Every paper, by date: page 63

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 63 of 200: 20 August 2025 to 13 August 2025.

Wednesday, 20 August 2025 (48 papers, 16 on this page)

[13889] doi:10.1186/s13024-025-00878-1 [paper, repository]

Early intervention anti-Aβ immunotherapy attenuates microglial activation without inducing exhaustion at residual plaques.

Journal: Molecular neurodegeneration

Authors' code: Zenodo 14812455 (CC-BY-NC-ND-4.0)

Status: code verified

[13890] doi:10.1212/wnl.0000000000213921 [paper]

Ultra-High Field 7T MRI in a Drug-Resistant Pediatric Epilepsy Cohort: Image Comparison and Radiologic Outcomes.

Journal: Neurology

Status: code on request

[13891] doi:10.1212/wnl.0000000000214001 [paper, data]

Dynamic Interplay Between Wake Slow Waves and Epileptiform Discharges in the Epileptogenic Zone.

Journal: Neurology

Status: data only, 2 datasets cited

[13892] doi:10.12688/f1000research.166248.1 [paper, data]

Personalised and Collaborative Learning Experience (PCLE) Framework for AI-driven Learning Management System (LMS).

Journal: F1000Research

Status: data only, 2 datasets cited

[13893] doi:10.1371/journal.pbio.3002906 [paper, repository]

Short-range human cortico-cortical white matter fibers have thinner axons and are less myelinated compared to long-range fibers despite a similar g-ratio.

Journal: PLoS biology

Authors' code: PhilipRuthig/ShortvsLongfibers (MIT), Zenodo 15601201 (MIT), Zenodo 15601202 (MIT)

Status: code verified, 14 files readable, 11 matches

[13894] doi:10.1371/journal.ppat.1013411 [paper, data]

Persistent type I interferon signaling within the brain of people with HIV on ART with cognitive impairment.

Journal: PLoS pathogens

Status: data only, 1 dataset cited

[13895] doi:10.1523/jneurosci.0050-25.2025 [paper, repository]

Isolating Brain Mechanisms of Expectancy Effects on Pain: Cue-Based Stimulus Expectancies versus Placebo-Based Treatment Expectancies.

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

Authors' code: canlab/CanlabCore (GPL-2.0)

Status: code verified, 2,000 files readable, 8 matches

[13896] doi:10.1523/jneurosci.1705-24.2025 [paper, repository]

SRC Kinase Isoforms Regulate mRNA Splicing during Neural Development.

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

Authors' code: gpertea/gffcompare (MIT)

Status: code verified, 32 files readable

[13897] doi:10.3389/fmed.2025.1646249 [paper, data]

Diagnosing autism spectrum disorders using a double deep Q-Network framework based on social media footprints.

Journal: Frontiers in medicine

Status: data only, 1 dataset cited

[13898] doi:10.3389/fmed.2025.1659653 [paper, repository]

A novel MRI-based deep learning-radiomics framework for evaluating cerebrospinal fluid signal in central nervous system infection.

Journal: Frontiers in medicine

Authors' code: DrGokalpTulum/MRI-Based-Deep-Learning-Radiomics-Framework-for-Evaluating-Cerebrospinal-Fluid-Signal- (no license)

Status: code verified, 3 files readable, 7 matches

[13899] doi:10.3389/fnagi.2025.1550673 [paper, repository]

Disrupted calcium dynamics and electrophysiological activity in the stratum pyramidale and hippocampal alveus during fear conditioning in the 5xFAD model of Alzheimer's disease.

Journal: Frontiers in aging neuroscience

Authors' code: lmn-projects/wes-2.0 (no license), bothlab/pomidaq (LGPL-3.0), syntalos/syntalos (no license), AutoHotkey/AutoHotkey (GPL-2.0), denisecailab/minian (GPL-3.0), spbstu-applied-math/NeuroActivityToolkit (no license)

Status: code verified, 1,054 files readable, 3 matches

[13900] doi:10.3389/fncel.2025.1606451 [paper, data]

Buffering brain aging: education moderates language impairment in Parkinson's disease.

Journal: Frontiers in cellular neuroscience

Status: data only, 1 dataset cited

[13901] doi:10.3389/fneur.2025.1612598 [paper, repository]

Improved injury detection through harmonizing multi-site neuroimaging data after experimental TBI: a Translational Outcomes Project in Neurotrauma consortium study.

Journal: Frontiers in neurology

Authors' code: ngharris/neurocombat_TBI (no license), Jfortin1/neuroCombat_Rpackage (no license)

Status: code verified, 12 files readable, 3 matches

[13902] doi:10.3758/s13415-025-01328-7 [paper, repository]

The relationship between interoception of breathing, anxiety, and resting-state functional connectivity in the brain.

Journal: Cognitive, affective & behavioral neuroscience

Authors' code: translationalneuromodeling/tapas (GPL-3.0)

Status: code verified, 1,237 files readable, 8 matches

[13903] doi:10.59275/j.melba.2025-gc4c [paper, repository]

A Neural Conditional Random Field Model Using Deep Features and Learnable Functions for End-to-End MRI Prostate Zonal Segmentation.

Journal: The journal of machine learning for biomedical imaging

Authors' code: kbressem/prostate158 (MIT)

Status: code verified, 13 files readable, 2 matches

[13904] doi:10.7554/elife.102308 [paper, data]

Inhibitory basal ganglia nuclei differentially innervate pedunculopontine nucleus subpopulations and evoke differential motor and valence behaviors.

Journal: eLife

Status: data only, 1 dataset cited

Tuesday, 19 August 2025 (55 papers)

[13905] doi:10.1002/advs.202505779 [paper]

Identifying Tipping Points during Healthy Brain Aging through Single-Nucleus Transcriptomic Analysis.

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

Status: data only

[13906] doi:10.1007/s00429-025-02996-4 [paper, data]

Mapping cross-modal functional connectivity of major neurotransmitter systems in the human brain.

Journal: Brain structure & function

Status: data only, 1 dataset cited

[13907] doi:10.1016/j.celrep.2025.116165 [paper, repository]

Spatiotemporal profiling reveals the impact of caloric restriction in the aging mammalian brain.

Journal: Cell reports

Authors' code: JunyueCaoLab/EasySci (MIT), zhangzehao626/PanSci (MIT), FelixKrueger/TrimGalore (GPL-3.0), alexdobin/STAR (MIT), scverse/scanpy (BSD-3-Clause), swolock/scrublet (MIT), scverse/decoupler (BSD-3-Clause), rapidsai/cuml (Apache-2.0), welch-lab/liger (GPL-3.0)

Status: code verified, 1,356 files readable, 8 matches

[13908] doi:10.1016/j.dib.2025.111992 [paper, data]

Multimodal insights into diverse pain experiences: PhysioPain dataset.

Journal: Data in brief

Status: data only, 3 datasets cited

[13909] doi:10.1016/j.isci.2025.113398 [paper, repository]

Local activation of Cxcl12a signaling controls olfactory placode morphogenesis in zebrafish embryos.

Journal: iScience

Authors' code: gletort/Morphoe (GPL-3.0), JulieBatut/Zilliox-Letort_2024 (no license)

Status: code verified, 50 files readable, 3 matches

[13910] doi:10.1016/j.isci.2025.113401 [paper]

Mesenchymal stromal cell secretome-induced synaptogenesis is mediated by thrombospondin-1.

Journal: iScience

Status: code on request

[13911] doi:10.1016/j.jbc.2025.110613 [paper, data]

The SNARE protein Ykt6 drives insertion of the GluA1 and GluA2 glutamate receptors at synaptic spines during long-term potentiation.

Journal: The Journal of biological chemistry

Status: data only, 1 dataset cited

[13912] doi:10.1016/j.lanepe.2025.101428 [paper]

Risk factors for dementia and cognitive impairment within 5 years after stroke: a prospective multicentre cohort study.

Journal: The Lancet regional health. Europe

Status: code on request

[13913] doi:10.1016/j.neuro.2025.08.004 [paper, data]

PCB 37 (3,4, 4'-trichlorobiphenyl) increased apoptosis and modulated neuronal morphogenesis in primary rat cortical neuron-glia cocultures in a concentration-, sex-, age-, and CREB-dependent manner.

Journal: Neurotoxicology

Status: data only, 1 dataset cited

[13914] doi:10.1016/j.ohx.2025.e00689 [paper, repository]

Enhancing mobile EEG: Software development and performance insights of the DreamMachine.

Journal: HardwareX

Authors' code: Zenodo 14627406 (GPL-3.0), paria-samimi/dream-machine-eeg (GPL-3.0), denizmgun/eeg-droid (no license)

Status: code verified, 239 files readable, 1 match

[13915] doi:10.1016/j.xpro.2025.104036 [paper]

Protocol for mouse brain tissue processing and downstream analysis of circRNA-protein interactions in vivo.

Journal: STAR protocols

Status: code on request

[13916] doi:10.1016/j.ymthe.2025.08.024 [paper]

Intravenously injected hPSC-derived pericytes for Alzheimer disease: Neuroprotection and vascular repair via extracellular vesicles.

Journal: Molecular therapy : the journal of the American Society of Gene Therapy

Status: code on request

[13917] doi:10.1038/s41380-025-03136-4 [paper, repository]

Association between polygenic risk for Major Depression and brain structure in a mega-analysis of 50,975 participants across 11 studies.

Journal: Molecular psychiatry

Authors' code: xshen796/enigma_mdd_prs (MIT)

Status: code verified, 17 files readable

[13918] doi:10.1038/s41467-025-61921-9 [paper, repository]

The chronODE framework for modelling multi-omic time series with ordinary differential equations and machine learning.

Journal: Nature communications

Authors' code: gersteinlab/chronODE (no license), Zenodo 15574976 (CC-BY-4.0)

Status: code verified, 6 files readable, 2 matches

[13919] doi:10.1038/s41467-025-62793-9 [paper, repository]

Charting the spatial transcriptome of the human cerebral cortex at single-cell resolution.

Journal: Nature communications

Authors' code: BGIResearch/SAW (GPL-3.0), lcy1364/Cortex-Atlas-Code (no license), Zenodo 14311048 (CC-BY-4.0)

Status: code verified, 199 files readable, 26 matches

[13920] doi:10.1038/s41467-025-62856-x [paper, repository]

Speed modulations in grid cell information geometry.

Journal: Nature communications

Authors' code: AgeYY/speed_grid_cell_information (MIT)

Status: code verified, 137 files readable, 25 matches

[13921] doi:10.1038/s41467-025-62949-7 [paper, repository]

Coordinated multi-level adaptations across neocortical areas during task learning.

Journal: Nature communications

Authors' code: HelmchenLabSoftware/multiarea_learning_manuscript (no license)

Status: code verified, 19 files readable, 2 matches

[13922] doi:10.1038/s41467-025-62980-8 [paper, repository]

Serotonin and psilocybin activate 5-HT<sub>1B</sub> receptors to suppress cortical signaling through the claustrum.

Journal: Nature communications

Authors' code: MathurLabUMSOM/maddenetal2025 (GPL-3.0)

Status: code verified, 13 files readable, 1 match

[13923] doi:10.1038/s41467-025-63003-2 [paper, data]

Apelin as a CNS-specific pathway for fenestrated capillary formation in the choroid plexus.

Journal: Nature communications

Status: data only, 1 dataset cited

[13924] doi:10.1038/s41467-025-63118-6 [paper, repository]

Corticotropin-releasing hormone modulates NREM sleep consolidation through the thalamic reticular nucleus.

Journal: Nature communications

Authors' code: figshare 29195285 (CC-BY-4.0)

Status: code verified

[13925] doi:10.1038/s41539-025-00346-x [paper]

Mediational effects of reading-related intermediate phenotypes from polygenic scores to reading skills.

Journal: NPJ science of learning

Status: code on request

[13926] doi:10.1038/s41556-025-01737-3 [paper, data]

Systematic decoding of functional enhancer connectomes and risk variants in human glioma.

Journal: Nature cell biology

Status: code on request, 2 datasets cited

[13927] doi:10.1038/s41597-025-05791-2 [paper, data]

Hierarchical Event Descriptor library schema for EEG data annotation.

Journal: Scientific data

Status: data only, 2 datasets cited

[13928] doi:10.1038/s41598-025-14672-y [paper, repository]

Dynamic cerebral autoregulation during and 3 months after endovascular treatment in large vessel occlusion stroke.

Journal: Scientific reports

Authors' code: openfnirs.org/software/homer (no license), car-net.org/tools (no license)

Status: code verified

[13929] doi:10.1038/s41598-025-16086-2 [paper, data]

Optimized bio-signal reconstruction and watermarking via enhanced fractional orthogonal moments.

Journal: Scientific reports

Status: data only, 4 datasets cited

[13930] doi:10.1038/s42003-025-08690-9 [paper, repository]

Local homeostasis preserves global neural dynamics compensating for structural loss during human lifespan aging.

Journal: Communications biology

Authors' code: cbdl/agingmdmf (no license)

Status: code verified, 13 files readable, 5 matches

[13931] doi:10.1038/s42255-025-01342-6 [paper, repository]

Fluorescent GLP1R/GIPR dual agonist probes reveal cell targets in the pancreas and brain.

Journal: Nature metabolism

Authors' code: cran.r-project.org/web/packages (no license)

Status: code verified

[13932] doi:10.1038/s43587-025-00940-z [paper, repository]

Targeting iron-associated protein Ftl1 in the brain of old mice improves age-related cognitive impairment.

Journal: Nature aging

Authors' code: emc2cube/Bioinformatics (EUPL-1.2)

Status: code verified, 10 files readable, 2 matches

[13933] doi:10.1038/s43856-025-01083-3 [paper, repository]

A deep learning model to predict glioma recurrence using integrated genomic and clinical data.

Journal: Communications medicine

Authors' code: TranslationalBioinformaticsLab/LUNAR (no license), Zenodo 16339523 (CC-BY-4.0)

Status: code verified, 5 files readable, 15 matches

[13934] doi:10.1073/pnas.2421095122 [paper, repository]

Altricial brains and the evolution of infant vocal learning.

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

Authors' code: biagzi/altricial_brain_vocal_learning (MIT), OSF ynpqv (no license)

Status: code verified, 9 files readable, 7 matches

[13935] doi:10.1073/pnas.2503188122 [paper, data]

Action-type mapping principles extend beyond evolutionarily conserved actions, even in people born without hands.

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

Status: data only, 1 dataset cited

[13936] doi:10.1073/pnas.2506316122 [paper, repository]

Sparse autoencoders uncover biologically interpretable features in protein language model representations.

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

Authors' code: onkarsg10/Rep_SAEs_PLMs (no license)

Status: code verified, 28 files readable, 12 matches

[13937] doi:10.1073/pnas.2513768122 [paper, repository]

Efficient neural encoding as revealed by bilingualism.

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

Authors' code: pwdonh/bilingual_networks (MIT), OSF 3cbsm (no license)

Status: code verified, 37 files readable, 4 matches

[13938] doi:10.1093/braincomms/fcaf301 [paper, repository]

Activation metrics for structural connectivity recruitment in deep brain stimulation.

Journal: Brain communications

Authors' code: netstim/leaddbs (GPL-3.0)

Status: code verified, 2,000 files readable, 6 matches

[13939] doi:10.1093/braincomms/fcaf305 [paper, repository]

Superficial and deep white matter abnormalities in temporal lobe epilepsy.

Journal: Brain communications

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

Status: empty repository, 1 file readable

[13940] doi:10.1093/nc/niaf025 [paper, data]

Early ERPs dissociate subjectively nonconscious low- and high-level face processing.

Journal: Neuroscience of consciousness

Status: data only, 1 dataset cited

[13941] doi:10.1111/epi.18606 [paper, repository]

Absence seizures and sleep-wake abnormalities in a rat model of GRIN2B neurodevelopmental disorder.

Journal: Epilepsia

Authors' code: Gonzalez-Sulser-Team/AUTOMATIC-SLEEP-SCORER (no license), Gonzalez-Sulser-Team/SWD-Automatic-Identification (no license), Zenodo 12700972 (CC-BY-4.0)

Status: code verified, 104 files readable

[13942] doi:10.1128/jvi.00870-25 [paper, repository]

Influence of the pre-membrane and envelope proteins on structure, pathogenicity, and tropism of tick-borne encephalitis virus.

Journal: Journal of virology

Authors' code: Clinical-Genomics-Umea/TBE_analysis (no license)

Status: code verified, 3 files readable

[13943] doi:10.1162/imag.a.111 [paper, data]

Characterization of neurite and soma organization in the brain and spinal cord with diffusion MRI.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

[13944] doi:10.1162/imag.a.117 [paper, repository]

How much is "enough"? Considerations for functional connectivity reliability in pediatric naturalistic fMRI.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: BrayNeuroimagingLab/BNL_open (no license)

Status: code verified, 160 files readable, 8 matches

[13945] doi:10.1186/s12859-025-06223-z [paper, repository]

consHLA: a next generation sequencing consensus-based HLA typing workflow.

Journal: BMC bioinformatics

Authors' code: common-workflow-language/cwltool (Apache-2.0), CCICB/consHLA (MIT)

Status: code verified, 130 files readable, 8 matches

[13946] doi:10.1186/s42466-025-00416-w [paper, repository]

Localized network damage related to white matter hyperintensities is linked to worse outcome after severe stroke.

Journal: Neurological research and practice

Authors' code: kjamison/nemo (MIT)

Status: code verified, 27 files readable, 2 matches

[13947] doi:10.1212/nxi.0000000000200459 [paper, data]

Unraveling Microstructural and Macrostructural Brain Age Dynamics in Multiple Sclerosis.

Journal: Neurology(R) neuroimmunology & neuroinflammation

Status: data only, 6 datasets cited

[13948] doi:10.12688/f1000research.162742.3 [paper, data]

Review the role of oxygen-delivering nanobubbles in stroke therapy: A novel approach.

Journal: F1000Research

Status: data only, 2 datasets cited

[13949] doi:10.1371/journal.pbio.3003258 [paper, repository]

Involuntary and voluntary memory retrieval relies on distinct neural representations and oscillatory processes.

Journal: PLoS biology

Authors' code: Zenodo 10781492 (CC-BY-4.0)

Status: code verified

[13950] doi:10.3389/fninf.2025.1557879 [paper, repository]

Leveraging neuroinformatics to understand cognitive phenotypes in elite athletes through systems neuroscience.

Journal: Frontiers in neuroinformatics

Authors' code: QIyu2025007/NeuroAthlete-LCEN (no license)

Status: dead link

[13951] doi:10.3389/fninf.2025.1618050 [paper, data]

Improving EEG classification of alcoholic and control subjects using DWT-CNN-BiGRU with various noise filtering techniques.

Journal: Frontiers in neuroinformatics

Status: data only, 1 dataset cited

[13952] doi:10.3389/fnins.2025.1631752 [paper, repository]

Impacts of mitochondrial dysfunction on axonal microtubule bundles as a potential mechanism of neurodegeneration.

Journal: Frontiers in neuroscience

Authors' code: figshare 106631 (CC-BY-4.0)

Status: empty repository

[13953] doi:10.3390/ani15162431 [paper, data]

Acute Stress Effects over Time on Gene Expression Patterns in the Male Zebrafish (<i>Danio rerio</i>) Brain.

Journal: Animals : an open access journal from MDPI

Status: data only, 1 dataset cited

[13954] doi:10.3390/biomimetics10080544 [paper, data]

Hybrid Algorithms Based on Two Evolutionary Computations for Image Classification.

Journal: Biomimetics (Basel, Switzerland)

Status: data only, 1 dataset cited

[13955] doi:10.3390/brainsci15080882 [paper, repository]

Reproducing the Few-Shot Learning Capabilities of the Visual Ventral Pathway Using Vision Transformers and Neural Fields.

Journal: Brain sciences

Authors' code: Sue214313/FSL (no license)

Status: code verified, 17 files readable

[13956] doi:10.3390/brainsci15080883 [paper, data]

GAH-TNet: A Graph Attention-Based Hierarchical Temporal Network for EEG Motor Imagery Decoding.

Journal: Brain sciences

Status: data only, 1 dataset cited

[13957] doi:10.3390/ijms26168008 [paper, repository]

Gestational and Lactation Exposure to Perfluorohexanoic Acid Results in Sex-Specific Changes in the Cerebellum in Mice.

Journal: International journal of molecular sciences

Authors' code: elizacp27/IJMS_Aug2025 (no license)

Status: code verified, 14 files readable, 5 matches

[13958] doi:10.3390/v17081134 [paper, data]

Direct oHSV Infection Induces DC Maturation and a Tumor Therapeutic Response.

Journal: Viruses

Status: data only, 1 dataset cited

[13959] doi:10.7554/elife.96076 [paper, repository]

Gliogenesis from the subventricular zone modulates the extracellular matrix at the glial scar after brain ischemia.

Journal: eLife

Authors' code: mariardaya/hyaluronan_v2 (no license), SoriaFN/Tools (MIT)

Status: empty repository, 3 files readable

Monday, 18 August 2025 (36 papers)

[13960] doi:10.1007/s11357-025-01834-z [paper, repository]

Patterns of transcriptomic aging in the hippocampus of rhesus macaques highlight midlife transitions.

Journal: GeroScience

Authors' code: tannerndrsn4/hippocampus-rnaseq-nonlinear-modeling (no license)

Status: code verified, 11 files readable, 4 matches

[13961] doi:10.1016/j.nicl.2025.103870 [paper, repository]

Treatment outcome is associated with pre-treatment connectome measures across psychiatric disorders - evidence for connectomic reserve?

Journal: NeuroImage. Clinical

Authors' code: chrisvriend/core-multi (Apache-2.0)

Status: code verified, 21 files readable, 8 matches

[13962] doi:10.1016/j.xpro.2025.104041 [paper, repository]

Protocol for extracting and evaluating activity distributions in rat electrocorticograms with principal component analysis and k-nearest neighbor.

Journal: STAR protocols

Authors' code: neural-basis-of-sensorimotor-control/matlab-analysis (no license)

Status: code verified, 680 files readable

[13963] doi:10.1038/s41398-025-03514-0 [paper, repository]

Multivariate genome-wide association analysis of dyslexia and quantitative reading skill improves gene discovery.

Journal: Translational psychiatry

Authors' code: hayley-mountford/multivariate_GWAS_dyslexia (no license)

Status: code verified, 17 files readable, 1 match

[13964] doi:10.1038/s41467-025-62831-6 [paper, data]

A cerebello-thalamo-cortical pathway transmits reward-based post-error signals for motor timing correction during learning in male mice.

Journal: Nature communications

Status: data only, 1 dataset cited

[13965] doi:10.1038/s41467-025-63031-y [paper, repository]

Investigational eIF2B activator DNL343 modulates the integrated stress response in preclinical models of TDP-43 pathology and individuals with ALS in a randomized clinical trial.

Journal: Nature communications

Authors' code: Zenodo 14041444 (CC-BY-NC-ND-4.0)

Status: code verified

[13966] doi:10.1038/s41467-025-63062-5 [paper, repository]

Experience-dependent maternal defense behavior mediated by profrontal cortical projections to the medial preoptic area in mice.

Journal: Nature communications

Authors' code: Aharoni-Lab/Miniscope-DAQ-QT-Software (GPL-3.0), zhoupc/CNMF_E (GPL-3.0), WuKaiibin/Animal-behav-prediction-LiangLab (Apache-2.0)

Status: code verified, 340 files readable

[13967] doi:10.1038/s41593-025-02042-w [paper, repository]

FOXP genes regulate Purkinje cell diversity and cerebellar morphogenesis.

Journal: Nature neuroscience

Authors' code: JLiLab/Studying-Parkinje-cell-heterogeneity (MIT)

Status: code verified, 26 files readable, 8 matches

[13968] doi:10.1038/s41598-025-14636-2 [paper, repository]

Deep fusion of incomplete multi-omic data for molecular mechanism of Alzheimer's disease.

Journal: Scientific reports

Authors' code: JW-Yan/TransFuse (MIT)

Status: code verified, 6 files readable, 6 matches

[13969] doi:10.1038/s44271-025-00308-4 [paper, repository]

Neural correlates reveal separate stages of spontaneous face perception.

Journal: Communications psychology

Authors' code: Zenodo 15833508 (CC-BY-4.0), amandakrobinson/illusory-face-eeg (no license)

Status: code verified, 24 files readable, 6 matches

[13970] doi:10.1073/pnas.2505294122 [paper, data]

Interhemispheric resting-state functional connectivity correlates with spontaneous neural interactions.

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

Status: data only, 3 datasets cited

[13971] doi:10.1093/nc/niaf021 [paper, repository]

And then there was light in the ganzfeld: clarifying the methods, experiences, and modulating factors of hallucinations and decays.

Journal: Neuroscience of consciousness

Authors' code: OSF w4t6k (no license)

Status: code verified, 3 files readable

[13972] doi:10.1093/sleepadvances/zpaf054 [paper, repository]

Experimentally inducing dreams of remote emotional memory.

Journal: Sleep advances : a journal of the Sleep Research Society

Authors' code: OSF ewmp7 (no license)

Status: code verified, 1 file readable, 3 matches

[13973] doi:10.1109/access.2025.3599857 [paper, repository]

ADAM-1: An AI Reasoning and Bioinformatics Model for Alzheimer's Disease Detection and Microbiome-Clinical Data Integration.

Journal: IEEE access : practical innovations, open solutions

Authors' code: melhzy/ADAM (no license)

Status: code verified, 12 files readable, 14 matches

[13974] doi:10.1128/jvi.01130-25 [paper, data]

Discovery and rescue of porcine bastroviruses associated with polioencephalomyelitis in domestic pigs.

Journal: Journal of virology

Status: data only, 1 dataset cited

[13975] doi:10.1128/mbio.00052-25 [paper, data]

AP2X-1 is a negative regulator of <i>Toxoplasma gondii</i> sexual commitment.

Journal: mBio

Status: data only, 1 dataset cited

[13976] doi:10.1162/imag.a.101 [paper, repository]

Canonical cortico-hippocampal dynamics underlie memory of navigational episodes and its early decline in aging.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF fyuj4 (no license)

Status: code verified, 1 file readable

[13977] doi:10.1186/s10194-025-02128-7 [paper, data]

Unveiling migraine subtype heterogeneity and risk loci: integrated genome-wide association study and single-cell transcriptomics discovery.

Journal: The journal of headache and pain

Status: data only, 7 datasets cited

[13978] doi:10.1186/s12967-025-06935-z [paper, data]

Single-cell transcriptomic analysis reveals metastatic and immunosuppressive characteristics in meningioma brain-tumor interface.

Journal: Journal of translational medicine

Status: data only, 1 dataset cited

[13979] doi:10.1186/s13059-025-03708-1 [paper, repository]

Direct and bisulfite-free 5-methylcytosine and 5-hydroxymethylcytosine sequencing at single-cell resolution with scTAPS and scCAPS + .

Journal: Genome biology

Authors' code: jfeicheng92/scTAPS_CAPS (MIT), Zenodo 14039493 (MIT)

Status: code verified, 24 files readable, 6 matches

[13980] doi:10.1186/s13073-025-01519-4 [paper, repository]

Single-nucleus transcriptomics reveals a distinct microglial state and increased MSR1-mediated phagocytosis as common features across dementia subtypes.

Journal: Genome medicine

Authors' code: JinmiaoChenLab/NNI_paper (no license)

Status: code verified, 15 files readable, 5 matches

[13981] doi:10.1186/s40478-025-02084-y [paper, data]

TDP-43 pathology is associated with divergent protein profiles in ALS brain and spinal cord.

Journal: Acta neuropathologica communications

Status: data only, 3 datasets cited

[13982] doi:10.1371/journal.pcbi.1012701 [paper, repository]

Tactile stimulations reduce or promote the segregation of auditory streams: psychophysics and modeling.

Journal: PLoS computational biology

Authors' code: farzaneh-darki/Darki2024_tactile (no license)

Status: empty repository

[13983] doi:10.1371/journal.pcbi.1013371 [paper, repository]

Stochastic activity in low-rank recurrent neural networks.

Journal: PLoS computational biology

Authors' code: fmastrogiuseppe/StochasticLowRank (no license)

Status: code verified, 15 files readable

[13984] doi:10.1371/journal.pcbi.1013391 [paper, repository]

A feedforward mechanism for human-like contour integration.

Journal: PLoS computational biology

Authors' code: feziodoshi/dnn_contour_integration (no license)

Status: code verified, 26 files readable, 19 matches

[13985] doi:10.1371/journal.pcbi.1013398 [paper, repository]

Heterogeneous synaptic homeostasis: A novel mechanism boosting information propagation in the cortex.

Journal: PLoS computational biology

Authors' code: Zenodo 15753856 (GPL-3.0), Zenodo 15753882 (GPL-3.0), fraziphy/heterogeneous_synaptic_homeostasis (GPL-3.0), fraziphy/iquanta (GPL-3.0)

Status: code verified, 36 files readable, 14 matches

[13986] doi:10.1371/journal.pone.0330085 [paper]

Deep learning-based Alzheimer's disease detection using magnetic resonance imaging and gene expression data.

Journal: PloS one

Status: data only

[13987] doi:10.1515/biol-2025-1157 [paper, data]

RUNX1 promotes denervation-induced muscle atrophy by activating the JUNB/NF-κB pathway and driving M1 macrophage polarization.

Journal: Open life sciences

Status: data only, 1 dataset cited

[13988] doi:10.1523/eneuro.0219-25.2025 [paper, repository]

Excitatory Synaptic Transmission Is Differentially Modulated by Opioid Receptors along the Claustrocingulate Pathway.

Journal: eNeuro

Authors' code: rachelhostetler/abcatlas_usecases (no license)

Status: code verified, 5 files readable, 2 matches

[13989] doi:10.3389/fnagi.2025.1632877 [paper, data]

Accelerated midlife endocrine and bioenergetic brain aging in APOE4 females.

Journal: Frontiers in aging neuroscience

Status: data only, 1 dataset cited

[13990] doi:10.3389/fncir.2025.1574877 [paper, repository]

Non-negative connectivity causes bow-tie architecture in neural circuits.

Journal: Frontiers in neural circuits

Authors' code: lzf531/Bow-tie-structure (no license)

Status: code verified, 5 files readable

[13991] doi:10.3389/fncom.2025.1617883 [paper, data]

Privacy-preserving dementia classification from EEG via hybrid-fusion EEGNetv4 and federated learning.

Journal: Frontiers in computational neuroscience

Status: data only, 1 dataset cited

[13992] doi:10.3389/fnins.2025.1612884 [paper, data]

A comparative study of EEG functional and effective connectivity patterns in children with learning difficulties during reading and math tasks.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[13993] doi:10.3389/fnins.2025.1630664 [paper, data]

Automatic detection and prediction of epileptic EEG signals based on nonlinear dynamics and deep learning: a review.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[13994] doi:10.3390/brainsci15080877 [paper, data]

A Multi-Branch Network for Integrating Spatial, Spectral, and Temporal Features in Motor Imagery EEG Classification.

Journal: Brain sciences

Status: data only, 2 datasets cited

[13995] doi:10.3390/s25165121 [paper, repository]

A Style Transfer-Based Fast Image Quality Assessment Method for Image Sensors.

Journal: Sensors (Basel, Switzerland)

Authors' code: Math-Computer/SCIQA (no license)

Status: code verified, 4 files readable

Sunday, 17 August 2025 (1 paper)

[13996] doi:10.3390/diagnostics15162060 [paper, repository]

A Feature-Augmented Explainable Artificial Intelligence Model for Diagnosing Alzheimer's Disease from Multimodal Clinical and Neuroimaging Data.

Journal: Diagnostics (Basel, Switzerland)

Authors' code: F-H5/diagnosis_explanation_module (no license)

Status: code verified, 2 files readable, 4 matches

Saturday, 16 August 2025 (18 papers)

[13997] doi:10.1002/mrm.70030 [paper, repository]

A data-driven algorithm to determine <sup>1</sup>H-MRS basis set composition.

Journal: Magnetic resonance in medicine

Authors' code: OSF p2usj (no license)

Status: code verified, 40 files readable, 7 matches

[13998] doi:10.1002/mrm.70034 [paper, repository]

Importance of R<sub>2</sub> accuracy in susceptibility source separation.

Journal: Magnetic resonance in medicine

Authors' code: SNU-LIST/chi-separation (no license)

Status: empty repository, 1 file readable

[13999] doi:10.1016/j.isci.2025.113378 [paper]

Immunodominant structural proteins Gc and N drive T cell-mediated protection against La Crosse virus.

Journal: iScience

Status: code on request

[14000] doi:10.1016/j.isci.2025.113383 [paper, repository]

Alpha oscillations mediate inhibitory control and perceptual transitions during binocular rivalry.

Journal: iScience

Authors' code: Zenodo 15802971 (CC-BY-4.0)

Status: code verified

[14001] doi:10.1038/s41398-025-03388-2 [paper, repository]

The role of reward-related brain activity in response to treatment and later depression severity: data from a randomized controlled trial in early adolescents with anxiety disorders.

Journal: Translational psychiatry

Authors' code: ceciwestbrook/RewardAndAnxiety (no license)

Status: code verified, 30 files readable, 2 matches

[14002] doi:10.1038/s41398-025-03506-0 [paper]

Neural transmission in the wired brain, new insights into an encoding-decoding-based neuronal communication model.

Journal: Translational psychiatry

Status: code on request

[14003] doi:10.1038/s41398-025-03509-x [paper, repository]

iPSC-modelling reveals genetic associations and morphological alterations of oligodendrocytes in schizophrenia.

Journal: Translational psychiatry

Authors' code: gitlab.mpcdf.mpg.de/luciat/cnv_detection (MIT), skoghoern/cell-coloc-and-morphology (no license)

Status: code verified, 39 files readable, 2 matches

[14004] doi:10.1038/s41467-025-62895-4 [paper, repository]

Alpha-synuclein interacts with regulators of ATP homeostasis in mitochondria.

Journal: Nature communications

Authors' code: tserdiuk666/mitoalphasyn (no license)

Status: code verified, 4 files readable, 2 matches

[14005] doi:10.1038/s41537-025-00653-7 [paper, repository]

Longitudinal changes in striatocortical connectivity in first-episode psychosis associated with the emergence of treatment resistance.

Journal: Schizophrenia (Heidelberg, Germany)

Authors' code: angietep/Striatocortical-connectivity-FEPtrt (GPL-3.0)

Status: code verified, 19 files readable, 4 matches

[14006] doi:10.1038/s41539-025-00348-9 [paper, repository]

Dynamic reconfiguration of brain coactivation states associated with active and lecture-based learning of university physics.

Journal: NPJ science of learning

Authors' code: OSF s6fp9 (no license), donishadsmith/neurocaps (MIT), rubykong/cbig_network_correspondence (MIT), Zenodo 15061878 (MIT)

Status: code verified, 85 files readable, 15 matches

[14007] doi:10.1038/s41597-025-05740-z [paper, repository]

High-Density EEG Source Localisation of averaged interictal epileptic Discharges validated by surgical Outcome.

Journal: Scientific data

Authors' code: connectome-mapper-3.readthedocs.io (no license), DenisBrunet/Cartool (Apache-2.0)

Status: code verified, 446 files readable, 3 matches

[14008] doi:10.1038/s41598-025-14177-8 [paper, data]

Deep neural architectures for Kashmiri-English machine translation.

Journal: Scientific reports

Status: data only, 1 dataset cited

[14009] doi:10.1038/s42003-025-08632-5 [paper, repository]

Human neural organoid microphysiological systems show the building blocks necessary for basic learning and memory.

Journal: Communications biology

Authors' code: organoid-intelligence/bMPS_analysis_tools (no license)

Status: code verified, 60 files readable, 11 matches

[14010] doi:10.1038/s42003-025-08685-6 [paper, repository]

Dynamic brain-heart interaction in sleep characterized by variational phase-amplitude coupling framework.

Journal: Communications biology

Authors' code: dkanklda123/HBVPAC (no license)

Status: code verified, 11 files readable, 1 match

[14011] doi:10.1177/03000605251364784 [paper, data]

Exploration of autophagy-related molecular mechanisms underlying epilepsy using multiple datasets.

Journal: The Journal of international medical research

Status: data only, 1 dataset cited

[14012] doi:10.1186/s13041-025-01242-6 [paper, data]

Peripheral substance P induces deficits in hippocampal synaptic plasticity and memory.

Journal: Molecular brain

Status: data only, 3 datasets cited

[14013] doi:10.1556/2006.2025.00061 [paper, repository]

Neural responses to kills/deaths in real MOBA games are associated with addiction-related psychological traits and subjective pleasant/unpleasant experiences.

Journal: Journal of behavioral addictions

Authors' code: doi:10.5061/dryad.zpc866th0 (no license)

Status: code verified

[14014] doi:10.7150/thno.115746 [paper, data]

Neutrophil extracellular traps induce endothelial damage and exacerbate vasospasm in traumatic brain injury.

Journal: Theranostics

Status: data only, 1 dataset cited

Friday, 15 August 2025 (19 papers)

[14015] doi:10.1007/s00415-025-13317-4 [paper, data]

MRI-based human brain atlases of R1, R2, proton density, and myelin volume fraction using synthetic quantitative imaging at 1.5 T.

Journal: Journal of neurology

Status: data only, 1 dataset cited

[14016] doi:10.1016/j.xpro.2025.104031 [paper, repository]

Protocol for studying GABA<sub>A</sub> receptor subsynaptic domains in rat hippocampal neurons using single-molecule localization microscopy.

Journal: STAR protocols

Authors' code: mlrennerfr/Diinamic (no license), zitmen/thunderstorm (GPL-3.0)

Status: code verified, 290 files readable, 5 matches

[14017] doi:10.1038/s41386-025-02197-x [paper]

Differential impact of manic versus depressive episode recurrence on longitudinal gray matter volume changes in bipolar disorder.

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

Status: code on request

[14018] doi:10.1038/s41467-025-62792-w [paper, data]

Structural basis for substrate recognition mechanism of human SLC26A7.

Journal: Nature communications

Status: data only, 2 datasets cited

[14019] doi:10.1038/s41467-025-63000-5 [paper, repository]

Gene transcription, neurotransmitter, and neurocognition signatures of brain structural-functional coupling variability.

Journal: Nature communications

Authors' code: BMHLab/AHBAprocessing (no license), netneurolab/hansen_receptors (CC-BY-NC-SA-4.0), danizoeller/myPLS86 (no license), SarahMorgan/Morphometric_Similarity_SZ (MIT), frantisekvasa/rotate_parcellation (MIT), dominance-analysis/dominance-analysis (MIT), danizoeller/myPLS (GPL-2.0)

Status: code verified, 455 files readable, 11 matches

[14020] doi:10.1038/s41598-025-15007-7 [paper, data]

A novel interpreted deep network for Alzheimer's disease prediction based on inverted self attention and vision transformer.

Journal: Scientific reports

Status: data only, 3 datasets cited

[14021] doi:10.1038/s41598-025-15835-7 [paper, repository]

High sensitivity in spontaneous intracranial hemorrhage detection from emergency head CT scans using ensemble-learning approach.

Journal: Scientific reports

Authors' code: Juusotak/Intracranial_hemorrhage_metalearning (GPL-3.0)

Status: code verified, 25 files readable

[14022] doi:10.1038/s41598-025-16015-3 [paper, repository]

A comparative analysis of imaging-based algorithms for detecting focal cortical dysplasia type II in children.

Journal: Scientific reports

Authors' code: Jasan-CZ/FCD_detection_algorithms (no license)

Status: code verified, 3 files readable, 2 matches

[14023] doi:10.1038/s42003-025-08559-x [paper, data]

Cerebrospinal fluid-contacting neurons are sensory neurons with uniform morphological and region-specific electrophysiological properties in the mouse spinal cord.

Journal: Communications biology

Status: data only, 2 datasets cited

[14024] doi:10.1101/2025.08.12.669914 [paper, repository]

Longitudinal three-photon imaging for tracking amyloid plaques and vascular degeneration in a mouse model of Alzheimer’s disease

Journal: bioRxiv (preprint)

Authors' code: estassss/Longitudinal-three-photon-imaging (no license)

Status: code verified, 15 files readable

[14025] doi:10.1101/2025.08.15.670484 [paper, data]

E/I ratio and net E+I strength are differentially affected across brain disorders

Journal: bioRxiv (preprint)

Status: data only, 1 dataset cited

[14026] doi:10.1126/sciadv.adt8956 [paper, repository]

Long-lasting, subtype-specific regulation of somatostatin interneurons during sensory learning.

Journal: Science advances

Authors' code: barthlab/Long-lasting-subtype-specific-regulation-of-somatostatin-interneurons-during-sensory-learning (no license)

Status: code verified, 42 files readable, 5 matches

[14027] doi:10.1186/s12877-025-06326-5 [paper, repository]

Association between estimated glomerular filtration rate and memory function mediated by brain Gray matter volumes: a cross-sectional study using the ADNI database.

Journal: BMC geriatrics

Authors' code: ida.loni.usc.edu (no license)

Status: code verified

[14028] doi:10.1186/s12916-025-04316-3 [paper, repository]

Development and validation of a multimodal automatic interictal epileptiform discharge detection model: a prospective multi-center study.

Journal: BMC medicine

Authors' code: open-mmlab/mmpose (Apache-2.0), vepiset/vEpiNetV2 (Apache-2.0)

Status: code verified, 1,183 files readable

[14029] doi:10.21037/qims-2024-2707 [paper, repository]

Insights into structural deviations in attention deficit hyperactivity disorder (ADHD) and comorbidities using big data-derived brain charts: a cross-sectional study.

Journal: Quantitative imaging in medicine and surgery

Authors' code: predictive-clinical-neuroscience/braincharts (GPL-3.0)

Status: code verified, 11 files readable, 4 matches

[14030] doi:10.3390/jimaging11080275 [paper, data]

A Lightweight CNN for Multiclass Retinal Disease Screening with Explainable AI.

Journal: Journal of imaging

Status: data only, 1 dataset cited

[14031] doi:10.3758/s13414-025-03142-2 [paper, repository]

Behavioural and electrophysiological modulations of onset primacy in visual change detection.

Journal: Attention, perception & psychophysics

Authors' code: OSF 3b9yf (no license)

Status: code verified, 3 files readable, 4 matches

[14032] doi:10.3758/s13415-025-01335-8 [paper, repository]

Role of left lateral prefrontal cortex in positive emotion regulation: Insights from dyslexia.

Journal: Cognitive, affective & behavioral neuroscience

Authors' code: OSF reuab (no license)

Status: code verified, 3 files readable, 1 match

[14033] doi:10.7554/elife.98653 [paper, repository]

Sub-type specific connectivity between CA3 pyramidal neurons may underlie their sequential activation during sharp waves.

Journal: eLife

Authors' code: stefanomasse/thorny_athorny (GPL-3.0)

Status: code verified, 12 files readable, 3 matches

Thursday, 14 August 2025 (41 papers)

[14034] doi:10.1007/s10548-025-01131-0 [paper, repository]

ERP Signals During Speech Articulation: Does Auditory Feedback Mask Other Ongoing Cognitive-motor Processes?

Journal: Brain topography

Authors' code: mikexcohen/AnalyzingNeuralTimeSeries (no license), Zenodo 14794980 (CC-BY-NC-4.0), supp:PMC12354118/10548_2025_1131_MOESM1_ESM.m (no license), deprettom/eegpal (BSD-2-Clause)

Status: code verified, 2,046 files readable, 2 matches

[14035] doi:10.1016/j.acra.2025.07.061 [paper, repository]

Novel Non-Invasive PET Imaging of Reactive Oxygen Species Using [18 F]ROStrace in Three Proteinopathy-Associated Neurodegenerative Mouse Models.

Journal: Academic radiology

Authors' code: Evangall/fiji-scripts (no license)

Status: empty repository, 1 file readable

[14036] doi:10.1016/j.cell.2025.06.015 [paper, data]

Inner speech in motor cortex and implications for speech neuroprostheses.

Journal: Cell

Status: code on request, 1 dataset cited

[14037] doi:10.1016/j.isci.2025.113371 [paper]

Distribution of glutamate and glutamine in tumor microenvironments of brain metastasis: Insights from biochemical analysis and molecular imaging.

Journal: iScience

Status: code on request

[14038] doi:10.1016/j.isci.2025.113373 [paper, repository]

Developmental trajectories predict dendritic remodeling after injury.

Journal: iScience

Authors' code: farrowlab/ChATbandsDetection_DLC (no license), farrowlab/Reinhard_2019 (GPL-3.0)

Status: code verified, 117 files readable, 1 match

[14039] doi:10.1016/j.isci.2025.113375 [paper, repository]

Neural dynamics of proactive and reactive cognitive control in medial and lateral prefrontal cortex.

Journal: iScience

Authors' code: bentleylab/PRJ_Stroop (no license)

Status: code verified, 1,589 files readable, 11 matches

[14040] doi:10.1016/j.stemcr.2025.102601 [paper]

Thymosin beta 4 as an Alzheimer disease intervention target identified using human brain organoids.

Journal: Stem cell reports

Status: code on request

[14041] doi:10.1038/s41467-025-61466-x [paper, repository]

A decision-space model explains context-specific decision-making.

Journal: Nature communications

Authors' code: dirkbeck/dm_space_model (no license), Zenodo 15433189 (CC-BY-4.0), Zenodo 15433188 (CC-BY-4.0)

Status: code verified, 330 files readable, 16 matches

[14042] doi:10.1038/s41467-025-62995-1 [paper, repository]

Astrocyte priming enhances microglial Aβ clearance and is compromised by APOE4.

Journal: Nature communications

Authors' code: gaofan83/snakemake_atac_alignment (no license)

Status: code verified, 2 files readable

[14043] doi:10.1038/s41557-025-01889-7 [paper, repository]

High-throughput discovery of fluoroprobes that recognize amyloid fibril polymorphs.

Journal: Nature chemistry

Authors' code: Zenodo 14994580 (CC-BY-4.0)

Status: code verified, 3 files readable, 2 matches

[14044] doi:10.1038/s41597-025-05404-y [paper, repository]

Baby Open Brains: An open-source dataset of infant brain segmentations.

Journal: Scientific data

Authors' code: sallystoyell/BOBs_manuscript (no license)

Status: code verified, 4 files readable

[14045] doi:10.1038/s41597-025-05713-2 [paper, repository]

Mobile Brain-Body Imaging and Visual Data of Theatrical Actors During Rehearsal and Performance.

Journal: Scientific data

Authors' code: doi:10.6084/m9.figshare.c.7271338.v4 (no license)

Status: code found, still to be checked

[14046] doi:10.1038/s41597-025-05733-y [paper, data]

A Consecutive Multi-Day High-Density Surface Electromyography Dataset Comprising 7 Grasps and 11 Gestures.

Journal: Scientific data

Status: data only, 2 datasets cited

[14047] doi:10.1038/s41598-025-14444-8 [paper, repository]

An effective brain stroke diagnosis strategy based on feature extraction and hybrid classifier.

Journal: Scientific reports

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

Status: dead link

[14048] doi:10.1038/s42003-025-08669-6 [paper, repository]

Unveiling causal relationship between white matter tracts and psychiatric disorders.

Journal: Communications biology

Authors' code: Yifan-xyy/Code_for_MR (no license)

Status: empty repository

[14049] doi:10.1073/pnas.2425172122 [paper, repository]

Atomistic mechanisms of calcium permeation modulated by Q/R editing and selectivity filter mutations in GluA2 AMPA receptors.

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

Authors' code: AGPlested/GluA2-D590X-Mutants (no license)

Status: dead link

[14050] doi:10.1073/pnas.2503139122 [paper, repository]

Layer 1 NDNF interneurons form distinct subpopulations with opposite activation patterns during sleep in freely behaving mice.

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

Authors' code: AurelieBre/L1NDNFsubpop_PNAS2025 (no license), denisecailab/minian (GPL-3.0)

Status: code verified, 76 files readable, 7 matches

[14051] doi:10.1093/braincomms/fcaf297 [paper, repository]

Pathological beta power increase in the subthalamic nucleus is absent in essential tremor.

Journal: Brain communications

Authors' code: halenerdman/Beta-ET-PD (no license)

Status: code verified, 5 files readable

[14052] doi:10.1093/braincomms/fcaf299 [paper, repository]

Longitudinal brain ageing after stroke: a marker for neurodegeneration and its relevance for upper limb motor outcome.

Journal: Brain communications

Authors' code: james-cole/brainageR (LGPL-3.0)

Status: code verified, 9 files readable, 2 matches

[14053] doi:10.1093/exposome/osaf007 [paper, repository]

Molecular profiling of neuronal extracellular vesicles reveals brain tissue specific signals.

Journal: Exposome

Authors' code: vrindakalia/molecular_profile_nEVs (no license)

Status: code verified, 35 files readable, 10 matches

[14054] doi:10.1098/rstb.2023.0496 [paper, repository]

What a picture selection task can tell us about scalar implicature processing? A neuroimaging investigation.

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

Authors' code: OSF aysmd (no license)

Status: code verified

[14055] doi:10.1098/rstb.2023.0497 [paper, repository]

Theory of Mind and the brain substrates of direct and indirect communicative action understanding.

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

Authors' code: doi:10.6084/m9.figshare.c.7867619 (no license)

Status: code found, still to be checked

[14056] doi:10.1098/rstb.2023.0498 [paper, repository]

Pragmatics partially segregated from Theory of Mind: evidence from resting-state functional connectivity.

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

Authors' code: doi:10.6084/m9.figshare.c.7926559 (no license)

Status: code found, still to be checked

[14057] doi:10.1162/imag.a.112 [paper]

Functional coupling of the lateral prefrontal cortex and the default mode network predicts performance in mental rotation.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

[14058] doi:10.1162/nol.a.10 [paper, repository]

Cerebello-Cerebral Pathways Contribute to Written Word Production.

Journal: Neurobiology of language (Cambridge, Mass.)

Authors' code: yeatmanlab/afq (gnu), vistalab/vistasoft (no license)

Status: code verified, 2,180 files readable, 14 matches

[14059] doi:10.1162/nol.a.9 [paper, repository]

Neural Correlates of Rhythm in Post-Stroke Aphasia.

Journal: Neurobiology of language (Cambridge, Mass.)

Authors' code: OSF 23qub (no license)

Status: code verified, 2 files readable

[14060] doi:10.1177/1877718x251365253 [paper, repository]

Platelet mitochondrial complex I and IV activities are not reliable stratification biomarkers in Parkinson's disease.

Journal: Journal of Parkinson's disease

Authors' code: git.app.uib.no/simon.kverneng/mitochondrial-complex-i-and-complex-iv-activities-in-platelets-are-not-stratification-biomarkers-in-parkinson-s-disease (no license)

Status: code verified

[14061] doi:10.1186/s12880-025-01864-1 [paper, repository]

AI post-intervention operational and functional outcomes prediction in ischemic stroke patients using MRIs.

Journal: BMC medical imaging

Authors' code: kayvanlabs/ai-is-stroke-outcomes-dwi (no license)

Status: code verified, 2 files readable

[14062] doi:10.1186/s42649-025-00115-5 [paper, repository]

Analysis of smart imaging runtime.

Journal: Applied microscopy

Authors' code: Shavit-Lab/timing-apps (no license)

Status: code verified, 5 files readable

[14063] doi:10.1371/journal.pbio.3003268 [paper, repository]

Transfer of motor learning is associated with patterns of activity in the default mode network.

Journal: PLoS biology

Authors' code: Zenodo 15648991 (CC-BY-4.0), Zenodo 15651833 (MIT), danjgale/surfplot (BSD-3-Clause), alirzar/motortransfer-figs (no license), alirzar/motortransfer (MIT)

Status: code verified, 176 files readable, 19 matches

[14064] doi:10.1371/journal.pcbi.1013323 [paper, repository]

A software ecosystem for brain tractometry processing, analysis, and insight.

Journal: PLoS computational biology

Authors' code: codeocean:1278808 (no license), tractometry/tractometry-ecosystem (BSD-2-Clause), preprint.neurolibre.org/10.55458/neurolibre.00037 (no license), Warvito/neurocombat_sklearn (MIT), tractometry/afq-deep-learning (BSD-3-Clause)

Status: code verified, 43 files readable, 11 matches

[14065] doi:10.1371/journal.pone.0329366 [paper, repository]

Seed quality drives grain yield in Ethiopian and Senegalese sorghum: Insights from machine learning.

Journal: PloS one

Authors' code: EJSAHN/Seed-quality-drives-grain-yield-in-Ethiopian-and-Senegalese-sorghum-Insights-from-machine-learning (no license)

Status: code verified, 3 files readable, 7 matches

[14066] doi:10.1523/eneuro.0221-25.2025 [paper, repository]

FiPhoPHA-A Fiber Photometry Python Package for Post Hoc Analysis.

Journal: eNeuro

Authors' code: philjrdb/FibPhotom (no license), VasiliDrakopoulos/fiphopha (MIT)

Status: code verified, 28 files readable, 2 matches

[14067] doi:10.3389/fmolb.2025.1562608 [paper, repository]

RetinalVasNet: a deep learning approach for robust retinal microvasculature detection.

Journal: Frontiers in molecular biosciences

Authors' code: lseventeen/FR-UNet (MIT)

Status: code verified, 15 files readable, 1 match

[14068] doi:10.3389/fnins.2025.1634652 [paper, data]

Mapping the computational similarity of individual neurons within large-scale ensemble recordings using the SIMNETS analysis framework.

Journal: Frontiers in neuroscience

Status: data only, 3 datasets cited

[14069] doi:10.3389/fped.2025.1531086 [paper, data]

Lenticulostriate vasculopathy in newborns: whole genome sequencing data analysis.

Journal: Frontiers in pediatrics

Status: data only, 1 dataset cited

[14070] doi:10.3389/frai.2025.1635932 [paper, repository]

A brain-inspired memory transformation based differentiable neural computer for reasoning-based question answering.

Journal: Frontiers in artificial intelligence

Authors' code: Brain-Cog-Lab/MTDNC (Apache-2.0)

Status: code verified, 35 files readable, 1 match

[14071] doi:10.3390/diagnostics15162046 [paper, data]

Parkinson's Disease Diagnosis and Severity Assessment from Gait Signals via Bayesian-Optimized Deep Learning.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 1 dataset cited

[14072] doi:10.3390/ijms26167849 [paper, data]

Transcriptomic Response to Neuromuscular Electrical Stimulation in Muscle, Brain, and Plasma EVs in WT and Klotho-Deficient Mice.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[14073] doi:10.3390/insects16080840 [paper, data]

High-Pass Noise Suppression in the Mosquito Auditory System.

Journal: Insects

Status: data only, 1 dataset cited

[14074] doi:10.7554/elife.94165 [paper, repository]

Progressively shifting patterns of co-modulation among premotor cortex neurons carry dynamically similar signals during action execution and observation.

Journal: eLife

Authors' code: ShiftingSubspace/shiftsubs (MIT), grivlis/UTCS3_RGM (GPL-3.0)

Status: code verified, 661 files readable, 5 matches

Wednesday, 13 August 2025 (46 papers, 38 on this page)

[14075] doi:10.1002/mrm.70020 [paper, repository]

Automatic detection of arterial input function for brain DCE-MRI in multi-site cohorts.

Journal: Magnetic resonance in medicine

Authors' code: petmri/vascular_function (MIT)

Status: code verified, 13 files readable, 4 matches

[14076] doi:10.1016/j.celrep.2025.116145 [paper, data]

Alpha-synuclein abundance and localization are regulated by the RNA-binding protein PUMILIO1.

Journal: Cell reports

Status: code on request, 1 dataset cited

[14077] doi:10.1016/j.isci.2025.113346 [paper]

Comparative efficacy and safety of therapeutic strategies for EGFRvIII positive recurrent glioblastoma.

Journal: iScience

Status: code on request

[14078] doi:10.1016/j.jcmgh.2025.101610 [paper, data]

Mechanisms of Activation and Serotonin Release From Human Enterochromaffin Cells.

Journal: Cellular and molecular gastroenterology and hepatology

Status: data only, 1 dataset cited

[14079] doi:10.1016/j.jshs.2025.101079 [paper, repository]

Fitness and exercise effects on brain age: A randomized clinical trial.

Journal: Journal of sport and health science

Authors' code: james-cole/brainageR (LGPL-3.0)

Status: code verified, 9 files readable, 2 matches

[14080] doi:10.1016/j.xpro.2025.104030 [paper, repository]

Protocol for detecting neuronal subnetworks from in vivo calcium imaging data using multiple clustering algorithms in MATLAB.

Journal: STAR protocols

Authors' code: EdnaHuang/Subnetwork-clustering-lme-modeling (Apache-2.0), cossartlab/code-modol-et-al.-2020 (no license), Zenodo 15856749 (Apache-2.0)

Status: code verified, 183 files readable, 40 matches

[14081] doi:10.1038/s41398-025-03510-4 [paper]

Temporal imprecision and its dynamics in schizophrenia.

Journal: Translational psychiatry

Status: code on request

[14082] doi:10.1038/s41419-025-07938-w [paper]

TP63 as a modulator of ferroptosis in TP53 mutations glioblastoma.

Journal: Cell death & disease

Status: data only

[14083] doi:10.1038/s41467-025-61945-1 [paper, repository]

A dream EEG and mentation database.

Journal: Nature communications

Authors' code: Zenodo 15234845 (CC-BY-4.0)

Status: code verified, 2 files readable, 2 matches

[14084] doi:10.1038/s41467-025-62517-z [paper, repository]

Dopamine signaling drives skin invasion by human-infective nematodes.

Journal: Nature communications

Authors' code: BryantLabUW/WormTracker3000 (MIT), Zenodo 15509108 (CC-BY-4.0)

Status: code verified, 68 files readable, 2 matches

[14085] doi:10.1038/s41467-025-62561-9 [paper, repository]

The anterior-posterior gradient of the fusiform gyrus modulates the transition between mnemonic and perceptual features during reminiscences.

Journal: Nature communications

Authors' code: randomquesteve/code (no license), Zenodo 15801774 (CC-BY-4.0)

Status: code verified, 13 files readable, 5 matches

[14086] doi:10.1038/s41537-025-00661-7 [paper, repository]

Glymphatic system dysfunction correlated with gut dysbiosis and cognitive impairment in schizophrenia.

Journal: Schizophrenia (Heidelberg, Germany)

Authors' code: xielab2017/EasyMicroPlot (GPL-3.0)

Status: code verified, 20 files readable

[14087] doi:10.1038/s41539-025-00345-y [paper, repository]

Distinct neural representational changes following cross-format number tutoring in children with mathematical difficulties.

Journal: NPJ science of learning

Authors' code: scsnl/Park_npjSoL_2025 (CC-BY-4.0)

Status: code verified, 17 files readable, 5 matches

[14088] doi:10.1038/s41540-025-00574-2 [paper, repository]

Altered dynamic functional connectivity and reduced higher order information interaction in Parkinson's patients with hyposmia.

Journal: NPJ systems biology and applications

Authors' code: SnehaRayPanda/PD_DFC_Brain_State_Synergy (no license)

Status: code verified, 12 files readable, 4 matches

[14089] doi:10.1038/s41597-025-05774-3 [paper, data]

An fMRI hyperscanning dataset on cooperation and competition during strategic interactions.

Journal: Scientific data

Status: data only, 3 datasets cited

[14090] doi:10.1038/s41598-025-13281-z [paper, repository]

A novel brain MRI classification framework integrating tuned single scale retinex and empirical wavelet entropy features.

Journal: Scientific reports

Authors' code: kaggle.com/navoneel/brain-mri-images-for-brain-tumor-detection (no license)

Status: dead link

[14091] doi:10.1038/s41598-025-14215-5 [paper, data]

A lightweight neural attention-based model for service chatbots.

Journal: Scientific reports

Status: data only, 1 dataset cited

[14092] doi:10.1038/s41684-025-01589-2 [paper]

Cell type-specific in vivo proteomes with a multicopy mutant methionyl tRNA synthetase mouse line.

Journal: Lab animal

Status: code on request

[14093] doi:10.1038/s42003-025-08530-w [paper, repository]

Male caregiving experience alters hippocampal neuroplasticity and transcription independent of reproduction in a biparental species.

Journal: Communications biology

Authors' code: mecolt/Paternal_care_RNAseq (no license)

Status: code verified, 13 files readable, 2 matches

[14094] doi:10.1038/s42003-025-08599-3 [paper, repository]

Decomposed Linear Dynamical Systems (dLDS) models reveal instantaneous, context-dependent dynamic connectivity in C. elegans.

Journal: Communications biology

Authors' code: OSF 35hy2 (no license), dLDS-Decomposed-Linear-Dynamics (no license), dLDS-Decomposed-Linear-Dynamics/dLDS-Discrete-Matlab-Model (no license)

Status: code verified, 1,301 files readable, 4 matches

[14095] doi:10.1038/s42003-025-08637-0 [paper, repository]

Disentangling shared and unique brain functional changes associated with clinical severity and cognitive phenotypes in schizophrenia via deep learning.

Journal: Communications biology

Authors' code: jingxia001/mt-sz (no license)

Status: code verified, 4 files readable

[14096] doi:10.1038/s44271-025-00299-2 [paper, repository]

Awe is characterized as an ambivalent affect in the human behavior and cortex.

Journal: Communications psychology

Authors' code: jinw00-lee/ambivalent-awe (no license)

Status: code verified, 12 files readable, 6 matches

[14097] doi:10.1093/bioadv/vbaf196 [paper, repository]

A foundation model for learning genetic associations from brain imaging phenotypes.

Journal: Bioinformatics advances

Authors' code: IBM/comical (Apache-2.0)

Status: code verified, 14 files readable, 8 matches

[14098] doi:10.1093/pnasnexus/pgaf261 [paper, repository]

Traces of phylogeny and ecology in hippocampal neuron numbers.

Journal: PNAS nexus

Authors' code: doi:10.5061/dryad.kd51c5bht (no license), Zenodo 14860402 (CC-BY-NC-ND-4.0)

Status: code verified, 1 file readable, 6 matches

[14099] doi:10.1098/rsob.240255 [paper, repository]

Mitochondrial-derived gene expression in hibernation: tissue-specific responses in the thirteen-lined ground squirrel.

Journal: Open biology

Authors' code: doi:10.6084/m9.figshare.c.7945359.v1 (no license)

Status: code found, still to be checked

[14100] doi:10.1126/sciadv.ads0400 [paper, repository]

Large-scale maps of altered cortical dynamics in early-stage psychosis are related to GABAergic and glutamatergic neurotransmission.

Journal: Science advances

Authors' code: NBT-Analytics/NBTpublic (GPL-3.0)

Status: code verified, 2,000 files readable, 3 matches

[14101] doi:10.1126/sciadv.adt0534 [paper, data]

An ancient enhancer rapidly evolving in the human lineage promotes neural development and cognitive flexibility.

Journal: Science advances

Status: data only, 1 dataset cited

[14102] doi:10.1126/sciadv.adv7490 [paper, repository]

Src/Fas2-dependent Ephrin phosphorylation initiates Eph/Ephrin reverse signaling through Rac1 to shape columnar units in the fly brain.

Journal: Science advances

Authors' code: Zenodo 15803090 (CC-BY-4.0), satouma7/columnarrangementcode (no license)

Status: code verified, 2 files readable

[14103] doi:10.1126/sciadv.adx5958 [paper, data]

<i>N</i>,<i>N</i>-dimethyltryptamine mitigates experimental stroke by stabilizing the blood-brain barrier and reducing neuroinflammation.

Journal: Science advances

Status: data only, 1 dataset cited

[14104] doi:10.1155/jdr/1924668 [paper]

Upregulation of SQSTM1 Regulates Ferroptosis and Oxidative Stress in Müller Cells of the Diabetic Neural Retina by Modulating ACSL4.

Journal: Journal of diabetes research

Status: data only

[14105] doi:10.1162/imag.a.108 [paper, data]

High-resolution fMRI reveals a dorsal brain pathway selective for conspecific vocalizations in macaques.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

[14106] doi:10.1186/s12987-025-00692-3 [paper, repository]

Advection versus diffusion in brain ventricular transport.

Journal: Fluids and barriers of the CNS

Authors' code: Zenodo 15194757 (CC-BY-4.0), Zenodo 10447666 (CC-BY-4.0)

Status: code verified, 28 files readable, 17 matches

[14107] doi:10.1371/journal.pcbi.1013363 [paper, repository]

The role of feedforward and feedback inhibition in modulating theta-gamma cross-frequency interactions in neural circuits.

Journal: PLoS computational biology

Authors' code: gerompampastrumf/thetaING_PING (no license)

Status: code verified, 93 files readable

[14108] doi:10.1371/journal.pone.0328967 [paper, data]

OptiSelect and EnShap: Integrating machine learning and game theory for ischemic stroke prediction.

Journal: PloS one

Status: data only, 1 dataset cited

[14109] doi:10.1371/journal.pone.0329268 [paper, data]

Anti-obesity compounds, Semaglutide and LiPR, and PrRP do not change the proportion of human and mouse POMC+ neurons.

Journal: PloS one

Status: data only, 1 dataset cited

[14110] doi:10.1371/journal.pone.0329859 [paper, data]

Novel imaging diagnosis of neuropsychiatric systemic lupus erythematosus using topological data analysis: A retrospective study.

Journal: PloS one

Status: data only, 1 dataset cited

[14111] doi:10.1371/journal.pone.0329931 [paper, data]

The effect of tablet-based multimodal training on cognitive functioning in Alzheimer's disease: A randomized controlled trial.

Journal: PloS one

Status: data only, 1 dataset cited

[14112] doi:10.3389/fnana.2025.1589287 [paper, data]

Selective vulnerability of stellate cells to gut dysbiosis: neuroanatomical changes in the medial entorhinal cortex.

Journal: Frontiers in neuroanatomy

Status: data only, 1 dataset cited

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