Every paper, by date: page 59

44,644 papers with a page: 24,189 with their authors' code, 4,955 with code on request, 15,495 with data only. The most recent first, 224 a page. Page 59 of 200: 17 September 2025 to 9 September 2025.

Wednesday, 17 September 2025 (48 papers, 32 on this page)

[12993] doi:10.1038/s41467-025-63822-3 [paper, repository]

Efficient and dynamic neural geometry of value and modality encoding in the primate putamen for value-guided behavior.

Journal: Nature communications

Authors' code: ProfKimHF/fractalgenerator (no license), ProfKimHF (no license)

Status: code verified, 8 files readable

[12994] doi:10.1038/s41467-025-63979-x [paper, repository]

RBM39 degrader invigorates innate immunity to eradicate neuroblastoma despite cancer cell plasticity.

Journal: Nature communications

Authors' code: Zenodo 15930501 (CC-BY-4.0), hongjianjin/yang2grp (no license)

Status: code verified, 18 files readable, 6 matches

[12995] doi:10.1038/s41586-025-09528-4 [paper, repository]

Transitions in dynamical regime and neural mode during perceptual decisions.

Journal: Nature

Authors' code: Brody-Lab/decision_dynamics_commitment (Apache-2.0), Brody-Lab/findr (Apache-2.0), Brody-Lab/fhmddm (Apache-2.0), Brody-Lab/tzl_spglm (no license)

Status: code verified, 2,091 files readable, 16 matches

[12996] doi:10.1038/s41586-025-09534-6 [paper, repository]

Repeated head trauma causes neuron loss and inflammation in young athletes.

Journal: Nature

Authors' code: morganebutler/singleCellScripts (no license)

Status: code verified, 24 files readable, 11 matches

[12997] doi:10.1038/s41586-025-09545-3 [paper, data]

Structural basis for mTORC1 activation on the lysosomal membrane.

Journal: Nature

Status: data only, 1 dataset cited

[12998] doi:10.1038/s41593-025-02024-y [paper, repository]

High-throughput synaptic connectivity mapping using in vivo two-photon holographic optogenetics and compressive sensing.

Journal: Nature neuroscience

Authors' code: photonics-VisionInstitute/CS-connectivity (no license), Oweiss-Lab/Compressed-Sensing-Connectivity-Mapping (MIT)

Status: code verified, 12 files readable, 1 match

[12999] doi:10.1038/s41593-025-02053-7 [paper, repository]

Rapid learning of neural circuitry from holographic ensemble stimulation enabled by model-based compressed sensing.

Journal: Nature neuroscience

Authors' code: marcustriplett/circuitmap (GPL-3.0)

Status: code verified, 31 files readable, 30 matches

[13000] doi:10.1038/s42003-025-08716-2 [paper]

Cholinergic network modulation in disinhibited eating behavior.

Journal: Communications biology

Status: code on request

[13001] doi:10.1038/s43856-025-01130-z [paper, data]

Outdoor physical activity, residential green spaces and the risk of dementia in the UK Biobank cohort.

Journal: Communications medicine

Status: data only, 3 datasets cited

[13002] doi:10.1073/pnas.2426628122 [paper, repository]

An open-source photobleacher for fluorescence imaging of large pigment-rich tissues.

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

Authors' code: NBelenko/Photobleacher (MIT), tatz-murakami/photobleacher (MIT)

Status: code verified, 7 files readable

[13003] doi:10.1073/pnas.2427088122 [paper, data]

Distinct timescales dissociate spontaneous thought dimensions.

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

Status: data only, 1 dataset cited

[13004] doi:10.1073/pnas.2508732122 [paper, repository]

Discovering neural elastoplasticity from kinematic observations.

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

Authors' code: gsbark/DiscoveringElastoplasticity (MIT)

Status: code verified, 10 files readable

[13005] doi:10.1073/pnas.2510931122 [paper, data]

Endothelial αvβ3 integrin induction during hypoxia protects blood-brain barrier integrity.

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

Status: data only, 1 dataset cited

[13006] doi:10.1093/braincomms/fcaf362 [paper, repository]

Sex differences in pain perception and modulation in the brain: effects of insular cortex stimulation on chronic pain relief.

Journal: Brain communications

Authors' code: gist.github.com/361d611843aa1a6522869e838be33a47.js (no license)

Status: dead link

[13007] doi:10.1098/rsos.242039 [paper, repository]

A novel spatiotemporal model with advanced feature extraction and unified brain network for depression detection using electroencephalogram signals.

Journal: Royal Society open science

Authors' code: doi:10.6084/m9.figshare.c.8014972 (no license)

Status: code found, still to be checked

[13008] doi:10.1111/acel.70234 [paper, data]

Sex- and APOE Genotype-Dependent Pain Susceptibility and Alzheimer's Risk Mediated by the Lipid Metabolism Enzyme LPCAT2.

Journal: Aging cell

Status: data only, 3 datasets cited

[13009] doi:10.1126/sciadv.adw0218 [paper, repository]

Cell-extrinsic controls over neocortical neuron fate and diversity.

Journal: Science advances

Authors' code: baumannnatalia/Celltype_Classifier_DNN (no license)

Status: code verified, 10 files readable, 2 matches

[13010] doi:10.1126/sciadv.adw1029 [paper, repository]

Transcriptomic diversity of amygdalar subdivisions across humans and nonhuman primates.

Journal: Science advances

Authors' code: LieberInstitute/BLA_crossSpecies (MIT), Zenodo 13942661 (CC-BY-4.0)

Status: code verified, 2,000 files readable, 33 matches

[13011] doi:10.1126/sciadv.adz0510 [paper, repository]

How musicality enhances top-down and bottom-up selective attention: Insights from precise separation of simultaneous neural responses.

Journal: Science advances

Authors' code: cassialmt/ALTOL_ms (MIT), Zenodo 16877796 (MIT)

Status: code verified, 12 files readable, 1 match

[13012] doi:10.1162/nol.a.13 [paper, repository]

Bilateral Word Selectivity Gradients in the Visual Word Form System in Skilled Deaf Readers.

Journal: Neurobiology of language (Cambridge, Mass.)

Authors' code: OSF 627kd (no license)

Status: code verified, 2 files readable, 1 match

[13013] doi:10.1177/08977151251374298 [paper]

Comparing Two Models of Transition from Inpatient Rehabilitation Following Traumatic Brain Injury: A Pragmatic Comparative Effectiveness Trial.

Journal: Journal of neurotrauma

Status: code on request

[13014] doi:10.1371/journal.pbio.3002993 [paper, data]

Sensitive red fluorescent indicators for real-time visualization of potassium ion dynamics in vivo.

Journal: PLoS biology

Status: data only, 1 dataset cited

[13015] doi:10.1371/journal.pbio.3003398 [paper, repository]

Coordinated hippocampal-entorhinal representations support human context-dependent spatial navigation.

Journal: PLoS biology

Authors' code: Zenodo 17017876 (CC-BY-4.0)

Status: code verified, 6 files readable, 6 matches

[13016] doi:10.1371/journal.pcbi.1013462 [paper, repository]

Reconstructing noisy gene regulation dynamics using extrinsic-noise-driven neural stochastic differential equations.

Journal: PLoS computational biology

Authors' code: JianchengZ/Neural-SDE-GeneDynamics (no license)

Status: code verified, 13 files readable

[13017] doi:10.1371/journal.pone.0330947 [paper, repository]

Pre-infection cerebral cortex structure predicts murine sepsis outcome.

Journal: PloS one

Authors' code: stjude/DeepBrainIPP (Apache-2.0), stjude/Mouse_Survival (MIT)

Status: code verified, 52 files readable, 7 matches

[13018] doi:10.1523/jneurosci.0645-25.2025 [paper]

Altered Molecular Composition of a Specific Subset of Prefrontal Cortical Excitatory Synapses in Schizophrenia.

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

Status: code on request

[13019] doi:10.1523/jneurosci.0804-25.2025 [paper, repository]

Peripheral Gating of Nociception Investigated with a Decerebrate, Arterially Perfused Preparation of the Rat.

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

Authors' code: pnm4sfix/SpikePropagation (no license)

Status: code verified, 9 files readable, 1 match

[13020] doi:10.21037/qims-2025-93 [paper, repository]

Closed-loop pathways associated with clinical symptoms in children with autism spectrum disorder: a complex network analysis.

Journal: Quantitative imaging in medicine and surgery

Authors' code: NJUSTxiazw/CTLN (no license)

Status: code verified, 9 files readable

[13021] doi:10.3389/fmed.2025.1679910 [paper, data]

Differences in the amplitude of dynamic low-frequency fluctuations in primary angle-closure glaucoma are associated with gene-molecular multi-omics.

Journal: Frontiers in medicine

Status: data only, 1 dataset cited

[13022] doi:10.3389/fnume.2025.1641215 [paper, repository]

Fast PET reconstruction with variance reduction and prior-aware preconditioning.

Journal: Frontiers in nuclear medicine

Authors' code: SyneRBI/PETRIC-MaGeZ (Apache-2.0)

Status: code verified, 58 files readable, 4 matches

[13023] doi:10.3390/ijms26189050 [paper, data]

Simulation and Machine Learning Assessment of P-Glycoprotein Pharmacology in the Blood-Brain Barrier: Inhibition and Substrate Transport.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[13024] doi:10.7554/elife.94288 [paper, data]

A novel mouse model for <i>LAMA2</i>-related muscular dystrophy with analysis of molecular pathogenesis and clinical phenotype.

Journal: eLife

Status: data only, 1 dataset cited

Tuesday, 16 September 2025 (36 papers)

[13025] doi:10.1016/j.celrep.2025.116291 [paper]

Clearing truncated tau protein restores neuronal function and prevents microglia activation in tauopathy mice.

Journal: Cell reports

Status: code on request

[13026] doi:10.1016/j.celrep.2025.116309 [paper, data]

Impaired thalamic burst firing in fragile X syndrome.

Journal: Cell reports

Status: code on request, 1 dataset cited

[13027] doi:10.1016/j.isci.2025.113580 [paper]

Combining cortical and spinal stimulation maximizes the improvement of gait after spinal cord injury.

Journal: iScience

Status: code on request

[13028] doi:10.1016/j.isci.2025.113581 [paper]

Cholinergic interneurons of the dorsomedial striatum mediate winner-loser effects on social hierarchy dynamics in male mice.

Journal: iScience

Status: code on request

[13029] doi:10.1021/acsnano.4c15013 [paper, repository]

AI-Validated Brain Targeted mRNA Lipid Nanoparticles with Neuronal Tropism.

Journal: ACS nano

Authors' code: Zenodo 13863512 (CC-BY-4.0), ryoheiyasuda/FLIMage_public (no license), Zenodo 13894885 (CC-BY-4.0), sallyturutov/biomolx (no license)

Status: code verified, 186 files readable, 6 matches

[13030] doi:10.1021/acsomega.5c06460 [paper, data]

Elucidating the Neuroprotective Mechanism of Geissoschizine Methyl Ether against Parkinson's Disease: Inhibition of Ferroptosis Pathway via Network Pharmacology and In Vitro Validation.

Journal: ACS omega

Status: data only, 8 datasets cited

[13031] doi:10.1038/s41380-025-03257-w [paper]

Psychedelic neuroplasticity of cortical neurons lacking 5-HT2A receptors.

Journal: Molecular psychiatry

Status: code on request

[13032] doi:10.1038/s41467-025-62374-w [paper, repository]

Gray matter correlates of childhood maltreatment lack replicability in a multi-cohort brain-wide association study.

Journal: Nature communications

Authors' code: OSF j8d9r (no license)

Status: empty repository

[13033] doi:10.1038/s41467-025-62791-x [paper, repository]

Transcriptional dynamics of the oligodendrocyte lineage and its regulation by the brain erythropoietin system.

Journal: Nature communications

Authors' code: vgastaldi/Ye_Gastaldi_et_al_EPO_snRNAseq_Oligo (no license), Zenodo 15806664 (CC-BY-4.0)

Status: code verified, 20 files readable, 3 matches

[13034] doi:10.1038/s41467-025-63725-3 [paper, repository]

Neural xenografts contribute to long-term recovery in stroke via molecular graft-host crosstalk.

Journal: Nature communications

Authors' code: rustlab1/DLC-Gait-Analysis (no license)

Status: code verified, 3 files readable, 3 matches

[13035] doi:10.1038/s41467-025-63748-w [paper, repository]

Gephyrin filaments represent the molecular basis of inhibitory postsynaptic densities.

Journal: Nature communications

Authors' code: FilLieb/quantitative_synapse_analysis (MIT)

Status: empty repository, 2 files readable

[13036] doi:10.1038/s41467-025-63949-3 [paper, repository]

Multicolor fate mapping of microglia reveals polyclonal proliferation, heterogeneity, and cell-cell interactions after ischemic stroke in mice.

Journal: Nature communications

Authors' code: OSF h9fjy (no license), kikhiam/kikhia_et_al_2025 (BSD-3-Clause), Zenodo 16891419 (BSD-3-Clause)

Status: code verified, 26 files readable, 7 matches

[13037] doi:10.1038/s41586-025-09610-x [paper, data]

Delta-type glutamate receptors are ligand-gated ion channels.

Journal: Nature

Status: data only, 1 dataset cited

[13038] doi:10.1038/s43588-025-00863-0 [paper, repository]

Increasing alignment of large language models with language processing in the human brain.

Journal: Nature computational science

Authors' code: RiverGao/scaling_finetuning (no license), Zenodo 15788717 (CC-BY-4.0)

Status: code verified, 37 files readable, 4 matches

[13039] doi:10.1038/s44400-025-00028-w [paper, repository]

Identifying obesity and dementia risk: body adiposity and neural connectivity in cognitively normal, mid-life adults.

Journal: NPJ dementia

Authors' code: LLNL/mappertrac (BSD-3-Clause)

Status: code verified, 17 files readable, 1 match

[13040] doi:10.1073/pnas.2512278122 [paper, repository]

Φ value analysis underscores strong functional and structural compactness of the GABA<sub>A</sub> receptor.

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

Authors' code: michal2am/bioscripts (no license)

Status: code verified, 200 files readable, 4 matches

[13041] doi:10.1093/braincomms/fcaf302 [paper, data]

Alterations of the neural substrate in childhood apraxia of speech: new evidence from neuroimaging.

Journal: Brain communications

Status: data only, 2 datasets cited

[13042] doi:10.1093/braincomms/fcaf350 [paper, repository]

Associations and interactions between <i>APOE</i> e4 genotype and lifestyle with brain structural phenotypes.

Journal: Brain communications

Authors' code: OSF jc6mk (no license)

Status: code verified, 3 files readable, 5 matches

[13043] doi:10.1111/bjop.70029 [paper, repository]

The rhythm of sensory input shapes audio-visual temporal processing.

Journal: British journal of psychology (London, England : 1953)

Authors' code: OSF bsgqd (no license)

Status: code verified, 1 file readable

[13044] doi:10.1111/bpa.70043 [paper, repository]

Dysmorphic neurons express markers of inhibitory glycinergic signaling in focal cortical dysplasia IIb.

Journal: Brain pathology (Zurich, Switzerland)

Authors' code: diamandislabii/havoc-multislide (no license)

Status: code verified, 11 files readable

[13045] doi:10.1111/head.15046 [paper, repository]

Evidence for increased background neural noise in migraine with aura: Hyperactive but not hyperresponsive.

Journal: Headache

Authors' code: OSF 3w89b (no license)

Status: code verified, 34 files readable, 5 matches

[13046] doi:10.1136/lupus-2025-001655 [paper, data]

Frequency-dependent and temporal variability of low-frequency fluctuations in patients with primary Sjögren's syndrome.

Journal: Lupus science & medicine

Status: data only, 1 dataset cited

[13047] doi:10.1162/imag.a.152 [paper, repository]

Multimodal evidence challenges the effectiveness of probabilistic cueing for establishing sensory expectations.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF qyc75 (no license)

Status: code verified, 60 files readable, 11 matches

[13048] doi:10.1172/jci.insight.187039 [paper, data]

In utero rescue of neurological dysfunction in a mouse model of Wiedemann-Steiner syndrome.

Journal: JCI insight

Status: data only, 1 dataset cited

[13049] doi:10.1186/s13062-025-00691-2 [paper, repository]

Single-cell transcriptome analysis suggests cells of the tumor microenvironment as a major discriminator between brain and extracranial melanoma metastases.

Journal: Biology direct

Authors' code: IzarLab/Melanoma_Brain_Metastasis (MIT), konradgrutz/single_cell_melanoma_metastasis (no license), Zenodo 17092986 (CC-BY-4.0), Zenodo 16981813 (CC-BY-4.0)

Status: code verified, 161 files readable, 21 matches

[13050] doi:10.1186/s41016-025-00401-x [paper, data]

Phantom and in vivo validation of a novel contactless registration method for robot-assisted SEEG surgery.

Journal: Chinese neurosurgical journal

Status: data only, 1 dataset cited

[13051] doi:10.1371/journal.pbio.3003367 [paper, data]

Genetic variation influences food-sharing sociability in honey bees.

Journal: PLoS biology

Status: data only, 1 dataset cited

[13052] doi:10.1371/journal.pcbi.1013484 [paper, repository]

Dynamical mean-field theory for a highly heterogeneous neural population with graded persistent activity of the entorhinal cortex.

Journal: PLoS computational biology

Authors' code: fuuta/multiD_hetero_DMFT (no license)

Status: code verified, 30 files readable

[13053] doi:10.1371/journal.pcbi.1013486 [paper, repository]

Effects of tDCS of the DLPFC on brain networks: A hybrid brain modeling study.

Journal: PLoS computational biology

Authors' code: dyqdyqonetwo/tDCS-HBM (no license), brain-connectivity-toolbox.net (no license)

Status: code verified, 12 files readable, 1 match

[13054] doi:10.1371/journal.pone.0330607 [paper, repository]

Neural SDE-based spike control of noisy neurons.

Journal: PloS one

Authors' code: ogura-lab/neuron-program (no license)

Status: code verified, 6 files readable

[13055] doi:10.3389/fimmu.2025.1664347 [paper, data]

Deciphering the lactylation landscape in glioma: a novel gene signature predicts patient survival and immunotherapy sensitivity.

Journal: Frontiers in immunology

Status: data only, 2 datasets cited

[13056] doi:10.3389/fneur.2025.1653433 [paper, data]

Integrating machine learning for the identification of ubiquitination-associated genes in moyamoya disease.

Journal: Frontiers in neurology

Status: data only, 1 dataset cited

[13057] doi:10.3390/biom15091322 [paper, data]

LRRK2-Mediated Neuroinflammation-Induced Neuronal Dysfunctions in a Parkinson's and Alzheimer's Disease Cellular Model.

Journal: Biomolecules

Status: data only, 1 dataset cited

[13058] doi:10.3390/genes16091095 [paper, data]

Transcriptome of Sterile Testes in <i>dnd</i>-Depleted Atlantic Salmon (<i>Salmo salar</i> L.) Highlights Genes Involved in Gonadal and Brain Development.

Journal: Genes

Status: data only, 1 dataset cited

[13059] doi:10.7554/elife.104833 [paper, repository]

Novel and optimized mouse behavior enabled by fully autonomous HABITS: Home-cage assisted behavioral innovation and testing system.

Journal: eLife

Authors' code: yaoyao-hao/gpsmart (GPL-3.0), yaoyao-hao/habits (GPL-3.0)

Status: code verified, 39 files readable, 3 matches

[13060] doi:10.7717/peerj-cs.3165 [paper, repository]

Enhancing privacy-preserving brain tumor classification with adaptive reputation-aware federated learning and homomorphic encryption.

Journal: PeerJ. Computer science

Authors' code: gswetha697/FedARCH (no license)

Status: empty repository, 1 file readable

Monday, 15 September 2025 (29 papers)

[13061] doi:10.1002/advs.202509090 [paper, data]

SpaBatch: Deep Learning-Based Cross-Slice Integration and 3D Spatial Domain Identification in Spatial Transcriptomics.

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

Status: data only, 1 dataset cited

[13062] doi:10.1002/mrm.70061 [paper, repository]

Comparison of cardiac diffusion MRI using multiple prospective respiratory motion correction techniques.

Journal: Magnetic resonance in medicine

Authors' code: s-jermy/DTIanalysis (no license), s-jermy/DTIstats (no license)

Status: code verified, 67 files readable, 4 matches

[13063] doi:10.1002/mrm.70073 [paper, repository]

Combined angiography and perfusion using radial imaging and arterial spin labeling with structural contrast.

Journal: Magnetic resonance in medicine

Authors' code: tomokell/fabber_models_asl (Apache-2.0), tomokell/capria_tools (other), Zenodo 17087138 (CC-BY-4.0), Zenodo 17087137 (CC-BY-4.0)

Status: code verified, 197 files readable, 19 matches

[13064] doi:10.1007/s10654-025-01296-9 [paper, repository]

Generalized additive mixed models to discern data-driven theoretically informed strategies for public brain, cognitive and mental health.

Journal: European journal of epidemiology

Authors' code: LaurenzLammer/social_isolation_gamms (GPL-3.0)

Status: code verified, 21 files readable, 18 matches

[13065] doi:10.1016/j.ajhg.2025.08.019 [paper, repository]

Landscapes of missense variant impact for human superoxide dismutase 1.

Journal: American journal of human genetics

Authors' code: axakova/SOD1_Manuscript (no license)

Status: code verified, 2 files readable, 13 matches

[13066] doi:10.1016/j.celrep.2025.116280 [paper, repository]

Neurons and astrocytes have distinct organelle signatures and responses to stress.

Journal: Cell reports

Authors' code: SCohenLab/infer-subc (BSD-3-Clause), ndcn/infer-subc (BSD-3-Clause), CellMigrationLab/CellTracksColab (MIT)

Status: code verified, 217 files readable, 10 matches

[13067] doi:10.1016/j.isci.2025.113563 [paper]

Light-evoked activity and BDNF regulate mitochondrial dynamics and mitochondrial localized translation in CNS axons.

Journal: iScience

Status: code on request

[13068] doi:10.1016/j.isci.2025.113566 [paper, repository]

Nonspecific ensemble reactivation in mouse dentate gyrus disrupts spatial working memory.

Journal: iScience

Authors' code: YesterdaySam/NonspecificEnsembleRepo (no license), stardist/stardist (BSD-3-Clause)

Status: code verified, 104 files readable, 2 matches

[13069] doi:10.1016/j.isci.2025.113574 [paper, repository]

Sparse memory ensembles set brain-wide network states to sustain learned associations.

Journal: iScience

Authors' code: Zenodo 17177277 (CC-BY-4.0), johaubrich (no license)

Status: code verified, 2 files readable, 9 matches

[13070] doi:10.1016/j.mbs.2025.109531 [paper, repository]

CAR T-cell and oncolytic virus dynamics and determinants of combination therapy success for glioblastoma.

Journal: Mathematical biosciences

Authors' code: mconte93/CAR-OV-study (GNU)

Status: code verified, 18 files readable, 9 matches

[13071] doi:10.1016/j.stem.2025.08.010 [paper]

Human adult hippocampal neurogenesis is shaped by neuropsychiatric disorders, demographics, and lifestyle-related factors.

Journal: Cell stem cell

Status: code on request

[13072] doi:10.1038/s41380-025-03250-3 [paper, repository]

The China Brain Multi-omics Atlas Project (CBMAP).

Journal: Molecular psychiatry

Authors' code: zdangm/CBMAP_profile (no license)

Status: code verified, 2 files readable, 2 matches

[13073] doi:10.1038/s41592-025-02770-8 [paper, repository]

Scaling up spatial transcriptomics for large-sized tissues: uncovering cellular-level tissue architecture beyond conventional platforms with iSCALE.

Journal: Nature methods

Authors' code: amesch441/iSCALE (other)

Status: code verified, 89 files readable, 8 matches

[13074] doi:10.1038/s41593-025-02055-5 [paper, repository]

Recurrent pattern completion drives the neocortical representation of sensory inference.

Journal: Nature neuroscience

Authors' code: codeocean:6659254 (no license)

Status: code found, still to be checked

[13075] doi:10.1093/braincomms/fcaf358 [paper, repository]

Altered static and dynamic functional connectivity in childhood basic-type intermittent exotropia.

Journal: Brain communications

Authors' code: anonymous.4open.science/r/ixt-4f75 (no license)

Status: code found, still to be checked

[13076] doi:10.1111/all.70048 [paper, data]

Acetylcholine From Solitary Chemosensory Cell, Not Neuron, Regulates Basal Cell Fate Driving Eosinophilic Chronic Rhinosinusitis With Nasal Polyps.

Journal: Allergy

Status: data only, 1 dataset cited

[13077] doi:10.1162/imag.a.149 [paper, repository]

Supramodal and modality-specific neural information supports multi-feature prediction errors across cortical levels.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF e8hps (no license)

Status: code verified, 72 files readable, 8 matches

[13078] doi:10.1162/imag.a.151 [paper]

Comparison of high-frequency ultrasound transducers for microvascular localization microscopy in the mouse brain.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

[13079] doi:10.1177/13872877251375432 [paper, repository]

Predictors of MRI-estimated brain iron deposition in dementia and Parkinson's disease-associated subcortical regions: Genetic and observational analysis in UK Biobank.

Journal: Journal of Alzheimer's disease : JAD

Authors' code: lcpilling/ukbrapR (GPL-3.0), AGEexeter/paper-brain_iron_causes (no license)

Status: code verified, 25 files readable

[13080] doi:10.1186/s13195-025-01861-0 [paper]

Ap1s1 reduction in the aging brain heightens neuronal vulnerability to amyloid-β and oxidative stress in Alzheimer's pathogenesis.

Journal: Alzheimer's research & therapy

Status: data only

[13081] doi:10.1212/nxi.0000000000200467 [paper]

IV Immunoglobulin Is Associated With Epigenetic, Ribosomal, and Immune Changes in Pediatric Acute-Onset Neuropsychiatric Syndrome.

Journal: Neurology(R) neuroimmunology & neuroinflammation

Status: code on request

[13082] doi:10.1371/journal.pcbi.1013501 [paper, repository]

Personalized pulse wave propagation modeling to improve vasopressor dosing management in patients with severe traumatic brain injury.

Journal: PLoS computational biology

Authors' code: kwolos/STBI (no license)

Status: code verified, 278 files readable, 4 matches

[13083] doi:10.1371/journal.pone.0330251 [paper, repository]

Gut microbiome signatures in iNPH: Insights from a shotgun metagenomics study.

Journal: PloS one

Authors' code: SilasK/CDM_pipeline (no license)

Status: code verified, 8 files readable

[13084] doi:10.2147/hmer.s546200 [paper, data]

Linking Brain and Immune Transcriptomes to Gut-Derived Metabolites in Hepatic Encephalopathy: An Explorative Integrative Multi-Omics Approach.

Journal: Hepatic medicine : evidence and research

Status: data only, 1 dataset cited

[13085] doi:10.2196/76344 [paper, data]

Trade-Off Analysis of Classical Machine Learning and Deep Learning Models for Robust Brain Tumor Detection: Benchmark Study.

Journal: JMIR AI

Status: data only, 3 datasets cited

[13086] doi:10.3389/fimmu.2025.1648278 [paper, data]

Single-nucleus transcriptomics reveals sepsis-related neurovascular dysfunction in the human hippocampus.

Journal: Frontiers in immunology

Status: data only, 1 dataset cited

[13087] doi:10.3390/ijms26188966 [paper, data]

Characterizing Microglia Morphology in the Frontal Cortex of Pair-Bonded and Unpaired Prairie Voles (<i>Microtus ochrogaster</i>).

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[13088] doi:10.3390/ijms26188973 [paper, repository]

ReduXis: A Comprehensive Framework for Robust Event-Based Modeling and Profiling of High-Dimensional Biomedical Data.

Journal: International journal of molecular sciences

Authors' code: pathology-dynamics/ReduXis (MIT)

Status: code verified, 15 files readable, 6 matches

[13089] doi:10.3724/abbs.2025131 [paper, data]

Exosomal miR-146a-3p modulates neural stem cell fate through UCHL1 downregulation in spinal cord injury: implications for neuroregeneration.

Journal: Acta biochimica et biophysica Sinica

Status: data only, 1 dataset cited

Sunday, 14 September 2025 (3 papers)

[13090] doi:10.1002/advs.202500402 [paper, data]

Pigment Epithelium-Derived Factor Deficiency Impairs Hippocampal Glutamate Homeostasis and Cognitive Function by Downregulating Astrocytic GLT-1.

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

Status: data only, 1 dataset cited

[13091] doi:10.1016/j.nbd.2025.107104 [paper]

Molecular polymorphism of tau aggregates in Pick's disease.

Journal: Neurobiology of disease

Status: code on request

[13092] doi:10.3390/biomedicines13092263 [paper]

Transcriptomic Profile of Isocitrate Dehydrogenase Mutant Type of Lower-Grade Glioma Reveals Molecular Changes for Prognosis.

Journal: Biomedicines

Status: data only

Saturday, 13 September 2025 (12 papers)

[13093] doi:10.1002/mnfr.70262 [paper, data]

Altered Hippocampal Transcriptomic Profile Reveals Cognitive Impairment in Young Metabolically Obese, Normal-Weight Rats, Prevented by Perinatal Leptin Intake.

Journal: Molecular nutrition & food research

Status: data only, 1 dataset cited

[13094] doi:10.1002/mrm.70084 [paper, repository]

Assessing radiofrequency safety of active implants by measuring induced radiofrequency currents using MRI.

Journal: Magnetic resonance in medicine

Authors' code: nifm-gin/RF_current_from_MRI (GPL-3.0)

Status: code verified, 20 files readable

[13095] doi:10.1007/s00521-025-11613-8 [paper, repository]

Balancing misclassification errors in image-based inference using problem domain semantics and a nested cascade architecture.

Journal: Neural computing & applications

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

Status: dead link

[13096] doi:10.1016/j.heares.2025.109427 [paper, data]

Sentence recall and neurophysiological effects of the "2-Sentence Problem" under time compression in younger and older listeners.

Journal: Hearing research

Status: data only, 1 dataset cited

[13097] doi:10.1016/j.isci.2025.113560 [paper, data]

Oligodendrocyte precursor cell AMPA receptors differ with age and brain region while kainate receptors remain stable.

Journal: iScience

Status: code on request, 1 dataset cited

[13098] doi:10.1093/braincomms/fcaf355 [paper, repository]

Apathy progression is associated with brain atrophy and white matter damage in Parkinson's disease.

Journal: Brain communications

Authors' code: HoumanAzizi/PPMI_Data_Wrangling (no license), bic-mni.github.io (no license), VANDAlab/Preprocessing_Pipeline (no license), Zenodo 7930159 (CC-BY-4.0)

Status: code verified, 22 files readable, 9 matches

[13099] doi:10.1093/braincomms/fcaf357 [paper, data]

Hyperpolarized [1-<sup>13</sup>C]pyruvate magnetic resonance spectroscopic imaging identifies elevated lactate in epileptic tissue.

Journal: Brain communications

Status: data only, 1 dataset cited

[13100] doi:10.1093/braincomms/fcaf359 [paper, repository]

Optic ataxia in patients with thalamic lesions.

Journal: Brain communications

Authors' code: MelanieWilke/Optic-Ataxia (no license)

Status: code verified, 22 files readable, 5 matches

[13101] doi:10.1101/2025.09.09.674826 [paper, repository]

The First of Us: <i>Ophiocordyceps</i> use a novel scramblase-binding peptide to manipulate zombie ants

Journal: bioRxiv (preprint)

Authors' code: stwerner/NematodeMovementAnalysis_v1 (MIT)

Status: code verified, 19 files readable

[13102] doi:10.3390/brainsci15090985 [paper, data]

NRGAMTE: Neurophysiological Residual Gated Attention Multimodal Transformer Encoder for Sleep Disorder Detection.

Journal: Brain sciences

Status: data only, 2 datasets cited

[13103] doi:10.3390/diagnostics15182326 [paper, data]

Automated Brain Tumor MRI Segmentation Using ARU-Net with Residual-Attention Modules.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 1 dataset cited

[13104] doi:10.3390/ijms26188934 [paper]

BA9 Transcriptomics in Huntington's Disease 80-Gene Signature and MIR219A2-Linked Targets.

Journal: International journal of molecular sciences

Status: data only

Friday, 12 September 2025 (40 papers)

[13105] doi:10.1002/advs.202504913 [paper, repository]

One-Step Drug Screening System Utilizing Electrophysiological Activity in Multiple Brain Organoids.

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

Authors' code: mariomulansky/PySpike (BSD-2-Clause), taynaud/python-louvain (BSD-3-Clause), hyogeun-shin/visualization-of-3d-network-map (MIT), Zenodo 4306072 (other-open)

Status: code verified, 57 files readable

[13106] doi:10.1007/s12975-025-01381-x [paper, data]

Differential Effects of Murine Stroke Models on Dopaminergic Neurons, Glial Responses, and Neurobehavioral Outcomes.

Journal: Translational stroke research

Status: data only, 2 datasets cited

[13107] doi:10.1016/j.celrep.2025.116265 [paper, repository]

Human amygdala nuclei show distinct developmental trajectories from adolescence to adulthood in functional integration with prefrontal circuitry.

Journal: Cell reports

Authors' code: Zenodo 16690846 (MIT), amarojha/amygdala_7t (MIT)

Status: code verified, 58 files readable, 13 matches

[13108] doi:10.1016/j.csbj.2025.09.013 [paper, repository]

Identifying Alzheimer's disease-related pathways based on whole-genome sequencing data.

Journal: Computational and structural biotechnology journal

Authors' code: hakyimlab/metaxcan (MIT), bfgbgroup/pathway (no license), getian107/PRScs (MIT), choishingwan.github.io/prs-tutorial (no license)

Status: code verified, 133 files readable, 8 matches

[13109] doi:10.1016/j.isci.2025.113561 [paper, repository]

Characterization of C2H2 superfamily expansions in cephalopods and their contribution to nervous system evolution.

Journal: iScience

Authors' code: viemet/public (no license)

Status: code verified, 31 files readable, 8 matches

[13110] doi:10.1016/j.isci.2025.113562 [paper, data]

Frequency-tagging EEG reveals spontaneous categorical discrimination of visual self-identity.

Journal: iScience

Status: data only, 1 dataset cited

[13111] doi:10.1016/j.molmet.2025.102251 [paper, repository]

Comparative transcriptomics of lateral hypothalamic cell types reveals conserved growth hormone-tachykinin dynamics in feeding.

Journal: Molecular metabolism

Authors' code: CarolineWeeLab/LHtranscriptomics (MIT)

Status: code verified, 2 files readable, 7 matches

[13112] doi:10.1016/j.xpro.2025.104088 [paper, data]

Protocol for 3D direct reprogramming of human glia into dopaminergic neurons with gene expression and immunocytochemistry validation.

Journal: STAR protocols

Status: data only, 1 dataset cited

[13113] doi:10.1038/s41386-025-02190-4 [paper, data]

N,N-dimethyltryptamine effects on connectome harmonics, subjective experience and comparative psychedelic experiences.

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

Status: data only, 1 dataset cited

[13114] doi:10.1038/s41467-025-63803-6 [paper, repository]

Tastes and retronasal odours evoke a shared flavour-specific neural code in the human insula.

Journal: Nature communications

Authors' code: OSF 2kryv (no license)

Status: code verified, 11 files readable, 8 matches

[13115] doi:10.1038/s41467-025-63967-1 [paper, repository]

Heterogeneous, temporally consistent, and plastic brain development after preterm birth.

Journal: Nature communications

Authors' code: brainchart/Lifespan (no license), Melissa1909/preterm-brain-heterogeneity (CC-BY-NC-SA-4.0), Zenodo 16875920 (CC-BY-4.0)

Status: code verified, 46 files readable, 18 matches

[13116] doi:10.1038/s42003-025-08848-5 [paper, repository]

Causal contributions of left inferior and medial frontal cortex to semantic and executive control.

Journal: Communications biology

Authors' code: OSF u23vs (no license)

Status: code verified

[13117] doi:10.1063/5.0277950 [paper, data]

The glioblastoma biomechanical landscape: A systematic review of magnetic resonance elastography (MRE) of brain tumors and healthy brain.

Journal: APL bioengineering

Status: data only, 1 dataset cited

[13118] doi:10.1093/braincomms/fcaf353 [paper, repository]

Cell-weighted polygenic risk scores are associated with β-amyloid and tau biomarkers in Alzheimer's disease.

Journal: Brain communications

Authors' code: atulkumar1301/Cell_Specific_PRS (no license)

Status: code verified, 61 files readable, 5 matches

[13119] doi:10.1101/2025.09.07.674708 [paper, repository]

Test-retest reliability of sensorimotor activity measured with spinal cord fMRI

Journal: bioRxiv (preprint)

Authors' code: NeptuneToolbox (no license), OSF fjasd (no license), oliviakowalczyk/spain_squeeze (MIT), OSF u8rbq (no license)

Status: code verified, 89 files readable, 8 matches

[13120] doi:10.1111/nmo.70155 [paper, repository]

Retinoic Acid Inhibition Alters Intestinal Composition in Zebrafish: A Non-genetic Model to Study Hirschsprung Disease?

Journal: Neurogastroenterology and motility

Authors' code: junjunlab/ClusterGvis-app (GPL-3.0)

Status: code verified, 4 files readable, 1 match

[13121] doi:10.1111/nyas.70083 [paper, data]

Interbrain Synchrony Mitigates Extremism Within Echo Chambers.

Journal: Annals of the New York Academy of Sciences

Status: data only, 1 dataset cited

[13122] doi:10.1126/sciadv.adr6687 [paper, repository]

DeepInMiniscope: Deep learning-powered physics-informed integrated miniscope.

Journal: Science advances

Authors' code: doi:10.5061/dryad.6t1g1jx83 (no license), Yang-Research-Laboratory/DeepInMiniscope-Learned-Integrated-Miniscope (MIT), Zenodo 14172156 (MIT)

Status: code verified, 15 files readable, 1 match

[13123] doi:10.1162/imag.a.141 [paper, repository]

Comparing and scaling fMRI features for brain-behavior prediction.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: mschoettner/Comparing-and-Scaling-fMRI-Features-for-Behavior-Prediction (MIT), Zenodo 14133035 (CC-BY-4.0), Zenodo 4587906 (BSD-3-Clause), connectomicslab/connectomemapper3 (BSD-3-Clause)

Status: code verified, 170 files readable, 13 matches

[13124] doi:10.1162/imag.a.145 [paper, repository]

Brain functional connectivity predicts depression and anxiety during childhood and adolescence: A connectome-based predictive modeling approach.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: fmorfini/publications (MIT)

Status: code verified, 10 files readable, 1 match

[13125] doi:10.1162/imag.a.148 [paper]

Visual stimulus-evoked blood velocity responses in individual human posterior cerebral arteries measured with dynamic phase-contrast functional MR angiography.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

[13126] doi:10.1186/s13059-025-03754-9 [paper, repository]

Diverse short tandem repeat sequences influence gene regulation in human populations.

Journal: Genome biology

Authors' code: Zenodo 8083691 (other-open), Zenodo 14009777 (CC-BY-4.0), asmitina/altmotifs (no license), bjtrost/tandem-repeat-expansions-in-asd (no license)

Status: code verified, 80 files readable, 11 matches

[13127] doi:10.1192/bjo.2025.10821 [paper]

The effect of stress on delay discounting in female patients with early-onset bulimia nervosa and alcohol use disorder: functional magnetic resonance imaging study.

Journal: BJPsych open

Status: code on request

[13128] doi:10.1371/journal.pbio.3002659 [paper, repository]

Microglial deficiency in the ATRX chromatin remodeler elicits a viral mimicry immune response that impacts neuronal function and behavior.

Journal: PLoS biology

Authors' code: aliireza96/Shafiq_PlosBiol_ATRX_microglia (GPL-3.0), AllenInstitute/ipfx (BSD-2-Clause)

Status: code verified, 155 files readable, 13 matches

[13129] doi:10.1371/journal.pbio.3003392 [paper, data]

Neuron-specific Agrin splicing by Nova RNA-binding proteins regulates conserved neuromuscular junction development in chordates.

Journal: PLoS biology

Status: data only, 1 dataset cited

[13130] doi:10.1371/journal.pcbi.1013403 [paper, repository]

Competition and cooperation of assembly sequences in recurrent neural networks.

Journal: PLoS computational biology

Authors' code: tristanstoeber/sequence_competition_cooperation (CC-BY-4.0)

Status: code verified, 29 files readable, 3 matches

[13131] doi:10.1371/journal.pcbi.1013416 [paper, repository]

Variation in the geometry of concept manifolds across human visual cortex.

Journal: PLoS computational biology

Authors' code: styvesg/nsd_gnet8x (no license), styvesg/nsd_manifolds (no license), AndrewAtanov/simclr-pytorch (MIT)

Status: code verified, 51 files readable, 6 matches

[13132] doi:10.1371/journal.pcbi.1013452 [paper, repository]

Simulation insights on the compound action potential in multifascicular nerves.

Journal: PLoS computational biology

Authors' code: Zenodo 15848037 (CC-BY-4.0), joseph-tharayil/vagusNerve (Apache-2.0), joseph-tharayil/vagusOptimization (Apache-2.0)

Status: code verified, 101 files readable, 6 matches

[13133] doi:10.1371/journal.pcbi.1013485 [paper, repository]

Default mode network connectivity predicts individual differences in long-term forgetting: Evidence for storage degradation, not retrieval failure.

Journal: PLoS computational biology

Authors' code: OSF p7rq5 (no license)

Status: code verified, 3 files readable, 6 matches

[13134] doi:10.1371/journal.pone.0330290 [paper, data]

Brief mindfulness coaching enhances selective attention in medical scientists: A pilot study.

Journal: PloS one

Status: data only, 1 dataset cited

[13135] doi:10.3389/fncel.2025.1635775 [paper, data]

Establishment of human Leber's hereditary optic neuropathy model using iPSC-derived retinal organoids.

Journal: Frontiers in cellular neuroscience

Status: data only, 1 dataset cited

[13136] doi:10.3390/ijms26188875 [paper, data]

Methamphetamine Induces Metallothionein 1 Expression and an Inflammatory Phenotype in Primary Human HIV-Infected Macrophages.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[13137] doi:10.3390/ijms26188889 [paper, data]

A Murine Model of Glioblastoma Initiating Cells and Human Brain Organoid Xenograft for Photodynamic Therapy Testing.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[13138] doi:10.3390/s25185690 [paper, repository]

Transparent EEG Analysis: Leveraging Autoencoders, Bi-LSTMs, and SHAP for Improved Neurodegenerative Diseases Detection.

Journal: Sensors (Basel, Switzerland)

Authors' code: bellakhdarOmaima/EEG-Signal-Analysis-for-Enhanced-Neurodegenerative-Disease-Detection-Using-Deep-Learning (no license)

Status: code verified, 8 files readable, 7 matches

[13139] doi:10.3390/toxics13090772 [paper, data]

Exposure to Bisphenol S and Bisphenol F Alters Gene Networks Related to Protein Translation and Neuroinflammation in SH-SY5Y Human Neuroblastoma Cells.

Journal: Toxics

Status: data only, 1 dataset cited

[13140] doi:10.3758/s13428-025-02811-2 [paper, data]

Computerized Open-Source Navon Test (COSNaT): Normative data for the assessment of global processing abilities and simultanagnosia in the Italian population.

Journal: Behavior research methods

Status: data only, 1 dataset cited

[13141] doi:10.7554/elife.102228 [paper, repository]

Policy shaping based on the learned preferences of others accounts for risky decision-making under social observation.

Journal: eLife

Authors' code: OSF 3vbda (no license)

Status: code verified, 17 files readable

[13142] doi:10.7554/elife.102475 [paper, repository]

Sequence action representations contextualize during early skill learning.

Journal: eLife

Authors' code: hcps-ninds/SequenceActionRepresentationsContextualizeDuringEarlySkillLearning (no license)

Status: code verified, 23 files readable, 6 matches

[13143] doi:10.7554/elife.105867 [paper, repository]

Gene regulatory mechanisms guiding bifurcation of inhibitory and excitatory neuron lineages in the mouse anterior brainstem.

Journal: eLife

Authors' code: ComputationalNeurogenetics/rV2_bifurcation (MIT)

Status: code verified, 22 files readable, 8 matches

[13144] doi:10.7554/elife.93589 [paper, repository]

The spatial frequency representation predicts category coding in the inferior temporal cortex.

Journal: eLife

Authors' code: ramintoosi/spatial-frequency-selectivity (MIT)

Status: code verified, 6 files readable

Thursday, 11 September 2025 (27 papers)

[13145] doi:10.1007/s10334-025-01293-9 [paper, repository]

RF phase modulation improves quantitative transient state sequences under constrained conditions.

Journal: Magma (New York, N.Y.)

Authors' code: Zenodo 10072399 (CC-BY-4.0), mfuderer/blakjac_share (no license)

Status: code verified, 32 files readable, 4 matches

[13146] doi:10.1007/s11060-025-05218-3 [paper, repository]

Unveiling regional differences in glioblastoma patient survival with real-world data from the Norwegian brain tumor quality registry.

Journal: Journal of neuro-oncology

Authors' code: CBTrewin-Nybraten/regional-differences-in-glioblastoma-survival (no license)

Status: code verified, 16 files readable, 1 match

[13147] doi:10.1016/j.brs.2025.09.004 [paper, repository]

Transcranial ultrasound stimulation modulates neuronal membrane potentials across broad timescales in the awake mammalian brain.

Journal: Brain stimulation

Authors' code: HanLabBU/TUS-Brain-Stimulation-2025 (no license)

Status: code verified, 7 files readable, 7 matches

[13148] doi:10.1016/j.ebiom.2025.105917 [paper]

Brain-clinical signatures of basal ganglia-related dysfunctional reorganisation in Parkinson's disease.

Journal: EBioMedicine

Status: code on request

[13149] doi:10.1038/s41380-025-03226-3 [paper, data]

Hippocampal Cofilin and CFL1 gene variants are linked to Alcohol Use Disorder phenotypes.

Journal: Molecular psychiatry

Status: data only, 1 dataset cited

[13150] doi:10.1038/s41467-025-63277-6 [paper, repository]

Social exposome and brain health outcomes of dementia across Latin America.

Journal: Nature communications

Authors' code: OSF 78ng6 (no license)

Status: code verified, 3 files readable

[13151] doi:10.1038/s42003-025-08824-z [paper, repository]

Lead binds HIF-1α contributing to depression-like behaviour through modulating mitochondria-associated astrocyte ferroptosis.

Journal: Communications biology

Authors' code: Biubiufan/manuscript-code (no license)

Status: code verified, 1 file readable, 3 matches

[13152] doi:10.1073/pnas.2415650122 [paper, data]

Structure of a polymorphic repeat at the &lt;i&gt;CACNA1C&lt;/i&gt; schizophrenia locus.

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

Status: data only, 1 dataset cited

[13153] doi:10.1093/braincomms/fcaf344 [paper, repository]

More than chronic pain: behavioural and psychosocial protective factors predict lower brain age in adults with/at risk of knee osteoarthritis over two years.

Journal: Brain communications

Authors' code: tannerjared/DeepBrainNet (no license), tannerjared/ProtectiveBAG (GPL-3.0)

Status: code verified, 7 files readable, 2 matches

[13154] doi:10.1093/braincomms/fcaf345 [paper, repository]

Sulcal morphology in former American football players.

Journal: Brain communications

Authors' code: Zenodo 3666802 (CC-BY-4.0), Zenodo 3258854 (CC-BY-4.0), pnlbwh/pnlnipype (other), pnlbwh/luigi-pnlpipe (other)

Status: code verified, 110 files readable, 3 matches

[13155] doi:10.1101/2025.09.08.673974 [paper, repository]

EthoPy: Reproducible Behavioral Neuroscience Made Simple

Journal: bioRxiv (preprint)

Authors' code: Zenodo 19110086 (CC-BY-4.0), Zenodo 19110085 (CC-BY-4.0)

Status: code verified, 204 files readable

[13156] doi:10.1101/2025.09.11.675501 [paper, repository]

A shared neural architecture underlies finger movement encoding in the human sensorimotor cortex

Journal: bioRxiv (preprint)

Authors' code: gitfront.io/r/theomarins (no license)

Status: code verified

[13157] doi:10.1111/epi.18630 [paper, repository]

Potassium-chloride cotransporter 2 activity dampens induced ictal-like activity in neocortical slices containing the seizure propagation zone of temporal lobe epilepsy patients.

Journal: Epilepsia

Authors' code: Zenodo 15802113 (CC-BY-4.0)

Status: code verified

[13158] doi:10.1117/1.nph.13.s1.s13003 [paper, data]

Developing an inclusive approach to fNIRS research in women of color.

Journal: Neurophotonics

Status: data only, 2 datasets cited

[13159] doi:10.1117/1.nph.13.s1.s13004 [paper]

Linking brain activation to clinical outcomes: an fNIRS study in cochlear implant users and normal hearing individuals.

Journal: Neurophotonics

Status: code on request

[13160] doi:10.1371/journal.pntd.0013521 [paper, data]

Clinical features and mortality risk factors in non-HIV elderly patients with cryptococcal meningitis: A retrospective cohort study from 2013 to 2022.

Journal: PLoS neglected tropical diseases

Status: data only, 1 dataset cited

[13161] doi:10.1371/journal.pone.0329711 [paper, repository]

EEG Sonification improves sleep staging performance in novice stagers.

Journal: PloS one

Authors' code: doi:10.5061/dryad.3bk3j9kz0 (no license)

Status: code verified

[13162] doi:10.1371/journal.pone.0331070 [paper, data]

Prefrontal cortex function and gait alterations during single- and dual-task walking in knee osteoarthritis.

Journal: PloS one

Status: data only, 1 dataset cited

[13163] doi:10.1371/journal.pone.0331085 [paper, repository]

The role of structural connectivity on brain function through a Markov model of signal transmission.

Journal: PloS one

Authors' code: rrazban/brain_commute (no license)

Status: code verified, 14 files readable, 8 matches

[13164] doi:10.1371/journal.pone.0331177 [paper, repository]

Evaluating the effects of multimodal EEG-fNIRS neurofeedback for motor imagery: An experimental platform and study protocol.

Journal: PloS one

Authors' code: gitlab.inria.fr/empenn-public/neurofeedback/fnirs-eeg-nfb (BSD-3-Clause), swh:swh:1:dir:6433906c87451098cd3e324215715ba552396399 (no license)

Status: code verified, 13 files readable, 7 matches

[13165] doi:10.3389/fmicb.2025.1630062 [paper, data]

Multi-omics integration reveals gut microbiota dysbiosis and metabolic alterations of cerebrospinal fluid in children with epilepsy.

Journal: Frontiers in microbiology

Status: data only, 1 dataset cited

[13166] doi:10.3389/fnins.2025.1604173 [paper, data]

Assessing consciousness in patients with locked-in syndrome using their EEG.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[13167] doi:10.3390/biomimetics10090613 [paper, repository]

Human Activity Recognition with Noise-Injected Time-Distributed AlexNet.

Journal: Biomimetics (Basel, Switzerland)

Authors' code: sanjay-dutta/TimeDistributed-AlexNet (no license)

Status: code verified, 8 files readable, 9 matches

[13168] doi:10.3390/brainsci15090977 [paper, data]

Predicting Depression Therapy Outcomes Using EEG-Derived Amplitude Polar Maps.

Journal: Brain sciences

Status: data only, 1 dataset cited

[13169] doi:10.3390/s25185671 [paper, repository]

PMMCT: A Parallel Multimodal CNN-Transformer Model to Detect Slow Eye Movement for Recognizing Driver Sleepiness.

Journal: Sensors (Basel, Switzerland)

Authors' code: DriverSleepinessJiao/SEM_PMMCT (no license)

Status: code verified, 5 files readable, 2 matches

[13170] doi:10.7554/elife.104222 [paper, repository]

Dynamic estimation of the attentional field from visual cortical activity.

Journal: eLife

Authors' code: OSF vek9m (no license), ilonabloem/BloemBakstMcGuireLing_eLife_2025 (MIT)

Status: code verified, 50 files readable, 3 matches

[13171] doi:10.7554/elife.94909 [paper, repository]

Mining the neuroimaging literature.

Journal: eLife

Authors' code: litmining/pubextract (MIT), neuroquery/pubget (MIT), neurodatascience/pubextract (MIT), jeromedockes/pubget (MIT), jeromedockes/labelbuddy (GPL-3.0), Zenodo 15225229 (MIT), neurodatascience/literature_mining_paper (MIT), litmining/labelbuddy-annotations (MIT), jeromedockes/fmri_participant_demographics (MIT)

Status: code verified, 442 files readable, 6 matches

Wednesday, 10 September 2025 (37 papers)

[13172] doi:10.1002/ana.78026 [paper]

Cuneiform Nucleus Stimulation Can Assist Gait Training to Promote Locomotor Recovery in Individuals With Incomplete Tetraplegia.

Journal: Annals of neurology

Status: code on request

[13173] doi:10.1002/mrm.70075 [paper, repository]

On the structural and practical identifiability of multi-echo BBB-ASL tracer kinetic models.

Journal: Magnetic resonance in medicine

Authors' code: tabithamanson/bbb_asl_identifiability (GPL-3.0)

Status: code verified, 16 files readable, 2 matches

[13174] doi:10.1002/prca.70017 [paper, repository]

Hormonal Contraceptives and Depression: A Proteomic Analysis Using Neuronal Models.

Journal: Proteomics. Clinical applications

Authors' code: SamThilmany/ILLUMINE-202401_Analysis-Pipeline (MIT)

Status: code verified, 13 files readable, 7 matches

[13175] doi:10.1016/j.dcn.2025.101613 [paper, repository]

Neural network topology in children's deceptive behaviors: The role of cognitive control and reward processing.

Journal: Developmental cognitive neuroscience

Authors' code: huangpei90/mri_analysis (no license)

Status: code verified, 1 file readable

[13176] doi:10.1016/j.isci.2025.113540 [paper, repository]

Entirely synthetic memory inception via dual optogenetic activation of sensory and dopaminergic neurons.

Journal: iScience

Authors' code: ACCLAB/DABEST-python (Apache-2.0), adamreeve/npTDMS (GPL-3.0)

Status: code verified, 126 files readable

[13177] doi:10.1016/j.neuroimage.2025.121450 [paper, repository]

The impact of alcohol on brain response in social context: A hyperscanning alcohol-administration trial.

Journal: NeuroImage

Authors' code: OSF rzexg (no license)

Status: code verified, 1 file readable

[13178] doi:10.1021/acsmedchemlett.5c00467 [paper, data]

Development of Purine and Pyrrolopyrimidine Scaffolds as Potent, Selective, and Brain Penetrant NUAK1 Inhibitors.

Journal: ACS medicinal chemistry letters

Status: data only, 2 datasets cited

[13179] doi:10.1038/s41401-025-01643-2 [paper, data]

GluN2A-NMDA receptor inhibition disinhibits the prefrontal cortex, reduces forced swim immobility, and impairs sensorimotor gating.

Journal: Acta pharmacologica Sinica

Status: data only, 1 dataset cited

[13180] doi:10.1038/s41467-025-63820-5 [paper]

A neuronal correlate for time interval estimation in the crow's telencephalon.

Journal: Nature communications

Status: code on request

[13181] doi:10.1038/s41586-025-09434-9 [paper, repository]

Functional synapses between neurons and small cell lung cancer.

Journal: Nature

Authors' code: beleggia-lab/neuron-to-SCLC-synapses (MIT), Zenodo 15667860 (MIT)

Status: code verified, 4 files readable, 5 matches

[13182] doi:10.1038/s41586-025-09520-y [paper, repository]

ABCA7 variants impact phosphatidylcholine and mitochondria in neurons.

Journal: Nature

Authors' code: djunamay/ABCA7lof2 (no license), Zenodo 15722817 (CC-BY-4.0)

Status: code verified, 108 files readable, 39 matches

[13183] doi:10.1038/s41593-025-02054-6 [paper, repository]

Grid cells accurately track movement during path integration-based navigation despite switching reference frames.

Journal: Nature neuroscience

Authors' code: kevin-allen/ktan (GPL-3.0), PJJ19/autopi_grid_cell_decoding (no license), PJJ19/Peng_et.al_2025_noInt (no license), kevin-allen/autopipy (GPL-3.0), kevin-allen/spikeA (GPL-3.0)

Status: code verified, 95 files readable, 20 matches

[13184] doi:10.1038/s43587-025-00965-4 [paper, repository]

Plasma proteomic associations with Alzheimer's disease endophenotypes.

Journal: Nature aging

Authors' code: SomaLogic (no license), edammer/netOps (MIT), edammer (no license)

Status: code verified, 5 files readable, 1 match

[13185] doi:10.1073/pnas.2514139122 [paper, data]

Bridging feeling and motion: Insula-premotor dynamics in the processing of action vitality forms.

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

Status: data only, 1 dataset cited

[13186] doi:10.1091/mbc.e25-02-0066 [paper, data]

Defining the role of integrins in melanoblast migration &lt;i&gt;in vivo&lt;/i&gt;.

Journal: Molecular biology of the cell

Status: data only, 1 dataset cited

[13187] doi:10.1093/braincomms/fcaf332 [paper, repository]

Multiregional blood-brain barrier phenotyping identifies the prefrontal cortex as the most vulnerable region to ageing in mice.

Journal: Brain communications

Authors' code: Spires-Jones-Lab/Linear-mixed-models-R (no license), Diaz-Castro-Lab/Regional-blood-brain-barrier-ageing-LMM-script (MIT)

Status: code verified, 4 files readable, 1 match

[13188] doi:10.1093/braincomms/fcaf336 [paper]

Local field potential signal transmission is correlated with the fractional anisotropy measured by diffusion tractography.

Journal: Brain communications

Status: code on request

[13189] doi:10.1097/js9.0000000000003462 [paper, repository]

Causes of death after surgery among cancer patients: a population-based cohort study.

Journal: International journal of surgery (London, England)

Authors' code: links.lww.com/js9/f154 (no license), iris.who.int/handle/10665 (no license)

Status: code verified

[13190] doi:10.1097/pr9.0000000000001331 [paper, data]

Mitogen- and stress-activated kinase 1 in primary sensory neurons contributes to formalin-induced tonic pain.

Journal: Pain reports

Status: data only, 1 dataset cited

[13191] doi:10.1098/rsob.250164 [paper, repository]

The E3 ligase MEX3B forms a tripartite complex with &lt;i&gt;Rest&lt;/i&gt; and &lt;i&gt;Hotair&lt;/i&gt; to determine the proliferative capacity of neural progenitor cells.

Journal: Open biology

Authors' code: doi:10.6084/m9.figshare.c.7979995 (no license)

Status: code found, still to be checked

[13192] doi:10.1126/sciadv.ads1352 [paper, data]

Locusts adopt IP&lt;sub&gt;3&lt;/sub&gt; as a second messenger for olfactory signal transduction.

Journal: Science advances

Status: data only, 1 dataset cited

[13193] doi:10.1126/sciadv.adx6849 [paper, repository]

Differential modulation of movement speed with state-dependent deep brain stimulation in Parkinson's disease.

Journal: Science advances

Authors' code: Zenodo 16794173 (CC-BY-4.0), neuromodulation/speed_selective_dbs (no license)

Status: code verified, 18 files readable, 12 matches

[13194] doi:10.1162/imag.a.139 [paper, repository]

Functional ultrasound imaging combined with machine learning for whole-brain analysis of drug-induced hemodynamic changes.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: DeightonJared/fUSI_CAM (no license)

Status: code verified, 10 files readable, 5 matches

[13195] doi:10.1162/imag.a.140 [paper, data]

Phase-synchronized 40 Hz tACS and iTBS effects on gamma oscillations.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

[13196] doi:10.1162/imag.a.144 [paper, repository]

Widespread associations between behavioral metrics and brain microstructure in ASD suggest age mediates subtypes of ASD.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: btn6sb/Conduction_Velocity (no license)

Status: code verified, 1 file readable

[13197] doi:10.1162/imag.a.147 [paper, repository]

Automated generation of epilepsy surgery resection masks: The RAMPS pipeline.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: cnnp-lab/RAMPS (no license)

Status: code verified, 2 files readable, 1 match

[13198] doi:10.1177/13524585251364720 [paper, repository]

Parasagittal dural space and arachnoid granulations morphology in pre-clinical and early clinical multiple sclerosis.

Journal: Multiple sclerosis (Houndmills, Basingstoke, England)

Authors' code: Center-of-Imaging-Biomarker-Development/spesis (other)

Status: empty repository, 2 files readable

[13199] doi:10.1371/journal.pcbi.1013469 [paper, repository]

Cortical networks with multiple interneuron types generate oscillatory patterns during predictive coding.

Journal: PLoS computational biology

Authors' code: Kwangjun-uva/CoCoPC (MIT)

Status: code verified, 23 files readable, 5 matches

[13200] doi:10.3389/fcimb.2025.1574660 [paper, data]

Parasite-mediated alteration of behaviour and biomolecular dynamics in a mouse model.

Journal: Frontiers in cellular and infection microbiology

Status: data only, 2 datasets cited

[13201] doi:10.3389/fneur.2025.1616509 [paper, repository]

Scanning faces: a deep learning approach to studying eye movements in prosopagnosia.

Journal: Frontiers in neurology

Authors' code: akazemian/Scanning-Faces-and-Prosopagnosia (no license)

Status: code verified, 14 files readable, 6 matches

[13202] doi:10.3389/fneur.2025.1620469 [paper, repository]

Federated learning for lesion segmentation in multiple sclerosis: a real-world multi-center feasibility study.

Journal: Frontiers in neurology

Authors' code: kaapana/kaapana (AGPL-3.0)

Status: code verified, 1,137 files readable, 4 matches

[13203] doi:10.3389/fnhum.2025.1642615 [paper, repository]

Neural signatures of prioritization and facilitation in retrieving repeated items in visual working memory.

Journal: Frontiers in human neuroscience

Authors' code: dynamicdip (no license)

Status: code verified

[13204] doi:10.3390/cells14181417 [paper, data]

Transcriptomic Alteration in FUS-ALS Points Towards Apoptosis-Rather than Ferroptosis-Related Cell Death Pathway.

Journal: Cells

Status: data only, 1 dataset cited

[13205] doi:10.3390/diagnostics15182289 [paper, data]

&lt;i&gt;NUAK2&lt;/i&gt; Pathogenic Variants Are Definitively Associated with Neural Tube Defects in Humans: New Genotype-Phenotype Correlation and Review of the Literature.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 1 dataset cited

[13206] doi:10.3390/ijms26188821 [paper, data]

Neuroprotective Effects of Low-Dose Graphenic Materials on SN4741 Embryonic Stem Cells Against ER Stress and MPTP-Induced Oxidative Stress.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[13207] doi:10.7554/elife.102269 [paper, data]

The flexible stalk domain of sTREM2 modulates its interactions with brain-based phospholipids.

Journal: eLife

Status: data only, 1 dataset cited

[13208] doi:10.7554/elife.103608 [paper, repository]

Regulatory networks of KRAB zinc finger genes and transposable elements changed during human brain evolution and disease.

Journal: eLife

Authors' code: bioconductor.org/packages/release (no license), ferygood/primateBrain_TEKRABZNF (MIT)

Status: code verified, 33 files readable, 8 matches

Tuesday, 9 September 2025 (29 papers, 8 on this page)

[13209] doi:10.1002/adhm.202501169 [paper, repository]

Facile Deep Brain Electrode Coating with MXene for Improved Electrode Performance.

Journal: Advanced healthcare materials

Authors' code: Toronto-TNBS/spooky-spikes (no license)

Status: code verified, 8 files readable, 2 matches

[13210] doi:10.1002/advs.202505955 [paper]

Super-Resolution Compatible DNA Labeling Technique Reveals Chromatin Mobility and Organization Changes During Differentiation.

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

Status: code on request

[13211] doi:10.1016/j.ajhg.2025.08.015 [paper, data]

Bi-allelic deleterious variants in SNAPIN, which encodes a retrograde dynein adaptor, cause a prenatal-onset neurodevelopmental disorder.

Journal: American journal of human genetics

Status: code on request, 1 dataset cited

[13212] doi:10.1021/acschemneuro.5c00519 [paper, data]

Niraparib Demonstrates Therapeutic Potential in Multiple Sclerosis through Inhibition of IL-17A Receptor Interaction and Promotion of Remyelination.

Journal: ACS chemical neuroscience

Status: data only, 6 datasets cited

[13213] doi:10.1038/s41467-025-63381-7 [paper, repository]

Racial stereotypes bias the neural representation of objects towards perceived weapons.

Journal: Nature communications

Authors' code: OSF j4n5w (no license)

Status: code verified, 10 files readable, 3 matches

[13214] doi:10.1038/s41467-025-63857-6 [paper, data]

Local activity alterations in individuals with autism correlate with neurotransmitter properties and ketamine-induced brain changes.

Journal: Nature communications

Status: data only, 1 dataset cited

[13215] doi:10.1038/s42003-025-08583-x [paper, repository]

Mitochondria delay action potential propagation.

Journal: Communications biology

Authors' code: modeldb:2019788 (no license)

Status: code verified

[13216] doi:10.1038/s42003-025-08680-x [paper]

Neddylation regulates the development and function of glutamatergic neurons.

Journal: Communications biology

Status: code on request

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