GDP bound but adopt a stable GTP-like expanded state.

Journal: Nature structural & molecular biology

Authors' code: rui--zhang/Microtubule (no license), RollmecakLab/Layer-Line-Analysis (no license), bioinformatics.ccr.cancer.gov/btep/classes (no license)

Status: code verified, 30 files readable, 2 matches

Tuesday, 7 April 2026 (1 paper)

[219] Code ↔ Paper doi:10.1038/s44400-026-00074-y [paper, repository]

Methylomic signatures of tau and amyloid-beta in transgenic mouse models of Alzheimer's disease neuropathology.

Journal: NPJ dementia

Authors' code: SziKayLeung/AD_mouse_methylation (no license), Zenodo 15741353 (CC-BY-4.0)

Status: code verified, 93 files readable, 16 matches

Friday, 3 April 2026 (1 paper)

[220] Code ↔ Paper doi:10.1371/journal.pone.0346132 [paper, repository]

Analysis of cortical dysplasias using b-tensor encoding diffusion MRI in an animal model.

Journal: PloS one

Authors' code: lconcha/Displasias (no license)

Status: code verified, 126 files readable, 1 match

Thursday, 2 April 2026 (1 paper)

[221] doi:10.1186/s10020-026-01471-y [paper, data]

Modest rescue of RBFOX1 splicing function attenuates Huntington's disease features.

Journal: Molecular medicine (Cambridge, Mass.)

Status: data only, 3 datasets cited

Wednesday, 1 April 2026 (8 papers)

[222] Code ↔ Paper doi:10.1111/ejn.70480 [paper, repository]

Astrocyte Proximity Protects Synapses From Human Amyloid-Beta Induced Degeneration in a Mouse Ex Vivo Model of Early Alzheimer's Disease.

Journal: The European journal of neuroscience

Authors' code: francesco-gobbo/astrocyte-proximity-protects-synapses-in-ad (Apache-2.0)

Status: code verified, 6 files readable, 4 matches

[223] Code ↔ Paper doi:10.1002/jbio.70260 [paper, repository]

Cell-MICS: Detecting Immune Cells With Label-Free Two-Photon Autofluorescence and Deep Learning.

Journal: Journal of biophotonics

Authors' code: lucaskreiss/multiphoton_imaging_with_computational_specificity (MIT)

Status: code verified, 16 files readable, 9 matches

[224] doi:10.1016/j.xpro.2026.104469 [paper]

Protocol for monitoring cytoplasmic Ca<sup>2+</sup> dynamics using Fura Red-AM on a Zeiss Axio Observer microscope.

Journal: STAR protocols

Status: code on request

[225] Code ↔ Paper doi:10.1002/alz.71337 [paper, repository]

Tracking tau and cellular responses in human iPSC-microglia: from uptake to seedable secretion, including in extracellular vesicles.

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

Authors' code: s-washer/karabova_2025_tracking_tau_and_cellular_responses_in_microglia_rnaseq (MIT)

Status: code verified, 5 files readable, 6 matches

[226] doi:10.1002/hbm.70520 [paper, data]

Bridging Histology and Tractography: First In Vivo Visualization of Short-Range Prefrontal Connections Informed by Primate Tract-Tracing.

Journal: Human brain mapping

Status: data only, 1 dataset cited

[227] doi:10.1002/cns.70872 [paper, data]

The Small Molecule Compound Eupalinolide B Ameliorates Depressive Behaviors and Neuropathic Pain in Mice With Spared Nerve Injury: Integrating Network Pharmacology, Molecular Docking, Bioinformatics, Molecular Dynamics Simulation and Experimental Verification.

Journal: CNS neuroscience & therapeutics

Status: data only, 24 datasets cited

[228] Code ↔ Paper doi:10.1002/alz.71271 [paper, repository]

Intracellular protein GBF1 displays significant associations with amyloid pathology in Alzheimer's disease.

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

Authors' code: chapmanb/bcbio-nextgen (MIT)

Status: code verified, 318 files readable, 1 match

[229] Code ↔ Paper doi:10.1117/1.nph.13.2.025011 [paper, repository]

Measurement of the absolute value of the optical birefringence of myelin in primate brain tissue.

Journal: Neurophotonics

Authors' code: Ting24k/Myelin-Birefringence-measurement (MIT)

Status: code verified, 7 files readable