Every paper, by date: page 67

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 67 of 200: 22 July 2025 to 15 July 2025.

Tuesday, 22 July 2025 (44 papers)

[14785] doi:10.1002/mrm.70003 [paper, data]

Surgical removal of implanted microchips to correct MRI susceptibility artifacts in mice.

Journal: Magnetic resonance in medicine

Status: data only, 2 datasets cited

[14786] doi:10.1016/j.celrep.2025.116025 [paper, data]

IGSF10 is a RET antagonist regulating Ewing sarcoma growth and GnRH neuron migration.

Journal: Cell reports

Status: data only, 1 dataset cited

[14787] doi:10.1016/j.celrep.2025.116037 [paper, repository]

RNA-programmable cell-type monitoring and manipulation in the human cortex with CellREADR.

Journal: Cell reports

Authors' code: AllenInstitute/scrattch.hicat (BSD-2-Clause)

Status: code verified, 66 files readable, 4 matches

[14788] doi:10.1016/j.celrep.2025.116049 [paper, repository]

Synaptic and intrinsic plasticity mediated by CCK-type signaling coordinates behavioral changes during motivational state shifts.

Journal: Cell reports

Authors' code: bioconductor.org/packages/release (no license)

Status: code verified

[14789] doi:10.1016/j.isci.2025.113145 [paper, repository]

Sex differences in visually guided orienting behavior emerges during adolescence in mice.

Journal: iScience

Authors' code: nielllab/niell-lab-analysis (no license)

Status: code verified, 1,629 files readable

[14790] doi:10.1016/j.isci.2025.113169 [paper, repository]

Automated sleep staging from single-channel electroencephalogram using hybrid neural network with manual features and attention.

Journal: iScience

Authors' code: Chendabai007/EEG_AAS_Discovery (no license)

Status: code verified, 9 files readable, 2 matches

[14791] doi:10.1016/j.isci.2025.113173 [paper, data]

Focused ultrasound-induced blood-brain barrier opening promotes glioprotective phenotypes in ACSA-II+ murine astrocytes.

Journal: iScience

Status: data only, 1 dataset cited

[14792] doi:10.1016/j.xpro.2025.103964 [paper, data]

Protocol for synthesizing, implanting, and using polydimethylsiloxane as skull replacement in mice for imaging, electrophysiology, and optogenetics.

Journal: STAR protocols

Status: data only, 1 dataset cited

[14793] doi:10.1016/j.xpro.2025.103972 [paper, repository]

Protocol for recording neuronal activity in food and cocaine self-administration in freely behaving mice using calcium imaging.

Journal: STAR protocols

Authors' code: liang-bo/AutoStereota (MIT), schnitzer-lab/EXTRACT-public (MIT)

Status: code verified, 188 files readable

[14794] doi:10.1021/acsomega.5c03682 [paper, data]

<i><b>In Silico</b></i> Investigation of BTK as a Potent Immunomodulatory Target: Exploring Novel Therapeutic Approaches for Multiple Sclerosis.

Journal: ACS omega

Status: data only, 1 dataset cited

[14795] doi:10.1038/s41467-025-61033-4 [paper, repository]

Accelerated brain ageing during the COVID-19 pandemic.

Journal: Nature communications

Authors' code: SPMIC-UoN/BrainAge_COVID-19 (Apache-2.0)

Status: code verified, 14 files readable, 2 matches

[14796] doi:10.1038/s41467-025-61650-z [paper, repository]

Machine learning in Alzheimer's disease genetics.

Journal: Nature communications

Authors' code: ArnovanHilten/GenNet (Apache-2.0), seafloor/daxos (MIT), seafloor/escott-price-lab-pipelines (GPL-3.0)

Status: code verified, 159 files readable, 4 matches

[14797] doi:10.1038/s41467-025-61927-3 [paper, repository]

Transcriptomic decoding of surface-based imaging phenotypes and its application to pharmacotranscriptomics.

Journal: Nature communications

Authors' code: christineecker/fsnulls (no license), christineecker/fsdecode (no license), gin.g-node.org/sphache/decodegaba (no license)

Status: code verified, 63 files readable, 11 matches

[14798] doi:10.1038/s41467-025-62038-9 [paper, data]

The bile acid-sensitive ion channel is gated by Ca<sup>2+</sup>-dependent conformational changes in the transmembrane domain.

Journal: Nature communications

Status: data only, 4 datasets cited

[14799] doi:10.1038/s41467-025-62048-7 [paper, repository]

Hamsters with long COVID present distinct transcriptomic profiles associated with neurodegenerative processes in brainstem.

Journal: Nature communications

Authors' code: gitlab.pasteur.fr/hub/19421-long-covid-brainstem (no license), sequana/sequana_rnaseq (BSD-3-Clause)

Status: code verified, 17 files readable, 2 matches

[14800] doi:10.1038/s41467-025-62086-1 [paper, repository]

Relating natural image statistics to patterns of response covariability in macaque primary visual cortex.

Journal: Nature communications

Authors' code: BIDS/BSDS500 (no license), CoenCagli-Lab/2025-NatureCommunications-Farzmahdi-et-al-code (MIT)

Status: code verified, 245 files readable, 3 matches

[14801] doi:10.1038/s41539-025-00340-3 [paper, repository]

Personalized targeted memory reactivation enhances consolidation of challenging memories via slow wave and spindle dynamics.

Journal: NPJ science of learning

Authors' code: GihwanShin-ku/Personalized-TMR (no license)

Status: code verified, 43 files readable, 4 matches

[14802] doi:10.1038/s41587-025-02734-5 [paper, repository]

Combined single-cell profiling of chromatin-transcriptome and splicing across brain cell types, regions and disease state.

Journal: Nature biotechnology

Authors' code: careenfoord/scisorATAC (MIT), wenhu0701/ScisorATAC (MIT)

Status: code verified, 40 files readable, 10 matches

[14803] doi:10.1038/s41593-025-02016-y [paper, repository]

Voltage imaging reveals hippocampal inhibitory dynamics shaping pyramidal memory-encoding sequences.

Journal: Nature neuroscience

Authors' code: jtaxidis-sickkids/Taxidis-et-al.-2025 (MIT)

Status: code verified, 167 files readable, 27 matches

[14804] doi:10.1038/s41598-025-09538-2 [paper, repository]

A comprehensive analysis of perturbation methods in explainable AI feature attribution validation for neural time series classifiers.

Journal: Scientific reports

Authors' code: perturbationeffect/cmi-am-validation-for-dl-ts-classifiers (Apache-2.0)

Status: code verified, 26 files readable, 20 matches

[14805] doi:10.1038/s41598-025-10984-1 [paper, data]

Self-directed music play to improve executive function in young children using NIRS.

Journal: Scientific reports

Status: data only, 1 dataset cited

[14806] doi:10.1038/s41598-025-11175-8 [paper, repository]

Impact of mannitol on mortality in patients with non-traumatic intracerebral haemorrhage and acute kidney injury: a retrospective study.

Journal: Scientific reports

Authors' code: MIT-LCP/mimic-iv (MIT), MIT-LCP/mimic-code (MIT)

Status: code verified, 87 files readable, 6 matches

[14807] doi:10.1038/s41598-025-11350-x [paper, repository]

Associations between epigenetic age and brain age in young people.

Journal: Scientific reports

Authors' code: yiluyucheng/dnaMethyAge (no license)

Status: code verified, 12 files readable, 2 matches

[14808] doi:10.1038/s42003-025-08518-6 [paper, repository]

Beyond the nuclear border: single-cell analysis of in situ sequenced human brain tissue using cellular features.

Journal: Communications biology

Authors' code: Zenodo 15425563 (CC-BY-4.0), jmkotah/xenium_segmentation_paper (MIT)

Status: code verified, 9 files readable

[14809] doi:10.1038/s42003-025-08523-9 [paper, repository]

Mapping the microstructure of human cerebral cortex in vivo with diffusion MRI.

Journal: Communications biology

Authors' code: ucsfncl/diffusion_neuromaps (MIT)

Status: code verified, 33 files readable, 12 matches

[14810] doi:10.1080/21505594.2025.2535470 [paper, data]

Two strains of Toscana virus show different virulence and replication capacity in mice and cell culture models.

Journal: Virulence

Status: data only, 2 datasets cited

[14811] doi:10.1093/braincomms/fcaf276 [paper, repository]

Latent dimension linking functional connectivity with post-stroke deficits across multiple domains.

Journal: Brain communications

Authors' code: PsyWuke/Latent_dimension_linking_FC_with_post-stroke_deficits2025 (no license)

Status: code verified, 11 files readable, 5 matches

[14812] doi:10.1162/nol.a.8 [paper, data]

Neural Networks for Semantic and Syntactic Prediction and Visual-Motor Statistical Learning in Adult Readers With and Without Dyslexia.

Journal: Neurobiology of language (Cambridge, Mass.)

Status: data only, 3 datasets cited

[14813] doi:10.1172/jci.insight.188612 [paper, data]

N6-methyladenosine (m6A) dysregulation contributes to network excitability in temporal lobe epilepsy.

Journal: JCI insight

Status: data only, 2 datasets cited

[14814] doi:10.1186/s13293-025-00733-4 [paper, data]

Sulcal pits as potential markers of early sex-related human brain differences in healthy adults.

Journal: Biology of sex differences

Status: data only, 1 dataset cited

[14815] doi:10.1192/j.eurpsy.2025.10062 [paper, data]

A whole-brain voxel-based analysis of structural abnormalities in PTSD: An ENIGMA-PGC study.

Journal: European psychiatry : the journal of the Association of European Psychiatrists

Status: data only, 1 dataset cited

[14816] doi:10.1371/journal.pone.0328407 [paper, data]

Neuro-cognitive specificities in prosocial disobedience: A comparative fMRI study of civilian and military populations.

Journal: PloS one

Status: data only, 1 dataset cited

[14817] doi:10.2147/ndt.s521634 [paper, data]

Construction and Brain Validation of circRNAs-miRNAs-mRNAs Regulatory Axis in Early-Onset Schizophrenia.

Journal: Neuropsychiatric disease and treatment

Status: data only, 1 dataset cited

[14818] doi:10.26508/lsa.202503215 [paper, data]

The nucleocytoplasmic translocation of HINT1 regulates the maturation of cell density.

Journal: Life science alliance

Status: data only, 2 datasets cited

[14819] doi:10.3389/fnagi.2025.1559067 [paper, repository]

Lifespan brain age prediction based on multiple EEG oscillatory features and sparse group lasso.

Journal: Frontiers in aging neuroscience

Authors' code: ShiangHu/NEOBA (GPL-3.0)

Status: code verified, 15 files readable, 1 match

[14820] doi:10.3389/fncel.2025.1572298 [paper, data]

β-catenin-α-catenin and actomyosin signaling differentially regulate growth cone contours and axon undulation and branching of retinal ganglion cells <i>in situ</i>.

Journal: Frontiers in cellular neuroscience

Status: data only, 1 dataset cited

[14821] doi:10.3389/fncel.2025.1615579 [paper, repository]

Walking on the tightrope: the shared roles of the bridging pericytes in the brain.

Journal: Frontiers in cellular neuroscience

Authors' code: Zenodo 11198372 (no license)

Status: code verified, 3 files readable

[14822] doi:10.3389/fncel.2025.1622874 [paper, data]

NF-κB RelA regulates temporal oligodendrocyte differentiation in the postnatal brains.

Journal: Frontiers in cellular neuroscience

Status: data only, 1 dataset cited

[14823] doi:10.3389/fpsyt.2025.1643355 [paper, data]

Molecular insights into the bidirectional link between anxiety and COVID-19: a combined clinical and bioinformatics approach.

Journal: Frontiers in psychiatry

Status: data only, 1 dataset cited

[14824] doi:10.3390/bs15080994 [paper, repository]

Reward Network Activations of Win Versus Loss in a Monetary Gambling Task.

Journal: Behavioral sciences (Basel, Switzerland)

Authors' code: yunshiuan/label4MRI (GPL-3.0)

Status: code verified, 12 files readable

[14825] doi:10.3390/ijms26157041 [paper, repository]

Identification of Drug Repurposing Candidates for Coxsackievirus B3 Infection in iPSC-Derived Brain-like Endothelial Cells.

Journal: International journal of molecular sciences

Authors' code: willgryan/3PodR_bookdown (no license)

Status: code verified, 42 files readable, 4 matches

[14826] doi:10.7554/elife.102823 [paper, repository]

Increased listening effort and cochlear neural degeneration underlie speech-in-noise deficits in normal-hearing middle-aged adults.

Journal: eLife

Authors' code: a-hurst/eyelinker (GPL-3.0)

Status: code verified, 13 files readable

[14827] doi:10.7554/elife.105225 [paper, repository]

Modular DNA barcoding of nanobodies enables multiplexed in situ protein imaging and high-throughput biomolecule detection.

Journal: eLife

Authors' code: RuiyuRayWang/BLISAcounts (MIT)

Status: code verified, 4 files readable

[14828] doi:10.7554/elife.98662 [paper, data]

Photoreceptor loss does not recruit neutrophils despite strong microglial activation.

Journal: eLife

Status: data only, 1 dataset cited

Monday, 21 July 2025 (40 papers)

[14829] doi:10.1007/s00702-025-02986-0 [paper]

The link between Wnt-related, stress-related, and circadian genes in the dermal fibroblasts of individuals with attention-deficit hyperactivity disorder.

Journal: Journal of neural transmission (Vienna, Austria : 1996)

Status: code on request

[14830] doi:10.1007/s11060-025-05137-3 [paper]

Dietary habits in relation to outcome and therapy-related toxicity in patients with glioblastoma - a retrospective cohort study.

Journal: Journal of neuro-oncology

Status: code on request

[14831] doi:10.1007/s11060-025-05166-y [paper]

SIN1 facilitates glioma progression and is associated with the KRAS/ERK pathway.

Journal: Journal of neuro-oncology

Status: data only

[14832] doi:10.1016/j.cell.2025.06.038 [paper]

In vivo prime editing rescues alternating hemiplegia of childhood in mice.

Journal: Cell

Status: code on request

[14833] doi:10.1016/j.celrep.2025.116030 [paper, repository]

Effective cerebellar neuroprosthetic control after stroke.

Journal: Cell reports

Authors' code: esedaghatnejad/psort (GPL-3.0), Zenodo 15392145 (GPL-3.0), rohitrangwani/cb_bmi_analysis (GPL-3.0)

Status: code verified, 230 files readable, 5 matches

[14834] doi:10.1016/j.isci.2025.113168 [paper, data]

Mozart's rhythm influence on Alzheimer's disease progression via modulation of pathological damage and cognition.

Journal: iScience

Status: code on request, 1 dataset cited

[14835] doi:10.1016/j.jcmgh.2025.101590 [paper, repository]

Single Cell Profiling in the Sox10<sup>Dom</sup> Hirschsprung Mouse Implicates Hox Genes in Enteric Neuron Trajectory Allocation.

Journal: Cellular and molecular gastroenterology and hepatology

Authors' code: OSF xp8zu (no license)

Status: code verified, 18 files readable, 13 matches

[14836] doi:10.1016/j.xpro.2025.103945 [paper, data]

Protocol for CRISPR-based manipulation and visualization of endogenous α-synuclein in cultured mouse hippocampal neurons.

Journal: STAR protocols

Status: data only, 1 dataset cited

[14837] doi:10.1038/s41467-025-61948-y [paper, repository]

Early intervention with electrical stimulation reduces neural damage after stroke in non-human primates.

Journal: Nature communications

Authors' code: jzhou33/stroke_estim (no license)

Status: code verified, 27 files readable, 14 matches

[14838] doi:10.1038/s41467-025-61978-6 [paper, repository]

Measurement characteristics and genome-wide correlates of lifetime brain atrophy estimated from a single MRI.

Journal: Nature communications

Authors' code: Zenodo 4776037 (MIT)

Status: code verified, 1 file readable

[14839] doi:10.1038/s41467-025-61988-4 [paper, repository]

A human brain network linked to restoration of consciousness after deep brain stimulation.

Journal: Nature communications

Authors' code: mickcrosse/PERMUTOOLS (BSD-3-Clause), netstim/leaddbs (GPL-3.0)

Status: code verified, 2,067 files readable, 12 matches

[14840] doi:10.1038/s41467-025-62003-6 [paper, data]

Determination of trunk neural crest cell fate and susceptibility to splicing perturbation by the DLC1-SF3B1-PHF5A splicing complex.

Journal: Nature communications

Status: data only, 2 datasets cited

[14841] doi:10.1038/s41537-025-00652-8 [paper]

Enhanced theta oscillations in the left temporoparietal region associated with refractory positive symptoms in schizophrenia.

Journal: Schizophrenia (Heidelberg, Germany)

Status: code on request

[14842] doi:10.1038/s41598-025-08552-8 [paper, data]

Modified energy-based GAN for intensity in homogeneity correction in brain MR images.

Journal: Scientific reports

Status: data only, 1 dataset cited

[14843] doi:10.1038/s41598-025-09862-7 [paper, data]

MDNCT: a multi-domain neurocognitive transformer architecture approach for early prediction of autism spectrum disorders.

Journal: Scientific reports

Status: data only, 3 datasets cited

[14844] doi:10.1038/s42003-025-08509-7 [paper, repository]

Development of areal-level individualized homologous functional parcellations in youth.

Journal: Communications biology

Authors' code: BIT-YangLab/IHFPs (no license), thomasyeolab/cbig (MIT), Washington-University/HCPpipelines (BSD-2-Clause), MidnightScanClub (no license), ecr05/MSM_HOCR (no license)

Status: code verified, 2,578 files readable, 11 matches

[14845] doi:10.1073/pnas.2502135122 [paper, data]

Characterizing a highly excited and sustained brain response activity during gaming: P300-CE.

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

Status: data only, 1 dataset cited

[14846] doi:10.1073/pnas.2505152122 [paper, data]

A preclinical pig model of Angelman syndrome mirrors the early developmental trajectory of the human condition.

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

Status: data only, 1 dataset cited

[14847] doi:10.1073/pnas.2511101122 [paper, repository]

Optimistic people are all alike: Shared neural representations supporting episodic future thinking among optimistic individuals.

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

Authors' code: OSF kgvhj (no license)

Status: code verified, 2 files readable, 4 matches

[14848] doi:10.1088/1741-2552/adec1c [paper, data]

Manipulation of neuronal activity by an artificial spiking neural network implemented on a closed-loop brain-computer interface in non-human primates.

Journal: Journal of neural engineering

Status: data only, 1 dataset cited

[14849] doi:10.1101/2025.07.16.665209 [paper, repository]

Dual-feature selectivity enables bidirectional coding in visual cortical neurons

Journal: bioRxiv (preprint)

Authors' code: enigmabrain/dualneuron (no license), doi:10.5061/dryad.q573n5tx3 (no license), enigma-brain/dualneuron (no license)

Status: code verified, 57 files readable, 24 matches

[14850] doi:10.1111/nyas.15391 [paper, repository]

Perturbing whole-brain models of brain hierarchy: An application for depression following pharmacological treatment.

Journal: Annals of the New York Academy of Sciences

Authors' code: marcelsocoro/PertWBModelsHierarchyDep (MIT)

Status: code verified, 128 files readable, 9 matches

[14851] doi:10.1111/nyas.15410 [paper, data]

Neuronal activity underlying vocal production in bats.

Journal: Annals of the New York Academy of Sciences

Status: data only, 1 dataset cited

[14852] doi:10.1117/1.jbo.30.7.075002 [paper]

Evaluation of layered tissue scattering properties: a time-domain spatially resolved spectroscopy approach.

Journal: Journal of biomedical optics

Status: code on request

[14853] doi:10.1162/imag.a.79 [paper, repository]

Open-source platforms to investigate analytical flexibility in neuroimaging.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: repronim/neurodocker (Apache-2.0), nbviewer.org/github/boutiques (no license), boutiques/boutiques (MIT), edf-hpc/verrou (GPL-3.0), verificarlo/verificarlo (Apache-2.0), verificarlo/fuzzy (Apache-2.0), virtual-imaging-platform/vip-portal (CECILL-2.1), childmindresearch/niwrap (MIT), neurodatascience/analytical-flexibility-tool-metrics (MIT), Zenodo 14783114 (MIT), nipoppy/nipoppy (MIT)

Status: code verified, 1,692 files readable, 7 matches

[14854] doi:10.1162/imag.a.86 [paper, repository]

Burst estimation through atomic decomposition (BEAD): A toolbox to find oscillatory bursts in brain signals.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: avianand8/GammaLengthProjectCodes (no license)

Status: code verified, 36 files readable, 2 matches

[14855] doi:10.1162/imag.a.91 [paper, repository]

Multimodal state-dependent connectivity analysis of arousal and autonomic centers in the brainstem and basal forebrain.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: neurdylab/brainstem_vigilance_connectivity (no license)

Status: empty repository, 1 file readable

[14856] doi:10.1186/s11658-025-00772-0 [paper, data]

Integrated transcriptomics and metabolomics confirms the oxidative stress mechanism of hypothermia-induced neuronal necroptosis.

Journal: Cellular & molecular biology letters

Status: data only, 1 dataset cited

[14857] doi:10.1186/s12865-025-00736-1 [paper, data]

Pidotimod alleviated experimental autoimmune encephalomyelitis by regulating the balance of splenic lymphocytes.

Journal: BMC immunology

Status: data only, 1 dataset cited

[14858] doi:10.1186/s13041-025-01237-3 [paper, data]

Differential effects of antiemetic serotonin receptor antagonist Ondansetron on nausea associated with CHRM3 rs2165870 and TACR1 rs3755468 single-nucleotide polymorphisms.

Journal: Molecular brain

Status: data only, 4 datasets cited

[14859] doi:10.1371/journal.pbio.3003241 [paper, repository]

Personalised regional modelling predicts tau progression in the human brain.

Journal: PLoS biology

Authors' code: Zenodo 15389493 (CC-BY-4.0), PavanChaggar/local-fkpp (CC-BY-4.0)

Status: code verified, 42 files readable

[14860] doi:10.1371/journal.pcbi.1012092 [paper, repository]

Disentangling signal and noise in neural responses through generative modeling.

Journal: PLoS computational biology

Authors' code: OSF fc589 (no license), OSF wkyxn (no license), cvnlab/GSN (BSD-3-Clause), OSF 7k2m5 (no license), OSF 5uskr (no license), OSF 3yvtg (no license), OSF yxrsp (no license), OSF f34bc (no license), dp4846/meme_v1_bpl (no license)

Status: code verified, 94 files readable, 20 matches

[14861] doi:10.1371/journal.pcbi.1013224 [paper, repository]

Comparison of FORCE trained spiking and rate neural networks shows spiking networks learn slowly with noisy, cross-trial firing rates.

Journal: PLoS computational biology

Authors' code: Trnewton/RateVsSpike (MIT), Zenodo 13333935 (CC-BY-4.0)

Status: code verified, 16 files readable, 6 matches

[14862] doi:10.1371/journal.pcbi.1013303 [paper, repository]

Tensor decomposition of multi-dimensional splicing events across multiple tissues to identify splicing-mediated risk genes associated with complex traits.

Journal: PLoS computational biology

Authors' code: cgg-l/mtsg (no license)

Status: code verified, 19 files readable, 1 match

[14863] doi:10.3389/fimmu.2025.1636917 [paper, data]

TREM-1 as a potential gatekeeper of neuroinflammatory responses: therapeutic validation and mechanistic insights in experimental traumatic brain injury.

Journal: Frontiers in immunology

Status: data only, 1 dataset cited

[14864] doi:10.3389/fncir.2025.1542332 [paper, repository]

Bayesian estimation of orientation and direction tuning captures parameter uncertainty.

Journal: Frontiers in neural circuits

Authors' code: VH-Lab/vhlab-bayesoridir-matlab (other), MATLABCommunity-Toolboxes-at-INCF/Brain-Observatory-Toolbox (no license)

Status: code verified, 91 files readable, 11 matches

[14865] doi:10.3390/ijms26147021 [paper, repository]

Cytochalasins Suppress 3D Migration of ECM-Embedded Tumoroids at Non-Toxic Concentrations.

Journal: International journal of molecular sciences

Authors' code: burgerga/CPTrackRApp (other)

Status: code verified, 20 files readable, 2 matches

[14866] doi:10.7554/elife.100162 [paper, repository]

Cntnap2 loss drives striatal neuron hyperexcitability and behavioral inflexibility.

Journal: eLife

Authors' code: BateupLab/Cording2025 (EUPL-1.2)

Status: code verified, 3 files readable, 1 match

[14867] doi:10.7554/elife.101413 [paper, repository]

Methamphetamine-induced adaptation of learning rate dynamics depend on baseline performance.

Journal: eLife

Authors' code: HansKirschner/REFIT_Chicago_public (MIT)

Status: code verified, 329 files readable, 5 matches

[14868] doi:10.7554/elife.102230 [paper, repository]

Neural circuit mechanisms for steering control in walking <i>Drosophila</i>.

Journal: eLife

Authors' code: SashaRayshubskiy/eLife_102230_analysis_code (MIT), wilson-lab/rayshubskiy_elife_102230_secondary_analysis_code (MIT)

Status: code verified, 309 files readable, 11 matches

Sunday, 20 July 2025 (2 papers)

[14869] doi:10.1016/j.dib.2025.111901 [paper, data]

Data on ethanol drinking and microbiome in alcohol preferring and non-preferring rats after a fecal microbiota transplant.

Journal: Data in brief

Status: data only, 2 datasets cited

[14870] doi:10.1038/s41598-025-12526-1 [paper, repository]

Accurate deep-learning model to differentiate dementia severity and diagnosis using a portable electroencephalography device.

Journal: Scientific reports

Authors' code: mhata-lab/dementia-transformer-eeg (no license)

Status: code verified, 2 files readable, 2 matches

Saturday, 19 July 2025 (12 papers)

[14871] doi:10.1002/pld3.70097 [paper, repository]

Between Two Extremes: <i>Tripsacum dactyloides</i> Root Anatomical Responses to Drought and Waterlogging.

Journal: Plant direct

Authors' code: Kenizzer/Tripsacum_dactyloides_Root_Anatomical_Responses_to_Drought_and_Waterlogging (MIT)

Status: code verified, 5 files readable, 5 matches

[14872] doi:10.1038/s41380-025-03114-w [paper, repository]

Early postnatal dysfunction of ACC PV interneurons in Shank3B^-/- mice.

Journal: Molecular psychiatry

Authors' code: Peixoto-Lab/Shih_2025 (no license), LarsHenrikNelson/ClampSuite (GPL-3.0)

Status: code verified, 49 files readable, 4 matches

[14873] doi:10.1038/s41467-025-60895-y [paper, data]

Prdm16 regulates the postnatal fate of embryonic radial glia via Vcam1-dependent mechanisms.

Journal: Nature communications

Status: data only, 1 dataset cited

[14874] doi:10.1038/s41467-025-61999-1 [paper, repository]

The invasion phenotypes of glioblastoma depend on plastic and reprogrammable cell states.

Journal: Nature communications

Authors' code: Zenodo 15682177 (CC-BY-4.0)

Status: code verified, 1 file readable, 2 matches

[14875] doi:10.1038/s41598-025-10270-0 [paper, data]

Advancing EEG based stress detection using spiking neural networks and convolutional spiking neural networks.

Journal: Scientific reports

Status: data only, 2 datasets cited

[14876] doi:10.1038/s41598-025-11943-6 [paper]

Commonality of neuronal coherence for motor skill acquisition and interlimb transfer.

Journal: Scientific reports

Status: code on request

[14877] doi:10.1038/s42003-025-08484-z [paper, data]

Tissue-engineered neuromuscular organoids.

Journal: Communications biology

Status: code on request, 1 dataset cited

[14878] doi:10.1101/2025.07.16.664881 [paper, repository]

Dynamical independence reveals anaesthetic specific fragmentation of emergent structure in neural dynamics

Journal: bioRxiv (preprint)

Authors' code: bmilinkovic/di_eeg (no license), lcbarnett/ssdi (GPL-3.0)

Status: code verified, 123 files readable, 18 matches

[14879] doi:10.1177/09727531251351067 [paper, data]

Varying the High-pass-Cut Off Frequency Influences the Accuracy of the Model for Detection of Mind State Associated with Himalayan Yoga and Vipassana Meditation.

Journal: Annals of neurosciences

Status: data only, 2 datasets cited

[14880] doi:10.1186/s13046-025-03473-w [paper, data]

Targeting autophagy and plasminogen activator inhibitor-1 increases survival and remodels the tumor microenvironment in glioblastoma.

Journal: Journal of experimental & clinical cancer research : CR

Status: data only, 1 dataset cited

[14881] doi:10.1186/s40478-025-02074-0 [paper, data]

Influence of ATXN2 intermediate CAG repeats, 9bp duplication and alternative splicing on SCA3 pathogenesis.

Journal: Acta neuropathologica communications

Status: code on request, 1 dataset cited

[14882] doi:10.3390/jof11070539 [paper, data]

Human Brain Organoids: A New Model to Study <i>Cryptococcus neoformans</i> Neurotropism.

Journal: Journal of fungi (Basel, Switzerland)

Status: data only, 1 dataset cited

Friday, 18 July 2025 (25 papers)

[14883] doi:10.1007/s12035-025-05217-5 [paper]

Disrupted Lipid Metabolism Aggravates Ischemic Brain Injury: Targeting FDFT1 for Stroke Therapy.

Journal: Molecular neurobiology

Status: data only

[14884] doi:10.1016/j.bpsgos.2025.100568 [paper, repository]

A Critical Evaluation of Background Gene Omission in Imaging Transcriptomics.

Journal: Biological psychiatry global open science

Authors' code: BMHLab/AHBAprocessing (no license), zh1peng/paper_code (no license)

Status: code verified, 598 files readable

[14885] doi:10.1016/j.dcn.2025.101598 [paper, repository]

High-field fMRI at 7 Tesla reveals topographic responses tuned to number in the developing human brain.

Journal: Developmental cognitive neuroscience

Authors' code: Zenodo 10573042 (GPL-3.0), SkeideLab/EMPRISE-KIDS (GPL-3.0), haenelt/fmritools (GPL-3.0)

Status: code verified, 375 files readable, 25 matches

[14886] doi:10.1016/j.isci.2025.113146 [paper, repository]

Motor timing is shared between limbs during symmetric bimanual movements.

Journal: iScience

Authors' code: figshare 29068454 (CC-BY-4.0)

Status: code verified, 2 files readable, 1 match

[14887] doi:10.1016/j.isci.2025.113161 [paper, data]

Sister external tufted cells form dynamic intraglomerular ensembles representing odor identity and concentration.

Journal: iScience

Status: code on request, 1 dataset cited

[14888] doi:10.1038/s41467-025-61052-1 [paper, repository]

Synaptic enrichment of pSer129 alpha-synuclein correlates with dopaminergic denervation in early-stage Parkinson's disease.

Journal: Nature communications

Authors' code: WilmaVandeBerg/Synaptic-alpha-synuclein (no license)

Status: empty repository, 1 file readable

[14889] doi:10.1038/s41467-025-61771-5 [paper, repository]

Somatostatin-expressing interneurons induce early NO-driven and late specific astrocyte-mediated vasodilation.

Journal: Nature communications

Authors' code: Zenodo 15687724 (CC-BY-4.0)

Status: code verified

[14890] doi:10.1038/s41467-025-62030-3 [paper, repository]

Generating brain-wide connectome using synthetic axonal morphologies.

Journal: Nature communications

Authors' code: BlueBrain/axon-projection (Apache-2.0), Remy2506/axon_projection_figures (no license), Zenodo 11072355 (CC-BY-4.0), bluebrain/morphology-workflows (Apache-2.0)

Status: code verified, 126 files readable, 15 matches

[14891] doi:10.1038/s41551-025-01454-0 [paper, repository]

A pattern-learning algorithm associates copy number variations with brain structure and behavioural variables in an adolescent population cohort.

Journal: Nature biomedical engineering

Authors' code: labjacquemont/MIND-GENESPARALLELCNV (no license), ucscGenomeBrowser/kent (MIT), labjacquemont/DigCNV (GPL-3.0), jakubkopal/CNV-covariance (MIT), Zenodo 15229008 (MIT), jakubkopal/cnv-convergence (MIT)

Status: code verified, 2,055 files readable

[14892] doi:10.1038/s41598-025-09540-8 [paper, repository]

An investigation into the comfort and neural response of textured visual stimuli in pediatric SSVEP-based BCI.

Journal: Scientific reports

Authors' code: kirtonBCIlab/bci-essentials-python (MPL-2.0), kirtonBCIlab/easy-on-the-eyes (no license)

Status: code verified, 80 files readable, 6 matches

[14893] doi:10.1038/s41598-025-11857-3 [paper, repository]

SMARCA5 is required for the development of granule cell neuron precursors and Sonic Hedgehog Medulloblastoma growth.

Journal: Scientific reports

Authors' code: Zenodo 11547189 (CC-BY-4.0), merklab/dnmt1_in_sonic_hedgehog_medulloblastoma (no license)

Status: code verified, 12 files readable

[14894] doi:10.1038/s41598-025-12135-y [paper, repository]

Speech prediction of a listener via EEG-based classification through subject-independent phase dissimilarity model.

Journal: Scientific reports

Authors' code: figshare 24916683 (no license)

Status: dead link

[14895] doi:10.1101/2025.07.14.664740 [paper, repository]

Microsaccades track shifting but not necessarily maintaining covert visual-spatial attention

Journal: bioRxiv (preprint)

Authors' code: annavanharmelen/Microsaccade-bias-experiment (GPL-3.0)

Status: code verified, 14 files readable, 3 matches

[14896] doi:10.1111/cdev.70004 [paper, data]

The N2 During Preschool: Temporal Stability and a Test of Bidirectional Effects With Maternal Emotion Characteristics in a White, European-American Sample.

Journal: Child development

Status: data only, 1 dataset cited

[14897] doi:10.1111/febs.70169 [paper, repository]

A phosphoserine phosphatase variant present in the brain of Alzheimer's disease patients favors nuclear mistargeting.

Journal: The FEBS journal

Authors' code: lh3/bwa (GPL-3.0), infphilo/tophat (BSL-1.0), broadinstitute/gatk (Apache-2.0), broadinstitute/picard (MIT), BIOP/ijp-jacop-b (GPL-3.0)

Status: code verified, 3,576 files readable, 1 match

[14898] doi:10.1126/sciadv.adv1492 [paper, data]

CHI3L1/YKL-40 signaling inhibits neurogenesis in models of Alzheimer's disease.

Journal: Science advances

Status: data only, 1 dataset cited

[14899] doi:10.1126/sciadv.adw7425 [paper, repository]

Delivery of a fibrin-binding hemostatic polymer ameliorates neurovascular damage and neural tissue loss after traumatic brain injury.

Journal: Science advances

Authors' code: Zenodo 15278041 (CC-BY-4.0)

Status: code verified, 12 files readable, 1 match

[14900] doi:10.1159/000547444 [paper, data]

The Anatomy of Infarcts Causing Hemianopia and Quadrantanopia in Posterior Cerebral Artery Stroke.

Journal: Cerebrovascular diseases (Basel, Switzerland)

Status: data only, 1 dataset cited

[14901] doi:10.1162/imag.a.84 [paper, repository]

Uncovering the neural correlates of the urge-to-blink: A study utilising subjective urge ratings and paradigm free mapping.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: MairiH/PFM_urgetoblink (GPL-3.0), Zenodo 5788350 (other-open), me-ica/rica (LGPL-2.1)

Status: code verified, 90 files readable, 8 matches

[14902] doi:10.1371/journal.pone.0328530 [paper, data]

Integrated bioinformatics and experimental validation identify ATF3 as a key gene in secondary brain damage after intracerebral hemorrhage.

Journal: PloS one

Status: data only, 1 dataset cited

[14903] doi:10.3389/fnetp.2025.1621283 [paper, repository]

Amplifying post-stimulation oscillatory dynamics by engaging synaptic plasticity with transcranial alternating current stimulation.

Journal: Frontiers in network physiology

Authors' code: arefpz/neuronal_population (GPL-3.0)

Status: code verified, 17 files readable, 1 match

[14904] doi:10.3389/fnins.2025.1569397 [paper, repository]

Efficient implementation of the Hodgkin-Huxley potassium channel via a single volatile memristor.

Journal: Frontiers in neuroscience

Authors' code: llandsmeer/frontiers_nbox_k (no license)

Status: code verified, 17 files readable

[14905] doi:10.3390/cells14141103 [paper]

IP3R2-Mediated Astrocytic Ca<sup>2+</sup> Transients Are Critical to Sustain Modulatory Effects of Locomotion on Neurons in Mouse Somatosensory Cortex.

Journal: Cells

Status: code on request

[14906] doi:10.3390/healthcare13141738 [paper, data]

Acute Neurochemical, Psychophysiological, and Cognitive Responses to Small-Sided Games vs. Running-Based HIIT in Young, Male Soccer Players.

Journal: Healthcare (Basel, Switzerland)

Status: data only, 1 dataset cited

[14907] doi:10.7554/elife.93200 [paper, data]

Mediodorsal thalamic nucleus mediates resistance to ethanol through Ca<sub>v</sub>3.1 T-type Ca<sup>2+</sup> regulation of neural activity.

Journal: eLife

Status: data only, 1 dataset cited

Thursday, 17 July 2025 (29 papers)

[14908] doi:10.1002/1878-0261.70095 [paper, data]

Pericytes change function depending on glioblastoma vicinity: emphasis on immune regulation.

Journal: Molecular oncology

Status: data only, 1 dataset cited

[14909] doi:10.1007/s00401-025-02908-0 [paper, data]

Loss of the lysosomal lipid flippase ATP10B leads to progressive dopaminergic neurodegeneration and parkinsonian motor deficits.

Journal: Acta neuropathologica

Status: data only, 2 datasets cited

[14910] doi:10.1007/s12035-025-05206-8 [paper, data]

SnRNA-seq Interprets Mechanisms by which Three Glial Cell Types Influence Myelin Regeneration in Adult Drug-Resistant Epilepsy-Related Cognitive Impairment.

Journal: Molecular neurobiology

Status: data only, 1 dataset cited

[14911] doi:10.1016/j.celrep.2025.116011 [paper]

Signaling by intracellular β<sub>2</sub>-adrenergic receptors regulates AMPA receptor trafficking and synaptic plasticity.

Journal: Cell reports

Status: code on request

[14912] doi:10.1016/j.celrep.2025.116016 [paper]

Single-nucleus neuronal transcriptional profiling of male C. elegans uncovers regulators of sex-specific and sex-shared behaviors.

Journal: Cell reports

Status: code on request

[14913] doi:10.1016/j.neuroimage.2025.121380 [paper, data]

ACC representations of reward-driven motivation over hierarchically-organized behavior.

Journal: NeuroImage

Status: data only, 1 dataset cited

[14914] doi:10.1016/j.nicl.2025.103847 [paper, repository]

Electric field variations across DLPFC targeting methods in TMS therapy for Alzheimer's disease.

Journal: NeuroImage. Clinical

Authors' code: jigongjun/Neuroimaging-and-neuromodulation (no license)

Status: code verified, 157 files readable, 1 match

[14915] doi:10.1016/j.omtn.2025.102633 [paper, repository]

Multi-omics integrative analysis reveals novel genetic loci and candidate genes for ischemic stroke.

Journal: Molecular therapy. Nucleic acids

Authors' code: QIANJINYDX/StrokeGene (Apache-2.0)

Status: code verified, 25 files readable, 2 matches

[14916] doi:10.1021/acs.jcim.5c00724 [paper, repository]

Graph Convolutional Neural Network-Enabled Frontier Molecular Orbital Prediction: A Case Study with Neurotransmitters and Antidepressants.

Journal: Journal of chemical information and modeling

Authors' code: rivmons/gcn-frontiermo (no license)

Status: code verified, 10 files readable, 2 matches

[14917] doi:10.1038/s41398-025-03467-4 [paper, repository]

Neural correlates differ between crystallized and fluid intelligence in adolescents.

Journal: Translational psychiatry

Authors' code: netneurolab/abagen (BSD-3-Clause), juryxy/juspace (no license)

Status: code verified, 76 files readable, 1 match

[14918] doi:10.1038/s41398-025-03468-3 [paper, data]

CHD8 adulthood microglial knockdown in C57BL6 mice induces behavioral, morphological, and transcriptional changes in a sex-dependent manner.

Journal: Translational psychiatry

Status: data only, 1 dataset cited

[14919] doi:10.1038/s41514-025-00255-8 [paper, repository]

Modifiable traits and genetic associations with grey matter volume in mid-to-late adulthood: a population-based study in the UK biobank.

Journal: npj aging

Authors' code: SnowSunshine-gqp/UKB_PWAS (no license)

Status: code verified, 35 files readable, 5 matches

[14920] doi:10.1038/s41598-025-09358-4 [paper, data]

The effects of cues on task interruption recovery in a concurrent multitasking environment.

Journal: Scientific reports

Status: data only, 1 dataset cited

[14921] doi:10.1038/s41598-025-09909-9 [paper, data]

Prenatal exposure to bisphenol A disrupts RNA splicing in the prefrontal cortex and promotes behaviors related to autism in offspring.

Journal: Scientific reports

Status: data only, 1 dataset cited

[14922] doi:10.1038/s43856-025-01015-1 [paper, repository]

Transformer-based structural connectivity networks for ADHD-related connectivity alterations.

Journal: Communications medicine

Authors' code: sekirete/ADHD_Transformer (no license)

Status: code verified, 9 files readable, 5 matches

[14923] doi:10.1038/s44319-025-00524-3 [paper, data]

Kin17 promotes rDNA transcription, ribosomal biogenesis, and cortical lamination.

Journal: EMBO reports

Status: data only, 1 dataset cited

[14924] doi:10.1073/pnas.2509622122 [paper, repository]

Cell-type-informed genotyping of mosaic focal epilepsies reveals cell-autonomous and non-cell-autonomous disease-associated transcriptional programs.

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

Authors' code: MayaTalukdar/single-cell-analysis-of-fcd (MIT)

Status: code verified, 17 files readable, 6 matches

[14925] doi:10.1101/2025.07.16.664682 [paper, repository]

A Developmental Atlas of the <i>Drosophila</i> Nerve Cord Uncovers a Global Temporal Code for Neuronal Identity

Journal: bioRxiv (preprint)

Authors' code: natverse/malevnc (GPL-3.0), flyconnectome/fancr (GPL-3.0), natverse/fafbseg (GPL-3.0)

Status: code verified, 160 files readable

[14926] doi:10.1155/ijog/9346050 [paper, data]

Molecular Basis of Aggressiveness in Pituitary Adenomas and Its Association With the Immune Microenvironment.

Journal: International journal of genomics

Status: data only, 1 dataset cited

[14927] doi:10.1161/jaha.124.040621 [paper, repository]

Randomized Controlled Preclinical Trial of a Benzodiazepine-Dihydropyridine Hybrid Molecule in Rodent Stroke.

Journal: Journal of the American Heart Association

Authors' code: Zenodo 10689054 (CC-BY-4.0), Zenodo 10689055 (CC-BY-4.0)

Status: code verified, 2 files readable

[14928] doi:10.1162/imag.a.75 [paper]

Neural correlates of foreign speech imitation: The effects of age and music.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

[14929] doi:10.1162/imag.a.77 [paper, repository]

Linking neuron-axon-synapse architecture to white matter vasculature using high-resolution multimodal MRI in primate brain.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: yeatmanlab/AFQ (gnu)

Status: code verified, 180 files readable, 1 match

[14930] doi:10.1364/boe.563128 [paper, repository]

ISOSNet: a unified framework for cone photoreceptor detection and inner segment and outer segment length measurement from AO-OCT B-scans.

Journal: Biomedical optics express

Authors' code: simonzmx/ISOSNet (Apache-2.0)

Status: code verified, 52 files readable, 12 matches

[14931] doi:10.1371/journal.pone.0326032 [paper, repository]

Impact of the entorhinal feed-forward connection to the CA3 on hippocampal coding.

Journal: PloS one

Authors' code: Brewer-Neurolab/Khatri_Lassers_EC_CA3_Pathway_Effect (MIT)

Status: code verified, 28 files readable

[14932] doi:10.2196/69607 [paper, repository]

Breath-Focused Mindfulness and Compassion Training in Parent-Child Dyads: Pilot Intervention Study.

Journal: JMIR formative research

Authors' code: doi:10.5061/dryad.9ghx3ffss (no license)

Status: code verified

[14933] doi:10.3390/bioengineering12070775 [paper, repository]

MCTGNet: A Multi-Scale Convolution and Hybrid Attention Network for Robust Motor Imagery EEG Decoding.

Journal: Bioengineering (Basel, Switzerland)

Authors' code: huangt126/MCTGNet (no license)

Status: code verified, 4 files readable, 2 matches

[14934] doi:10.3390/ijms26146878 [paper, repository]

Identifying Cortical Molecular Biomarkers Potentially Associated with Learning in Mice Using Artificial Intelligence.

Journal: International journal of molecular sciences

Authors' code: raymondstfx/DataCleaningForMiceProtein (no license), stfxecutables/df-analyze (no license)

Status: code verified, 174 files readable, 3 matches

[14935] doi:10.7554/elife.100722 [paper, repository]

POMC neurons control fertility through differential signaling of MC4R in kisspeptin neurons.

Journal: eLife

Authors' code: supp:PMC12270483/elife-100722-code1.zip (no license)

Status: code verified, 1 file readable

[14936] doi:10.7554/elife.104118 [paper, repository]

Integration of parallel pathways for flight control in a hawkmoth reflects prevalence and relevance of natural visual cues.

Journal: eLife

Authors' code: stoeckl-lab/Bigge_et_al_2025 (no license)

Status: code verified, 14 files readable, 6 matches

Wednesday, 16 July 2025 (52 papers)

[14937] doi:10.1002/advs.202417644 [paper, repository]

Aging and the Spectral Properties of Brain Hemodynamics.

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

Authors' code: robbisg/4dfp_tools (no license)

Status: code verified, 219 files readable, 1 match

[14938] doi:10.1002/advs.202507843 [paper, data]

Direct Sequencing of 5-Methylcytosine and 5-Hydroxymethylcytosine at Single-Base Resolution Unravels Their Distinct Roles in Alzheimer's Disease.

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

Status: data only, 1 dataset cited

[14939] doi:10.1016/j.apsb.2025.07.018 [paper, repository]

A computational medicine framework integrating multi-omics, systems biology, and artificial neural networks for Alzheimer's disease therapeutic discovery.

Journal: Acta pharmaceutica Sinica. B

Authors' code: hfang-bristol/PI4AD (GPL-2.0)

Status: code verified, 64 files readable, 9 matches

[14940] doi:10.1016/j.cell.2025.06.028 [paper, repository]

Imaging high-frequency voltage dynamics in multiple neuron classes of behaving mammals.

Journal: Cell

Authors' code: schnitzer-lab/CoReU (no license), Zenodo 15686223 (CC-BY-4.0), sihaziza/uSMAART_public (GPL-3.0), Zenodo 15679319 (CC-BY-4.0), schnitzer-lab/TEMPO-processing (no license)

Status: code verified, 276 files readable, 9 matches

[14941] doi:10.1016/j.cell.2025.06.030 [paper, repository]

Brain endothelial gap junction coupling enables rapid vasodilation propagation during neurovascular coupling.

Journal: Cell

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

Status: code found, still to be checked

[14942] doi:10.1016/j.celrep.2025.116017 [paper, repository]

Intradental mechano-nociceptors serve as sentinels that prevent tooth damage.

Journal: Cell reports

Authors' code: Zenodo 15643732 (MIT), neurojak/pySpinCapture (GPL-3.0), emricklab/all-code-tooth-sentinels-cell-reports-2025 (MIT)

Status: code verified, 63 files readable, 8 matches

[14943] doi:10.1016/j.cognition.2025.106241 [paper, repository]

Does overnight memory consolidation support next-day learning?

Journal: Cognition

Authors' code: OSF qbeh3 (no license)

Status: code verified, 7 files readable, 7 matches

[14944] doi:10.1016/j.cub.2025.06.064 [paper, repository]

Cortical activity upon awakening from sleep reveals consistent spatio-temporal gradients across sleep stages in human EEG.

Journal: Current biology : CB

Authors' code: Zenodo 15838327 (CC-BY-4.0), sleepdreamslab/stephan_2025_currbiol (no license)

Status: code verified, 420 files readable, 1 match

[14945] doi:10.1016/j.devcel.2025.06.029 [paper, repository]

The cis-regulatory logic integrating spatial and temporal patterning in the vertebrate neural tube.

Journal: Developmental cell

Authors' code: MJDelas/temporal-neural (no license), snystrom/memes (other)

Status: code verified, 81 files readable, 14 matches

[14946] doi:10.1016/j.eclinm.2025.103333 [paper]

Association of dietary macronutrients with MRI-detected vascular brain injury and cognition in 9886 middle-aged participants from four countries: for the Canadian Alliance of Healthy Hearts and Minds (CAHHM) and the Prospective Urban Rural Epidemiolog&lt;b&gt;ical&lt;/b&gt; (PURE) Study Investigators.

Journal: EClinicalMedicine

Status: code on request

[14947] doi:10.1016/j.isci.2025.113120 [paper, data]

Impaired neuromodulator crosstalk delays arousal-dependent astroglia Ca&lt;sup&gt;2+&lt;/sup&gt; activation in mouse models of Alzheimer's disease.

Journal: iScience

Status: code on request, 1 dataset cited

[14948] doi:10.1016/j.isci.2025.113122 [paper, data]

Agonist-antagonist muscular co-contraction improves rapid corrective responses.

Journal: iScience

Status: code on request, 1 dataset cited

[14949] doi:10.1016/j.isci.2025.113130 [paper, data]

Interferon signaling modulates Down syndrome-associated Alzheimer's disease pathology in a mouse model.

Journal: iScience

Status: code on request, 1 dataset cited

[14950] doi:10.1038/s41380-025-03117-7 [paper]

Multivariate patterns linking brain microstructure to temperament and behavior in adolescent eating disorders.

Journal: Molecular psychiatry

Status: code on request

[14951] doi:10.1038/s41398-025-03451-y [paper, data]

Transcriptional changes across tissue and time provide molecular insights into a therapeutic window of opportunity following traumatic stress exposure.

Journal: Translational psychiatry

Status: data only, 1 dataset cited

[14952] doi:10.1038/s41420-025-02601-x [paper, data]

The EIF4EBP1 gene encoding 4EBP1 is transcriptionally upregulated by MYC and linked to shorter survival in medulloblastoma.

Journal: Cell death discovery

Status: data only, 1 dataset cited

[14953] doi:10.1038/s41467-025-61786-y [paper, data]

LIN-39 is a neuron-specific developmental determinant of longevity in Caenorhabditis elegans with reduced insulin signaling.

Journal: Nature communications

Status: data only, 1 dataset cited

[14954] doi:10.1038/s41514-025-00258-5 [paper]

Interpretable deep learning framework for understanding molecular changes in human brains with Alzheimer's disease: implications for microglia activation and sex differences.

Journal: npj aging

Status: code on request

[14955] doi:10.1038/s41551-025-01457-x [paper, repository]

Ultra-high gradient connectomics and microstructure MRI scanner for imaging of human brain circuits across scales.

Journal: Nature biomedical engineering

Authors' code: Connectome20/protocol_design_PGSE (MIT), Connectome20/Biophysical-modeling (MIT), Zenodo 15312803 (CC-BY-4.0), Zenodo 15319985 (CC-BY-4.0)

Status: code verified, 54 files readable, 7 matches

[14956] doi:10.1038/s41586-025-09250-1 [paper, repository]

Longer scans boost prediction and cut costs in brain-wide association studies.

Journal: Nature

Authors' code: ThomasYeoLab/CBIG (MIT)

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

[14957] doi:10.1038/s41586-025-09261-y [paper, repository]

Mitochondrial origins of the pressure to sleep.

Journal: Nature

Authors' code: broadinstitute/Drop-seq (MIT), satijalab.org/seurat (no license)

Status: code verified, 743 files readable, 2 matches

[14958] doi:10.1038/s41593-025-01992-5 [paper]

Evidence for trans-synaptic propagation of oligomeric tau in human progressive supranuclear palsy.

Journal: Nature neuroscience

Status: code on request

[14959] doi:10.1038/s41593-025-02011-3 [paper, repository]

Synchronization of visual perception within the human fovea.

Journal: Nature neuroscience

Authors' code: rdiggelmann/HDsort (MIT)

Status: code verified, 336 files readable, 6 matches

[14960] doi:10.1038/s41598-025-07870-1 [paper, repository]

The effects of spatial relations and motion information in social scene perception.

Journal: Scientific reports

Authors' code: OSF mbzfs (no license)

Status: code verified, 7 files readable, 1 match

[14961] doi:10.1038/s41598-025-09542-6 [paper, data]

Directed attention influences optimality of top-down and bottom-up multi-modal perceptual integration.

Journal: Scientific reports

Status: data only, 1 dataset cited

[14962] doi:10.1038/s41598-025-10947-6 [paper, repository]

Evaluating the impact of denoising diffusion MRI data on tractometry metrics of optic tract abnormalities in glaucoma.

Journal: Scientific reports

Authors' code: OkazakiTakemuraLab/GlaucomadMRIdenoising (no license), Zenodo 15015932 (CC-BY-4.0)

Status: code verified, 148 files readable, 9 matches

[14963] doi:10.1038/s42003-025-08448-3 [paper, repository]

Infra-slow scale-free dynamics modulate the connection of neural and behavioral variability during attention.

Journal: Communications biology

Authors' code: georgnorthoff.com/code (no license)

Status: code verified

[14964] doi:10.1038/s42003-025-08463-4 [paper, repository]

Long-read RNA sequencing unveils a novel cryptic exon in MNAT1 along with its full-length transcript structure in TDP-43 proteinopathy.

Journal: Communications biology

Authors' code: LuyiTian/FLAMES (GPL-3.0), rkajitani/IsoRefiner (MIT)

Status: code verified, 79 files readable, 12 matches

[14965] doi:10.1073/pnas.2425788122 [paper, repository]

Diverse and dynamic influences of saccades on visual representations in the mouse superior colliculus.

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

Authors' code: Zenodo 13824235 (CC-BY-4.0), jbhunt/myphdlib (no license)

Status: code verified, 113 files readable, 8 matches

[14966] doi:10.1073/pnas.2501811122 [paper, repository]

Representational drift and learning-induced stabilization in the piriform cortex.

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

Authors' code: guillermobm95/Representational-drift-in-piriform-cortex (GPL-3.0)

Status: code verified, 9 files readable, 9 matches

[14967] doi:10.1091/mbc.e25-05-0257 [paper, data]

Microglia express Tie2 in a longitudinal imaging study of acute neural injury in mice.

Journal: Molecular biology of the cell

Status: data only, 1 dataset cited

[14968] doi:10.1098/rsos.250697 [paper, repository]

Enzyme inhibitory activity of marine alkaloid aaptamines for neurodegenerative diseases: an &lt;i&gt;in silico&lt;/i&gt; study.

Journal: Royal Society open science

Authors' code: doi:10.5061/dryad.4f4qrfjqh (no license), doi:10.6084/m9.figshare.c.7888744 (no license)

Status: code verified

[14969] doi:10.1117/1.jbo.30.7.078001 [paper]

Laser coagulation of blood vessels at 454 nm wavelength for neurosurgical interventions.

Journal: Journal of biomedical optics

Status: code on request

[14970] doi:10.1126/sciadv.adu8634 [paper, repository]

A forward-engineered, muscle-driven soft robotic swimmer.

Journal: Science advances

Authors' code: wdrennan/Biohybrid-Swimmer-Digital-Assets (GPL-3.0)

Status: code verified, 23 files readable, 5 matches

[14971] doi:10.1162/imag.a.71 [paper, repository]

Generation of surrogate brain maps preserving spatial autocorrelation through random rotation of geometric eigenmodes.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: murraylab/brainsmash (GPL-3.0), SNG-Newy/eigenstrapping-analysis (GPL-3.0), SNG-newy/eigenstrapping (GPL-3.0), Zenodo 10253593 (CC-BY-4.0), Zenodo 10583040 (CC-BY-4.0)

Status: code verified, 148 files readable, 12 matches

[14972] doi:10.1162/imag.a.83 [paper]

Spatial and Temporal Progression of Neurodegeneration in Confirmed and Suspected TDP-43 Type C Pathology.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

[14973] doi:10.1186/s12864-025-11833-1 [paper, repository]

De novo genome assembly, annotation, and characterization of chemosensory genes in the camel ked (Hippobosca camelina).

Journal: BMC genomics

Authors' code: fredrickkebaso/Hippobosca-camelina-Genome-and-Chemosensory-genes (no license)

Status: code verified, 49 files readable, 5 matches

[14974] doi:10.1186/s12974-025-03504-5 [paper, data]

Rod-shaped microglia represent a morphologically distinct subpopulation of disease-associated microglia.

Journal: Journal of neuroinflammation

Status: data only, 5 datasets cited

[14975] doi:10.1186/s44477-025-00002-z [paper, repository]

Uncovering plaque-glia niches in human Alzheimer's disease brains using spatial transcriptomics.

Journal: Molecular neurodegeneration advances

Authors' code: theislab/scib-pipeline (MIT)

Status: code verified, 29 files readable, 3 matches

[14976] doi:10.1192/j.eurpsy.2025.10060 [paper]

Human development, inequality, and their associations with brain structure across 29 countries.

Journal: European psychiatry : the journal of the Association of European Psychiatrists

Status: code on request

[14977] doi:10.1371/journal.pone.0320572 [paper, data]

Mechanistic insights into the anti-aging effects of Crocus sativus in a D-Gal-induced in vitro neural senescence model.

Journal: PloS one

Status: data only, 1 dataset cited

[14978] doi:10.3389/fmed.2025.1589587 [paper, data]

Advancing patient care with AI: a unified framework for medical image segmentation using transfer learning and hybrid feature extraction.

Journal: Frontiers in medicine

Status: data only, 3 datasets cited

[14979] doi:10.3389/fmed.2025.1621441 [paper, repository]

The impact of autoimmune diseases on delirium risk in critically ill patients: a propensity score matching multicenter analysis.

Journal: Frontiers in medicine

Authors' code: MIT-LCP/eicu-code (MIT)

Status: code verified, 33 files readable

[14980] doi:10.3389/fnhum.2025.1633910 [paper, data]

Classification of finger movements through optimal EEG channel and feature selection.

Journal: Frontiers in human neuroscience

Status: data only, 1 dataset cited

[14981] doi:10.3389/fninf.2025.1608900 [paper, data]

Breaking barriers: broadening neuroscience education via cloud platforms and course-based undergraduate research.

Journal: Frontiers in neuroinformatics

Status: data only, 3 datasets cited

[14982] doi:10.3389/fpsyt.2025.1600973 [paper, repository]

Baseline-dependent network reactivity to visual input in children with autism spectrum disorder: a magnetoencephalography study.

Journal: Frontiers in psychiatry

Authors' code: jblocher/matlab-network-utilities (no license)

Status: code verified, 388 files readable, 2 matches

[14983] doi:10.3390/ani15142107 [paper, repository]

RNA-Seq Revealed the Effects of Cold Stress on Different Brain Regions of &lt;i&gt;Leiocassis longirostris&lt;/i&gt;.

Journal: Animals : an open access journal from MDPI

Authors' code: DaehwanKimLab/hisat2 (GPL-3.0)

Status: code verified, 252 files readable, 1 match

[14984] doi:10.3390/biomimetics10070468 [paper, data]

Task-Related EEG as a Biomarker for Preclinical Alzheimer's Disease: An Explainable Deep Learning Approach.

Journal: Biomimetics (Basel, Switzerland)

Status: data only, 1 dataset cited

[14985] doi:10.3390/brainsci15070754 [paper, data]

Neuromodulation Interventions for Language Deficits in Alzheimer's Disease: Update on Current Practice and Future Developments.

Journal: Brain sciences

Status: data only, 1 dataset cited

[14986] doi:10.3390/diagnostics15141794 [paper, data]

Automated Analysis of Vertebral Body Surface Roughness for Adult Age Estimation: Ellipse Fitting and Machine-Learning Approach.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 1 dataset cited

[14987] doi:10.3390/v17071001 [paper, data]

A More Rapid Method for Culturing LUHMES-Derived Neurons Provides Greater Cell Numbers and Facilitates Studies of Multiple Viruses.

Journal: Viruses

Status: data only, 1 dataset cited

[14988] doi:10.7554/elife.98002 [paper, repository]

Single neurons and networks in the mouse claustrum integrate input from widespread cortical sources.

Journal: eLife

Authors' code: pycontrol/hardware (no license), AMShelton/claustrum-integration (MIT)

Status: code verified, 9 files readable

Tuesday, 15 July 2025 (49 papers, 20 on this page)

[14989] doi:10.1007/s10585-025-10362-1 [paper, data]

Loss of IL13RA2 promotes metastatic tumor growth in triple-negative breast cancer via increased AKT and NF-κB signaling.

Journal: Clinical & experimental metastasis

Status: data only, 1 dataset cited

[14990] doi:10.1007/s12672-025-03091-0 [paper, data]

In silico analysis of the oncogenic role of myoferlin (MYOF) and suggestion of folate as a potential therapeutic for brain cancer in the Caucasian population.

Journal: Discover oncology

Status: data only, 1 dataset cited

[14991] doi:10.1016/j.aca.2025.344423 [paper, repository]

Aminated cinnamic acid analogs as dual polarity matrices for high spatial resolution MALDI imaging mass spectrometry.

Journal: Analytica chimica acta

Authors' code: lukasz-migas/msalign (Apache-2.0)

Status: code verified, 13 files readable

[14992] doi:10.1016/j.celrep.2025.115979 [paper]

Mex3a-dependent post-transcriptional silencing ensures olfactory receptor diversity and axon guidance specificity.

Journal: Cell reports

Status: code on request

[14993] doi:10.1016/j.isci.2025.113109 [paper, data]

Neural markers of social dominance: A female-focused perspective.

Journal: iScience

Status: code on request, 1 dataset cited

[14994] doi:10.1016/j.tranon.2025.102468 [paper, repository]

In-depth patient-specific analysis of tumor heterogeneity in melanoma brain metastasis: Insights from spatial transcriptomics and multi-region bulk sequencing.

Journal: Translational oncology

Authors' code: jana-rajova/Mmint (no license)

Status: code verified, 8 files readable, 8 matches

[14995] doi:10.1016/j.xpro.2025.103846 [paper, data]

Protocol for performing and analyzing a live-cell imaging-based microglia phagocytosis assay using AI on the Olympus ScanR system.

Journal: STAR protocols

Status: data only, 2 datasets cited

[14996] doi:10.1038/s41419-025-07829-0 [paper, data]

Simvastatin suppresses spinal cord metastasis of medulloblastoma at clinically significant doses.

Journal: Cell death & disease

Status: data only, 1 dataset cited

[14997] doi:10.1038/s41467-025-61395-9 [paper, repository]

Double dissociation of dynamic and static face perception provides causal evidence for a third visual pathway.

Journal: Nature communications

Authors' code: OSF ez9dp (no license), Zenodo 15280654 (CC-BY-4.0), cogneuro-rgb/svrlsmpy (no license)

Status: code verified, 40 files readable, 6 matches

[14998] doi:10.1038/s41467-025-61470-1 [paper, repository]

Human spinal cord activation during filling and emptying of the bladder.

Journal: Nature communications

Authors' code: figshare 29198729 (CC-BY-4.0)

Status: code verified, 6 files readable, 2 matches

[14999] doi:10.1038/s41467-025-61794-y [paper, repository]

Artificial-intelligence-guided design of ordered gas diffusion layers for high-performing fuel cells via Bayesian machine learning.

Journal: Nature communications

Authors' code: Zenodo 15622653 (MIT), pengzhulin/ai_guided_gdl_pemfc (no license)

Status: code verified, 4 files readable, 2 matches

[15000] doi:10.1038/s41591-025-03835-z [paper, repository]

APOE ε4 carriers share immune-related proteomic changes across neurodegenerative diseases.

Journal: Nature medicine

Authors' code: Art83/gnpc_apoe (no license)

Status: dead link

[15001] doi:10.1038/s41597-025-05527-2 [paper, repository]

24-hour simultaneous mPFC's miniature 2-photon imaging, EEG-EMG, and video recording during natural behaviors.

Journal: Scientific data

Authors' code: doi:10.12751/g-node.1762hn (no license)

Status: code verified

[15002] doi:10.1038/s41597-025-05580-x [paper, repository]

SeizeIT2: Wearable Dataset Of Patients With Focal Epilepsy.

Journal: Scientific data

Authors' code: biomedepi/seizeit2 (no license)

Status: code verified, 16 files readable, 5 matches

[15003] doi:10.1038/s41598-025-10382-7 [paper, repository]

An in vitro neurobacterial interface reveals direct modulation of neuronal function by gut bacteria.

Journal: Scientific reports

Authors' code: Zenodo 14264792 (CC-BY-4.0)

Status: code verified, 7 files readable, 13 matches

[15004] doi:10.1038/s41598-025-11065-z [paper, data]

Retained introns in phototransduction genes of 5xFAD mouse retina suggest vision impairment as an early diagnostic marker for Alzheimer's disease.

Journal: Scientific reports

Status: data only, 1 dataset cited

[15005] doi:10.1038/s41598-025-11197-2 [paper, repository]

Combined effects of moderate normobaric hypoxia and sleep restriction on visual and auditory integration.

Journal: Scientific reports

Authors' code: bhsai.org/downloads/pc-pvt (no license)

Status: code verified

[15006] doi:10.1038/s41598-025-11283-5 [paper]

Research on multi-branch residual connection spectrum image classification based on attention mechanism.

Journal: Scientific reports

Status: code on request

[15007] doi:10.1038/s42003-025-08385-1 [paper, data]

Deciphering the role of CAPZA2 in neurodevelopmental disorders: insights from mouse models.

Journal: Communications biology

Status: data only, 1 dataset cited

[15008] doi:10.1038/s44318-025-00509-x [paper, repository]

Proteomic aging signatures across mouse organs and life stages.

Journal: The EMBO journal

Authors' code: ehningerd/Scifo-Morsy-Liu_et_al-mouse_aging_proteome (no license)

Status: code verified, 6 files readable, 4 matches

Also: by category, author, journal, institution, tool or dataset; the search; the DOI lookup for any paper read, with or without a page.