Every paper, by date: page 93

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 93 of 200: 24 January 2025 to 17 January 2025.

Friday, 24 January 2025 (39 papers, 23 on this page)

[20609] doi:10.1117/1.nph.12.1.015003 [paper]

Portable six-channel laser speckle system for simultaneous measurement of cerebral blood flow and volume with potential applications in characterization of brain injury.

Journal: Neurophotonics

Status: code on request

[20610] doi:10.1126/sciadv.adq4731 [paper, repository]

An ancient apical patterning system sets the position of the forebrain in chordates.

Journal: Science advances

Authors' code: wagnerde/STITCH (BSD-2-Clause), Zenodo 14515285 (CC-BY-4.0), eBGLab/AmphiApicalOrgan (no license)

Status: code verified, 151 files readable, 13 matches

[20611] doi:10.1126/sciadv.adq5360 [paper, repository]

The X chromosome's influences on the human brain.

Journal: Science advances

Authors' code: Zenodo 12676622 (CC-BY-4.0), bulik/ldsc (GPL-3.0)

Status: code verified, 28 files readable

[20612] doi:10.1162/imag_a_00442 [paper, repository]

Dynamical models reveal anatomically reliable attractor landscapes embedded in resting-state brain networks.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: rq-Chen/Singh2020PreProc (MIT), rq-Chen/MINDy_rfMRI_stable (MIT), singhmf/mindy (no license)

Status: code verified, 325 files readable, 8 matches

[20613] doi:10.1162/imag_a_00452 [paper, repository]

Functional magnetic resonance spectroscopy of prolonged motor activation using conventional and spectral GLM analyses.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: martin3141/fmrs_motor_paper (no license)

Status: code verified, 13 files readable, 4 matches

[20614] doi:10.1162/imag_a_00454 [paper, repository]

Reliability of triggering the stop process is related to prefrontal-subthalamic hyperdirect pathway recruitment.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF 6rk3j (no license), OSF 5yeh4 (no license)

Status: code verified, 3 files readable

[20615] doi:10.1162/imag_a_00457 [paper, repository]

Neural signatures of online and offline motor learning: An ALE meta-analysis.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: neurostuff/NiMARE (MIT), neurosynth/neurosynth (MIT)

Status: code verified, 223 files readable, 3 matches

[20616] doi:10.1162/imag_a_00459 [paper, repository]

Hierarchical surprise signals in naturalistic violation of expectations.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF kn2af (no license)

Status: code verified, 40 files readable, 14 matches

[20617] doi:10.1186/s12864-025-11256-y [paper, data]

Integrated analysis of chromatin and transcriptomic profiling of the striatum after cerebral hypoperfusion in mice.

Journal: BMC genomics

Status: data only, 1 dataset cited

[20618] doi:10.1186/s12868-025-00930-2 [paper, data]

Effects of subclinical hypothyroidism during pregnancy on mtDNA methylation in the brain of rat offspring.

Journal: BMC neuroscience

Status: data only, 2 datasets cited

[20619] doi:10.1186/s13041-025-01177-y [paper, data]

Surgery impairs glymphatic activity and cognitive function in aged mice.

Journal: Molecular brain

Status: data only, 1 dataset cited

[20620] doi:10.1371/journal.pbio.3002722 [paper, data]

Ventral hippocampus to nucleus accumbens shell circuit regulates approach decisions during motivational conflict.

Journal: PLoS biology

Status: data only, 1 dataset cited

[20621] doi:10.1371/journal.pone.0309550 [paper, repository]

Time series segmentation for recognition of epileptiform patterns recorded via microelectrode arrays in vitro.

Journal: PloS one

Authors' code: Zenodo 10154332 (CC-BY-4.0)

Status: code verified

[20622] doi:10.1371/journal.pone.0316672 [paper, repository]

Evidence of a persistent altered neural state in people with fibromyalgia syndrome during functional MRI studies and its relationship with pain and anxiety.

Journal: PloS one

Authors' code: stromanp/pantheon-fMRI (no license)

Status: code verified, 32 files readable, 4 matches

[20623] doi:10.1371/journal.pone.0317924 [paper, repository]

Modelling sensory attenuation as Bayesian causal inference across two datasets.

Journal: PloS one

Authors' code: gitlab.uni-marburg.de/fb04/ag-endres/tam-suppression (no license)

Status: code verified, 138 files readable, 14 matches

[20624] doi:10.3389/fneur.2025.1507846 [paper, repository]

Selective correlation of hippocampal volumes with WADA memory scores in mesial temporal sclerosis patients.

Journal: Frontiers in neurology

Authors' code: garciadias/Neuroharmony (other)

Status: code verified, 38 files readable

[20625] doi:10.3390/antib14010008 [paper, data]

In Vitro Functional Validation of an Anti-FREM2 Nanobody for Glioblastoma Cell Targeting.

Journal: Antibodies (Basel, Switzerland)

Status: data only, 1 dataset cited

[20626] doi:10.3390/bioengineering12020109 [paper, data]

Predicting Epileptic Seizures Using EfficientNet-B0 and SVMs: A Deep Learning Methodology for EEG Analysis.

Journal: Bioengineering (Basel, Switzerland)

Status: data only, 1 dataset cited

[20627] doi:10.3390/brainsci15020110 [paper, data]

A Scoping Review of Corticosterone-Induced Changes in Ionotropic Glutamate Receptor Levels and Localization in the Rodent Brain: Implications for the Auditory System.

Journal: Brain sciences

Status: data only, 1 dataset cited

[20628] doi:10.3390/jimaging11020031 [paper, data]

Design of an Optimal Convolutional Neural Network Architecture for MRI Brain Tumor Classification by Exploiting Particle Swarm Optimization.

Journal: Journal of imaging

Status: data only, 5 datasets cited

[20629] doi:10.3791/67112 [paper, repository]

Profiling Maternal Behavior Responses During Whole-Brain Imaging.

Journal: Journal of visualized experiments : JoVE

Authors' code: supp:PMC12007891/NIHMS2054537-supplement-Script_2.m (no license), supp:PMC12007891/NIHMS2054537-supplement-Script_3.m (no license), supp:PMC12007891/NIHMS2054537-supplement-Script_4.m (no license), supp:PMC12007891/NIHMS2054537-supplement-Script_5.m (no license)

Status: code verified, 4 files readable, 1 match

[20630] doi:10.7554/elife.100664 [paper, repository]

Discriminating neural ensemble patterns through dendritic computations in randomly connected feedforward networks.

Journal: eLife

Authors' code: modeldb:140828 (no license), BhallaLab/synaptic-convergence-paper (GPL-3.0), modeldb:227318 (no license)

Status: code verified, 116 files readable, 22 matches

[20631] doi:10.7554/elife.98405 [paper, repository]

A split-GAL4 driver line resource for <i>Drosophila</i> neuron types.

Journal: eLife

Authors' code: data.janelia.org/pipeline (no license), Zenodo 14609841 (CC-BY-4.0), janeliascicomp/workstation (BSD-3-Clause)

Status: code verified, 3,284 files readable

Thursday, 23 January 2025 (35 papers)

[20632] doi:10.1002/advs.202411041 [paper]

Organizational Principles of the Primate Cerebral Cortex at the Single-Cell Level.

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

Status: code on request

[20633] doi:10.1002/path.6390 [paper, repository]

SMARCB1-deficient malignant melanocytic uveal tumours: a new neural crest-derived tumour entity with SMARCB1-related germline predisposition.

Journal: The Journal of pathology

Authors' code: Zenodo 7443721 (CC-BY-4.0), InstituteCurieClinicalBioinformatics/NanoCliD (CECILL-2.1), bioinfo-pf-curie/rna-seq (CECILL-2.1)

Status: code verified, 46 files readable, 2 matches

[20634] doi:10.1016/j.celrep.2025.115232 [paper, repository]

Benefits of spaced learning are predicted by the re-encoding of past experience in ventromedial prefrontal cortex.

Journal: Cell reports

Authors' code: Zenodo 14589922 (BSD-3-Clause), futingzou/nsdspacing (BSD-3-Clause)

Status: code verified, 4 files readable

[20635] doi:10.1016/j.heliyon.2025.e42079 [paper, repository]

Insufficient gene expression and lost gene regulatory network may underlie the mechanism of Hirschsprung Disease in 5p-syndrome.

Journal: Heliyon

Authors' code: trumanLuan/5pminus (no license)

Status: code verified, 7 files readable, 9 matches

[20636] doi:10.1016/j.isci.2025.111835 [paper, repository]

Pangenome reconstruction in rats enhances genotype-phenotype mapping and variant discovery.

Journal: iScience

Authors' code: Flavia95/HXB_rat_pangenome_manuscript (MIT), 10XGenomics/longranger (MIT), waveygang/wfmash (MIT)

Status: code verified, 471 files readable, 3 matches

[20637] doi:10.1021/acs.jmedchem.4c02715 [paper, data]

Design of (<i>R</i>)-3-(5-Thienyl)carboxamido-2-aminopropanoic Acid Derivatives as Novel NMDA Receptor Glycine Site Agonists: Variation in Molecular Geometry to Improve Potency and Augment GluN2 Subunit-Specific Activity.

Journal: Journal of medicinal chemistry

Status: data only, 4 datasets cited

[20638] doi:10.1038/s41467-025-55945-4 [paper, data]

Development and preclinical testing of a naloxone prodrug depot for extended protection against opioid overdose.

Journal: Nature communications

Status: data only, 3 datasets cited

[20639] doi:10.1038/s41598-025-86645-0 [paper, repository]

A de novo, mosaic and complex chromosome 21 rearrangement causes APP triplication and familial autosomal dominant early onset Alzheimer disease.

Journal: Scientific reports

Authors' code: Clinical-Genomics/MIP (MIT), Clinical-Genomics/scout (BSD-3-Clause)

Status: code verified, 650 files readable

[20640] doi:10.1038/s41598-025-87493-8 [paper, data]

Associations of inferior frontal sulcal hyperintensities on brain MRI with cerebral small vessel disease, cognitive function, and depression symptoms.

Journal: Scientific reports

Status: data only, 2 datasets cited

[20641] doi:10.1038/s44319-025-00367-y [paper, data]

Natural variations of adolescent neurogenesis and anxiety predict the hierarchical status of adult inbred mice.

Journal: EMBO reports

Status: data only, 1 dataset cited

[20642] doi:10.1073/pnas.2412830122 [paper, repository]

The functional role of oscillatory dynamics in neocortical circuits: A computational perspective.

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

Authors' code: exilef/horn (CC-BY-NC-ND-4.0)

Status: code verified, 5 files readable, 4 matches

[20643] doi:10.1073/pnas.2417346122 [paper, data]

ANKRD11 binding to cohesin suggests a connection between KBG syndrome and Cornelia de Lange syndrome.

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

Status: data only, 3 datasets cited

[20644] doi:10.1093/braincomms/fcaf003 [paper, data]

The challenge of long-term stroke outcome prediction and how statistical correlates do not imply predictive value.

Journal: Brain communications

Status: data only, 1 dataset cited

[20645] doi:10.1093/braincomms/fcaf030 [paper, repository]

Causal relationships between hippocampal volumetric traits and the risk of Alzheimer's disease: a Mendelian randomization study.

Journal: Brain communications

Authors' code: bulik/ldsc (GPL-3.0), LiningGuo/Mendelian-randomization (no license)

Status: code verified, 33 files readable, 4 matches

[20646] doi:10.1093/braincomms/fcaf031 [paper, repository]

CSF biomarkers are differentially linked to brain areas high and low in noradrenaline, dopamine and serotonin across the Alzheimer's disease spectrum.

Journal: Brain communications

Authors' code: lehaag/na-sem-model (no license)

Status: empty repository

[20647] doi:10.1093/noajnl/vdaf016 [paper, repository]

Inferred developmental origins of brain tumors from single-cell RNA-sequencing data.

Journal: Neuro-oncology advances

Authors' code: Su-Wang-UTH/COORS (no license)

Status: code verified, 4 files readable, 9 matches

[20648] doi:10.1093/pnasnexus/pgaf019 [paper, repository]

Perceived self and social relevance of content motivates news sharing across cultures and topics.

Journal: PNAS nexus

Authors' code: cnlab/sharing-motivation (no license)

Status: code verified, 18 files readable, 3 matches

[20649] doi:10.1117/1.bios.2.1.015001 [paper, data]

Hybrid diffuse optical appraisal of peripheral and cerebral changes in critically ill patients receiving red blood cell transfusion.

Journal: Biophotonics discovery

Status: data only, 1 dataset cited

[20650] doi:10.1117/1.nph.12.1.015002 [paper, repository]

Multisensory naturalistic decoding with high-density diffuse optical tomography.

Journal: Neurophotonics

Authors' code: nitrc.org/projects/neurodot (no license)

Status: code verified

[20651] doi:10.1162/imag_a_00443 [paper, repository]

Temporal variability of brain-behavior relationships in fine-scale dynamics of edge time series.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: brainnetworkslab.com/coderesources (no license), sites.google.com/site/bctnet (no license), sarahacutts/temporal-behavior-optimization (no license)

Status: code verified, 6 files readable, 2 matches

[20652] doi:10.1162/imag_a_00448 [paper, repository]

Structure-function coupling and decoupling during movie watching and resting state: Novel insights bridging EEG and structural imaging.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: venkateshness/SDI_EEG (CC-BY-4.0)

Status: code verified, 19 files readable, 11 matches

[20653] doi:10.1162/imag_a_00451 [paper, repository]

Inhibition of thalamic relay nuclei scales the aperiodic and alpha band oscillations associated with arousal during naturalistic stimulus viewing.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: cbdl/corticothalamicmodelofemotion (no license)

Status: code verified, 6 files readable

[20654] doi:10.1162/imag_a_00455 [paper]

Towards personalized mapping through lumbosacral spinal cord task fMRI.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

[20655] doi:10.1177/0271678x251314682 [paper, repository]

Correlation of zero echo time functional MRI with neuronal activity in rats.

Journal: Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism

Authors' code: snakemake.readthedocs.io (no license)

Status: code verified

[20656] doi:10.1186/s13041-025-01175-0 [paper, data]

Sleep-driven prefrontal cortex coordinates temporal action and multimodal integration.

Journal: Molecular brain

Status: data only, 2 datasets cited

[20657] doi:10.1186/s13287-024-04121-4 [paper, data]

Magnesium ions regulate the Warburg effect to promote the differentiation of enteric neural crest cells into neurons.

Journal: Stem cell research & therapy

Status: data only, 2 datasets cited

[20658] doi:10.1371/journal.pbio.3002972 [paper, data]

Neurofeedback and attention modulate somatosensory alpha oscillations but not pain perception.

Journal: PLoS biology

Status: data only, 1 dataset cited

[20659] doi:10.1371/journal.pbio.3002978 [paper, repository]

Basal ganglia components have distinct computational roles in decision-making dynamics under conflict and uncertainty.

Journal: PLoS biology

Authors' code: OSF k38pj (no license)

Status: code verified, 8 files readable, 7 matches

[20660] doi:10.1371/journal.pbio.3002987 [paper, repository]

Cost-benefit tradeoff mediates the transition from rule-based to memory-based processing during practice.

Journal: PLoS biology

Authors' code: Zenodo 14397947 (CC-BY-4.0), guochun-yang/transition-from-rule-to-memory-strategy-with-practice (no license)

Status: code verified, 32 files readable

[20661] doi:10.1371/journal.pone.0317710 [paper, data]

Construction of an lncRNA-mediated ceRNA network to investigate the inflammatory regulatory mechanisms of ischemic stroke.

Journal: PloS one

Status: data only, 1 dataset cited

[20662] doi:10.3389/fnbeh.2024.1464888 [paper, repository]

Identifying P100 and N170 as electrophysiological markers for conscious and unconscious processing of emotional facial expressions.

Journal: Frontiers in behavioral neuroscience

Authors' code: LennardHerzberg/MarkersUnconsciousProcessing (CC0-1.0)

Status: code verified, 26 files readable, 5 matches

[20663] doi:10.3390/brainsci15020109 [paper]

Neural Activity for Uninvolved Knee Motor Control After ACL Reconstruction Differs from Healthy Controls.

Journal: Brain sciences

Status: code on request

[20664] doi:10.3390/cancers17030375 [paper, data]

Multikinase Treatment of Glioblastoma: Evaluating the Rationale for Regorafenib.

Journal: Cancers

Status: data only, 3 datasets cited

[20665] doi:10.3390/ijms26030950 [paper, repository]

Exploration of Appetite Regulation in Yangtze Sturgeon (<i>Acipenser dabryanus</i>) During Weaning.

Journal: International journal of molecular sciences

Authors' code: najoshi/sickle (MIT)

Status: code verified, 10 files readable

[20666] doi:10.3758/s13414-024-03002-5 [paper, data]

Fixation-related potentials during a virtual navigation task: The influence of image statistics on early cortical processing.

Journal: Attention, perception & psychophysics

Status: data only, 1 dataset cited

Wednesday, 22 January 2025 (54 papers)

[20667] doi:10.1002/advs.202409986 [paper, data]

miR-32533 Reduces Cognitive Impairment and Amyloid-β Overload by Targeting CREB5-Mediated Signaling Pathways in Alzheimer's Disease.

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

Status: data only, 1 dataset cited

[20668] doi:10.1016/j.celrep.2024.115131 [paper, repository]

Distinct changes to hippocampal and medial entorhinal circuits emerge across the progression of cognitive deficits in epilepsy.

Journal: Cell reports

Authors' code: Zenodo 14341007 (GPL-3.0), ZachPenn/CellCounting (no license), shumanlab/feng_cellreports (GPL-3.0)

Status: code verified, 1,008 files readable, 4 matches

[20669] doi:10.1016/j.celrep.2024.115209 [paper, repository]

Multi-level encoding of reward, effort, and choice across the frontal cortex and basal ganglia during cost-benefit decision-making.

Journal: Cell reports

Authors' code: cortex-lab/phy (BSD-3-Clause), jamesjun/Kilosort2 (GPL-2.0), data.mrc.ox.ac.uk (no license)

Status: code verified, 262 files readable, 1 match

[20670] doi:10.1016/j.celrep.2025.115230 [paper, repository]

A cortico-subcortical loop for motor control via the pontine reticular formation.

Journal: Cell reports

Authors' code: Zenodo 14500202 (CC-BY-4.0), viktorpm/glyci_analysis (CC-BY-4.0), joseaccruz/SimpleMouseTracker (no license)

Status: code verified, 70 files readable, 6 matches

[20671] doi:10.1016/j.heliyon.2025.e42196 [paper, data]

High-fat diet triggers transcriptomic changes in the olfactory bulb.

Journal: Heliyon

Status: data only, 1 dataset cited

[20672] doi:10.1016/j.isci.2025.111868 [paper]

Role of androgen receptors in sexually dimorphic phenotypes in UBE3A-dependent autism spectrum disorder.

Journal: iScience

Status: code on request

[20673] doi:10.1016/j.isci.2025.111870 [paper, repository]

The technical-reasoning network is recruited when people observe others make or teach how to make tools: An fMRI study.

Journal: iScience

Authors' code: OSF 6rsqf (no license)

Status: code verified, 2 files readable

[20674] doi:10.1016/j.isci.2025.111874 [paper, repository]

The bacterial microbiome modulates the initiation of brain metastasis by impacting the gut-to-brain axis.

Journal: iScience

Authors' code: benjjneb/dada2 (LGPL-3.0)

Status: code verified, 34 files readable, 1 match

[20675] doi:10.1016/j.omtm.2025.101415 [paper]

Human striatal progenitor cells that contain inducible safeguards and overexpress BDNF rescue Huntington's disease phenotypes.

Journal: Molecular therapy. Methods & clinical development

Status: code on request

[20676] doi:10.1016/j.xpro.2024.103582 [paper, repository]

Protocol for correlating the gut microbiome and metabolomics in patients with intracranial aneurysms.

Journal: STAR protocols

Authors' code: picrust/picrust2 (GPL-3.0), knights-lab/BugBase (no license)

Status: code verified, 58 files readable, 1 match

[20677] doi:10.1016/j.zemedi.2024.12.004 [paper, repository]

A noise-robust post-processing pipeline for accelerated phase-cycled ²³Na Multi-Quantum Coherences MRI.

Journal: Zeitschrift fur medizinische Physik

Authors' code: Computer-Assisted-Clinical-Medicine/23Na-MQC-MRI (no license)

Status: code verified, 19 files readable, 4 matches

[20678] doi:10.1021/acschemneuro.4c00801 [paper, data]

Serotonergic Mechanisms in Proteinoid-Based Protocells.

Journal: ACS chemical neuroscience

Status: data only, 1 dataset cited

[20679] doi:10.1038/s41398-025-03223-8 [paper, data]

The left amygdala is genetically sexually-dimorphic: multi-omics analysis of structural MRI volumes.

Journal: Translational psychiatry

Status: data only, 1 dataset cited

[20680] doi:10.1038/s41398-025-03231-8 [paper]

Causal associations between iron levels in subcortical brain regions and psychiatric disorders: a Mendelian randomization study.

Journal: Translational psychiatry

Status: code on request

[20681] doi:10.1038/s41398-025-03237-2 [paper, repository]

Neuroimaging stratification reveals the striatal vulnerability to stress as a risk for schizophrenia.

Journal: Translational psychiatry

Authors' code: Fengnanahub/Stratify-UFR-by-PutamenVol (no license)

Status: code verified, 6 files readable, 1 match

[20682] doi:10.1038/s41467-025-56023-5 [paper, repository]

Fast updating feedback from piriform cortex to the olfactory bulb relays multimodal identity and reward contingency signals during rule-reversal.

Journal: Nature communications

Authors' code: TeamAlbeanu/RuleReversalAPCxFeedback (Unlicense), Zenodo 14291006 (Unlicense)

Status: code verified, 32 files readable, 2 matches

[20683] doi:10.1038/s41467-025-56297-9 [paper, repository]

Dendrites endow artificial neural networks with accurate, robust and parameter-efficient learning.

Journal: Nature communications

Authors' code: Poirazi-Lab/dendritic_anns (GPL-3.0), Zenodo 14360989 (GPL-3.0)

Status: code verified, 90 files readable, 15 matches

[20684] doi:10.1038/s41531-025-00870-y [paper, repository]

A network-based systems genetics framework identifies pathobiology and drug repurposing in Parkinson's disease.

Journal: NPJ Parkinson's disease

Authors' code: ChengF-Lab/PDNetworks (no license)

Status: code verified, 16 files readable, 4 matches

[20685] doi:10.1038/s41586-024-08453-2 [paper, repository]

Mapping cells through time and space with moscot.

Journal: Nature

Authors' code: theislab/moscot-framework_reproducibility (no license), ChengxiangQiu/tome_code (no license), raphael-group/paste2 (BSD-3-Clause), theislab/moscot_benchmarks (BSD-3-Clause)

Status: code verified, 99 files readable, 20 matches

[20686] doi:10.1038/s41586-024-08457-y [paper, data]

The maternal X chromosome affects cognition and brain ageing in female mice.

Journal: Nature

Status: data only, 1 dataset cited

[20687] doi:10.1038/s41598-024-84152-2 [paper, repository]

A comparative machine learning study of schizophrenia biomarkers derived from functional connectivity.

Journal: Scientific reports

Authors' code: victoris93/feature-selection-scz (no license)

Status: code verified, 54 files readable, 4 matches

[20688] doi:10.1038/s41598-024-85055-y [paper, repository]

Investigating the intrinsic top-down dynamics of deep generative models.

Journal: Scientific reports

Authors' code: CCNL-UniPD/top-down (no license)

Status: code verified, 13 files readable, 6 matches

[20689] doi:10.1038/s41598-025-86392-2 [paper, data]

Sex-specific effects of prenatal bisphenol A exposure on transcriptome-interactome profiles of autism candidate genes in neural stem cells from offspring hippocampus.

Journal: Scientific reports

Status: data only, 1 dataset cited

[20690] doi:10.1038/s41598-025-86399-9 [paper, data]

Disrupted microsaccade responses in late-life depression.

Journal: Scientific reports

Status: data only, 1 dataset cited

[20691] doi:10.1038/s41598-025-87244-9 [paper, repository]

Investigation of sensory attenuation in the somatosensory domain using EEG in a novel virtual reality paradigm.

Journal: Scientific reports

Authors' code: Neurocomputation-and-Neuroimaging-Unit/SensAtt_Pred (no license)

Status: code verified, 15 files readable, 1 match

[20692] doi:10.1038/s41598-025-87314-y [paper]

Dysregulation of REST and its target genes impacts the fate of neural progenitor cells in down syndrome.

Journal: Scientific reports

Status: data only

[20693] doi:10.1038/s42003-024-07434-5 [paper, repository]

Neural processing of naturalistic audiovisual events in space and time.

Journal: Communications biology

Authors' code: OSF z9qp5 (no license)

Status: empty repository

[20694] doi:10.1038/s44271-025-00184-y [paper, repository]

Self-reports map the landscape of task states derived from brain imaging.

Journal: Communications psychology

Authors' code: Zenodo 14290073 (CC-BY-4.0), Zenodo 14290092 (CC-BY-4.0), Zenodo 14112468 (CC-BY-4.0), thinclabqueens/task-battery (no license), ThinCLabQueens/Shortened-Task-Battery (no license), Zenodo 14262793 (CC-BY-4.0)

Status: code verified, 98 files readable, 26 matches

[20695] doi:10.1073/pnas.2319474122 [paper, data]

Targeting EPHB2/ABL1 restores antitumor immunity in preclinical models of ependymoma.

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

Status: data only, 1 dataset cited

[20696] doi:10.1073/pnas.2408966122 [paper, repository]

Layer-specific control of inhibition by NDNF interneurons.

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

Authors' code: LNaumann/NDNF_control_inhibition_Naumann25 (no license)

Status: code verified, 7 files readable, 7 matches

[20697] doi:10.1089/neur.2024.0122 [paper, repository]

Patterns of Change in Functional Connectivity and Motor Performance Are Different in Youth Recently Recovered from Concussion.

Journal: Neurotrauma reports

Authors' code: KKI-CNIR/CNIR-fmri_preproc_toolbox (no license)

Status: code verified, 18 files readable, 4 matches

[20698] doi:10.1098/rsbl.2024.0596 [paper, repository]

Avian telencephalon and cerebellum volumes can be accurately estimated from digital brain endocasts.

Journal: Biology letters

Authors' code: Zenodo 14590397 (CC-BY-4.0), Zenodo 14590396 (CC-BY-4.0), doi:10.6084/m9.figshare.c.7601386 (no license), akeirnan/avian_endocast_validation (no license)

Status: code verified, 15 files readable, 1 match

[20699] doi:10.1098/rsbl.2024.0618 [paper, repository]

Immune response accelerated telomere shortening during early life stage of a passerine bird, the blue tit (<i>Cyanistes caeruleus</i>).

Journal: Biology letters

Authors' code: doi:10.6084/m9.figshare.c.7618343 (no license)

Status: code found, still to be checked

[20700] doi:10.1098/rspb.2024.2192 [paper, repository]

A hydrodynamic antenna: novel lateral line system in the tail of myliobatid stingrays.

Journal: Proceedings. Biological sciences

Authors' code: doi:10.6084/m9.figshare.c.7620411 (no license)

Status: code found, still to be checked

[20701] doi:10.1117/1.jbo.30.1.016003 [paper]

Wearable optical coherence tomography angiography probe with extended depth of field.

Journal: Journal of biomedical optics

Status: code on request

[20702] doi:10.1126/sciadv.adi4782 [paper, repository]

Distributed representations of temporally accumulated reward prediction errors in the mouse cortex.

Journal: Science advances

Authors' code: HiroshiMakinoLaboratory/RewardPredictionErrorAccumulation (no license)

Status: code verified, 56 files readable, 18 matches

[20703] doi:10.1126/sciadv.adn6377 [paper, repository]

Significance of birth in the maintenance of quiescent neural stem cells.

Journal: Science advances

Authors' code: kharchenkolab/cacoa (no license), Zenodo 12635369 (CC-BY-4.0), khodosevichlab/preterm_birth_2023_code_repo (no license)

Status: code verified, 26 files readable, 4 matches

[20704] doi:10.1177/0271678x241310732 [paper, data]

Chronic hypertension and perfusion deficits conjointly affect disease outcome after tPA treatment in a rodent model of thromboembolic stroke.

Journal: Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism

Status: data only, 1 dataset cited

[20705] doi:10.1186/s12868-025-00927-x [paper, data]

Delta opioid receptors affect acoustic features of song during vocal learning in zebra finches.

Journal: BMC neuroscience

Status: data only, 2 datasets cited

[20706] doi:10.1186/s13024-024-00793-x [paper, data]

APOE Christchurch enhances a disease-associated microglial response to plaque but suppresses response to tau pathology.

Journal: Molecular neurodegeneration

Status: data only, 3 datasets cited

[20707] doi:10.1371/journal.pone.0317218 [paper, data]

Optimal sigmoid function models for analysis of transspinal evoked potential recruitment curves recorded from different muscles.

Journal: PloS one

Status: data only, 1 dataset cited

[20708] doi:10.1371/journal.ppat.1012530 [paper, data]

Spatiotemporal profile of an optimal host response to virus infection in the primate central nervous system.

Journal: PLoS pathogens

Status: data only, 1 dataset cited

[20709] doi:10.1523/jneurosci.0398-24.2024 [paper, repository]

Auditory Rhythm Encoding during the Last Trimester of Human Gestation: From Tracking the Basic Beat to Tracking Hierarchical Nested Temporal Structures.

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

Authors' code: bsaadatmehr/early-rhythm-development (no license)

Status: code verified, 6 files readable, 3 matches

[20710] doi:10.3389/fnbot.2025.1540033 [paper, data]

AMEEGNet: attention-based multiscale EEGNet for effective motor imagery EEG decoding.

Journal: Frontiers in neurorobotics

Status: data only, 1 dataset cited

[20711] doi:10.3389/fneur.2024.1503632 [paper, data]

Identification and verification of autophagy-related gene signatures and their association with immune infiltration and drug responsiveness in epilepsy.

Journal: Frontiers in neurology

Status: data only, 1 dataset cited

[20712] doi:10.3389/fnhum.2025.1515902 [paper, data]

Resting-state BOLD temporal variability of the default mode network predicts spontaneous mind wandering, which is negatively associated with mindfulness skills.

Journal: Frontiers in human neuroscience

Status: data only, 2 datasets cited

[20713] doi:10.3389/fnins.2025.1522227 [paper, repository]

Validation of deep-learning accelerated quantitative susceptibility mapping for deep brain nuclei.

Journal: Frontiers in neuroscience

Authors' code: kschan0214/sepia (MIT)

Status: code verified, 426 files readable, 2 matches

[20714] doi:10.3389/fradi.2025.1492479 [paper, repository]

Comparison of modelled diffusion-derived electrical conductivities found using magnetic resonance imaging.

Journal: Frontiers in radiology

Authors' code: ekaden/smt (BSD-2-Clause)

Status: code verified, 41 files readable

[20715] doi:10.3390/biom15020164 [paper, data]

Intracerebral Hemorrhage-Associated Iron Release Leads to Pericyte-Dependent Cerebral Capillary Function Disruption.

Journal: Biomolecules

Status: data only, 1 dataset cited

[20716] doi:10.3390/diagnostics15030249 [paper, data]

Feasibility Study of Detecting and Segmenting Small Brain Tumors in a Small MRI Dataset with Self-Supervised Learning.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 2 datasets cited

[20717] doi:10.3390/genes16020117 [paper, data]

Ecological Trait Differences Are Associated with Gene Expression in the Primary Visual Cortex of Primates.

Journal: Genes

Status: data only, 1 dataset cited

[20718] doi:10.7554/elife.88652 [paper, repository]

Multi-study fMRI outlooks on subcortical BOLD responses in the stop-signal paradigm.

Journal: eLife

Authors' code: OSF 3h6rc (no license)

Status: code verified, 41 files readable, 8 matches

[20719] doi:10.7554/elife.90841 [paper, repository]

Multisensory integration operates on correlated input from unimodal transient channels.

Journal: eLife

Authors' code: supp:PMC11753778/elife-90841-code1.zip (no license)

Status: empty repository

[20720] doi:10.7554/elife.94902 [paper, repository]

A double dissociation between semantic and spatial cognition in visual to default network pathways.

Journal: eLife

Authors' code: OSF sh79m (no license)

Status: code verified, 8 files readable, 1 match

Tuesday, 21 January 2025 (33 papers)

[20721] doi:10.1007/s00018-024-05553-0 [paper, repository]

BRAT1 - a new therapeutic target for glioblastoma.

Journal: Cellular and molecular life sciences : CMLS

Authors' code: Zenodo 8332647 (CC-BY-4.0)

Status: code verified

[20722] doi:10.1007/s11307-025-01983-9 [paper]

Autoradiography of Intracerebral Tumours in the Chick Embryo Model: A Feasibility Study Using Different PET Tracers.

Journal: Molecular imaging and biology

Status: code on request

[20723] doi:10.1016/j.celrep.2024.115176 [paper, repository]

The microglial response to inhibition of Colony-stimulating-factor-1 receptor by PLX3397 differs by sex in adult mice.

Journal: Cell reports

Authors' code: Zenodo 14252261 (CC-BY-4.0), majewska-lab/le_2024_cellreports (no license)

Status: code verified, 8 files readable, 3 matches

[20724] doi:10.1021/acs.jmedchem.4c02086 [paper, data]

Repurposing Linezolid in Conjunction with Histone Deacetylase Inhibitor Access in the Realm of Glioblastoma Therapies.

Journal: Journal of medicinal chemistry

Status: data only, 1 dataset cited

[20725] doi:10.1038/s41398-025-03247-0 [paper, repository]

Developing multifactorial dementia prediction models using clinical variables from cohorts in the US and Australia.

Journal: Translational psychiatry

Authors' code: Art83 (no license)

Status: code verified

[20726] doi:10.1038/s41421-025-00770-8 [paper, repository]

Droplet-based high-throughput 3D genome structure mapping of single cells with simultaneous transcriptomics.

Journal: Cell discovery

Authors' code: MaoxuWang/dscHiCtools (no license), MaoxuWang/hickit (no license), ma-compbio/higashi (MIT), open2c/coolpuppy (MIT), MaoxuWang/dscHiC_analysis (no license)

Status: code verified, 102 files readable, 16 matches

[20727] doi:10.1038/s41598-025-86374-4 [paper, repository]

Improving ocean reanalyses of observationally sparse regions with transfer learning.

Journal: Scientific reports

Authors' code: slenta/Physics-Informed-CNN-Reconstructions (no license)

Status: code verified, 49 files readable, 3 matches

[20728] doi:10.1038/s42003-024-07443-4 [paper, repository]

Transformation of brain myeloid cell populations by SIV in rhesus macaques revealed by multiomics.

Journal: Communications biology

Authors' code: wangwl/epiVIA (no license), Howard-Fox-Lab/SIVE_Multiomic_analysis (no license)

Status: code verified, 29 files readable, 23 matches

[20729] doi:10.1038/s42003-025-07500-6 [paper]

Neuroeconomically dissociable forms of mental accounting are altered in a mouse model of diabetes.

Journal: Communications biology

Status: code on request

[20730] doi:10.1038/s42003-025-07501-5 [paper, repository]

Uncovering narrative aging: an underlying neural mechanism compensated through spatial constructional ability.

Journal: Communications biology

Authors' code: Rainmon2020/Narrative-Aging2022 (no license)

Status: code verified, 9 files readable

[20731] doi:10.1038/s42003-025-07561-7 [paper, repository]

Distinct neural computations scale the violation of expected reward and emotion in social transgressions.

Journal: Communications biology

Authors' code: Tasia21/Distinct-neural-computations-for-RPE-and-EPE (no license), canlab (no license), cocoanlab/cocoanCORE (GPL-3.0)

Status: code verified, 129 files readable, 2 matches

[20732] doi:10.1073/pnas.2415316122 [paper, repository]

Identification of <i>ARHGEF11</i> (PDZ-RhoGEF) as an in vivo regulator of synapses and cognition.

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

Authors' code: doi:10.5061/dryad.0k6djhb9p (no license)

Status: code verified

[20733] doi:10.1073/pnas.2416886122 [paper, repository]

Nav1.8, an analgesic target for nonpsychotomimetic phytocannabinoids.

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

Authors' code: Zenodo 7411103 (other-open), emrekiziltug3/automatedclampanalysis (no license)

Status: code verified, 2 files readable

[20734] doi:10.1162/imag_a_00441 [paper, repository]

Effective connectivity predicts distributed neural coding of perceptual decision confidence, uncertainty, and speed.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: asadpouretal/DCM-confidence (no license)

Status: code verified, 65 files readable, 11 matches

[20735] doi:10.1162/imag_a_00449 [paper, repository]

Identifying and characterizing scene representations relevant for categorization behavior.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: CSAILVision/places365 (MIT), Singerjohannes/visdecmak (no license)

Status: code verified, 40 files readable, 11 matches

[20736] doi:10.1186/s12859-025-06039-x [paper, repository]

ClearFinder: a Python GUI for annotating cells in cleared mouse brain.

Journal: BMC bioinformatics

Authors' code: stegiopast/ClearFinder (GPL-3.0)

Status: code verified, 21 files readable, 2 matches

[20737] doi:10.1242/bio.061765 [paper, repository]

Cellular signalling protrusions enable dynamic distant contacts in spinal cord neurogenesis.

Journal: Biology open

Authors' code: Papalopulu-Lab/Hawley2024 (no license)

Status: code verified, 43 files readable, 13 matches

[20738] doi:10.1371/journal.pbio.3002962 [paper, repository]

Persistently increased post-stress activity of paraventricular thalamic neurons is essential for the emergence of stress-induced alterations in behaviour.

Journal: PLoS biology

Authors' code: Zenodo 14222815 (CC-BY-4.0), jaszianna/pvt_asd (no license)

Status: code verified, 124 files readable, 4 matches

[20739] doi:10.1371/journal.pcbi.1012101 [paper, repository]

Balancing central control and sensory feedback produces adaptable and robust locomotor patterns in a spiking, neuromechanical model of the salamander spinal cord.

Journal: PLoS computational biology

Authors' code: AlexPazzaglia/SalamandraSNN (MIT)

Status: code verified, 435 files readable, 11 matches

[20740] doi:10.1371/journal.pcbi.1012765 [paper, repository]

Extracting the fingerprints of sequences of random rhythmic auditory stimuli from electrophysiological data.

Journal: PLoS computational biology

Authors' code: fanajman/The-brain-uses-renewal-points-to-model-random-sequences-of-stimuli (no license)

Status: code verified, 23 files readable, 2 matches

[20741] doi:10.21037/qims-24-1269 [paper, repository]

Deep learning for the detection of moyamoya angiopathy using T2-weighted images: a multicenter study.

Journal: Quantitative imaging in medicine and surgery

Authors' code: zhengjunjie1234/MRI_based_MMA_classification (no license)

Status: code verified, 9 files readable, 2 matches

[20742] doi:10.21037/tlcr-24-784 [paper, data]

Single-cell and spatial transcriptomics reveal a potential role of ATF3 in brain metastasis of lung adenocarcinoma.

Journal: Translational lung cancer research

Status: data only, 1 dataset cited

[20743] doi:10.3389/fped.2024.1492062 [paper, data]

Clinical and genetic analysis of epilepsy with myoclonic-atonic seizures caused by SLC6A1 gene variant.

Journal: Frontiers in pediatrics

Status: data only, 1 dataset cited

[20744] doi:10.3390/bioengineering12020095 [paper, data]

TSF-MDD: A Deep Learning Approach for Electroencephalography-Based Diagnosis of Major Depressive Disorder with Temporal-Spatial-Frequency Feature Fusion.

Journal: Bioengineering (Basel, Switzerland)

Status: data only, 1 dataset cited

[20745] doi:10.3390/brainsci15020098 [paper, data]

Generative Diffusion-Based Task Incremental Learning Method for Decoding Motor Imagery EEG.

Journal: Brain sciences

Status: data only, 1 dataset cited

[20746] doi:10.3390/cells14030159 [paper, repository]

Astrocyte-Secreted Lcn2 Modulates Dendritic Spine Morphology.

Journal: Cells

Authors' code: NenckiSpines/SpineMagick (GPL-2.0)

Status: code verified, 9 files readable

[20747] doi:10.3390/data10020011 [paper, repository]

RNA Sequencing Dataset of <i>Drosophila</i> Nociceptor Translatomic Response to Injury.

Journal: Data

Authors' code: gkganter/hale-et-al.-deseq2-code (no license)

Status: code verified, 1 file readable, 1 match

[20748] doi:10.3390/s25030610 [paper, repository]

NeuroFlex: Feasibility of EEG-Based Motor Imagery Control of a Soft Glove for Hand Rehabilitation.

Journal: Sensors (Basel, Switzerland)

Authors' code: SoroushZare/NeuroFlex (no license)

Status: empty repository, 1 file readable

[20749] doi:10.7554/elife.100488 [paper, repository]

Mixed representations of choice direction and outcome by GABA/glutamate cotransmitting neurons in the entopeduncular nucleus.

Journal: eLife

Authors' code: celiaberon/2ABT_behavior_models (no license), mwall2017/sabatini-glm-workflow (no license)

Status: code verified, 33 files readable, 6 matches

[20750] doi:10.7554/elife.100767 [paper, data]

Aberrant FGF signaling promotes granule neuron precursor expansion in SHH subgroup infantile medulloblastoma.

Journal: eLife

Status: data only, 1 dataset cited

[20751] doi:10.7554/elife.94961 [paper, repository]

Effects of noise and metabolic cost on cortical task representations.

Journal: eLife

Authors' code: jakepstroud/optimizing_RNNs_XOR_task (no license)

Status: code verified, 3 files readable, 1 match

[20752] doi:10.7554/elife.99997 [paper, data]

Tripartite organization of brain state dynamics underlying spoken narrative comprehension.

Journal: eLife

Status: data only, 3 datasets cited

[20753] doi:10.7717/peerj-cs.2556 [paper, data]

Hybrid deep learning approach for brain tumor classification using EfficientNetB0 and novel quantum genetic algorithm.

Journal: PeerJ. Computer science

Status: data only, 2 datasets cited

Monday, 20 January 2025 (26 papers)

[20754] doi:10.1016/j.isci.2024.111642 [paper, repository]

Insulin acts on astrocytes to shift their substrate preference to fatty acids.

Journal: iScience

Authors' code: haugheylab.org (no license)

Status: code found, still to be checked

[20755] doi:10.1016/j.isci.2025.111853 [paper, repository]

A human-specific, concerted repression of microcephaly genes contributes to radiation-induced growth defects in cortical organoids.

Journal: iScience

Authors' code: saezlab/collecTRI (GPL-3.0)

Status: code verified, 20 files readable, 1 match

[20756] doi:10.1016/j.isci.2025.111857 [paper]

Long-term consequences of adolescent exposure to the synthetic cannabinoid AB-FUBINACA in male and female mice.

Journal: iScience

Status: code on request

[20757] doi:10.1016/j.neuron.2024.12.023 [paper, repository]

Closed-loop modulation of remote hippocampal representations with neurofeedback.

Journal: Neuron

Authors' code: Zenodo 14522610 (CC-BY-4.0), Zenodo 14399015 (CC-BY-4.0), Zenodo 14399029 (CC-BY-4.0), LorenFrankLab/hippocampus_content_neurofeedback (no license), lorenfranklab/realtime_decoder (no license), michaelcoulter/realtime_decoder_v0 (no license)

Status: code verified, 208 files readable, 1 match

[20758] doi:10.1016/j.tranon.2025.102287 [paper, repository]

Single-cell sequencing revealed the necessity of macrophages in brain microenvironment remodeling by breast cancer metastasis.

Journal: Translational oncology

Authors' code: gitee.com/singleron-rd/celescopesingleron (no license)

Status: dead link

[20759] doi:10.1016/j.xpro.2024.103578 [paper, repository]

Protocol for generating protein profiles and distance-based network analysis of murine tissue slices.

Journal: STAR protocols

Authors' code: ebi.ac.uk/pride/archive (no license), vdemichev/diann-rpackage (CC-BY-4.0)

Status: code verified, 6 files readable

[20760] doi:10.1038/s41377-024-01658-0 [paper, repository]

Enhanced multiscale human brain imaging by semi-supervised digital staining and serial sectioning optical coherence tomography.

Journal: Light, science & applications

Authors' code: bu-cisl/DS-OCT (MIT)

Status: code verified, 40 files readable, 5 matches

[20761] doi:10.1038/s41467-024-55202-0 [paper, repository]

Asymmetric projection of introspection reveals a behavioural and neural mechanism for interindividual social coordination.

Journal: Nature communications

Authors' code: Zenodo 14174382 (CC-BY-4.0)

Status: code verified, 6 files readable

[20762] doi:10.1038/s41591-024-03341-8 [paper, repository]

A high-performance brain-computer interface for finger decoding and quadcopter game control in an individual with paralysis.

Journal: Nature medicine

Authors' code: WillseyBCILab/BCI_Finger_Decoding_Quadcopter (no license)

Status: code verified, 11 files readable, 7 matches

[20763] doi:10.1038/s41593-024-01834-w [paper, repository]

Mapping the cellular etiology of schizophrenia and complex brain phenotypes.

Journal: Nature neuroscience

Authors' code: Integrative-Mental-Health-Lab/linking_cell_types_to_brain_phenotypes (no license)

Status: code verified, 8 files readable

[20764] doi:10.1038/s41598-024-84815-0 [paper, repository]

Efficient recognition of Parkinson's disease mice on stepping characters with CNN.

Journal: Scientific reports

Authors' code: myichang/Mouse-footprint-data (no license)

Status: code verified

[20765] doi:10.1038/s41598-025-85385-5 [paper, repository]

Subliminal visual stimulation produces behavioural oscillations in multiple frequencies in a visual integration task.

Journal: Scientific reports

Authors' code: OSF j8sxp (no license)

Status: code verified, 9 files readable, 4 matches

[20766] doi:10.1038/s41598-025-86316-0 [paper]

Brain gliomas new transcriptomic discoveries from differentially expressed genes to therapeutic targets.

Journal: Scientific reports

Status: data only

[20767] doi:10.1093/braincomms/fcaf018 [paper, repository]

Amyloid-β deposition predicts oscillatory slowing of magnetoencephalography signals and a reduction of functional connectivity over time in cognitively unimpaired adults.

Journal: Brain communications

Authors' code: CornelisStam/BrainWave (no license)

Status: empty repository, 1 file readable

[20768] doi:10.1093/braincomms/fcaf026 [paper]

Multidimensional structural analyses revealed a correlation between thalamic atrophy and white matter degeneration in idiopathic dystonia.

Journal: Brain communications

Status: code on request

[20769] doi:10.1097/tp.0000000000005214 [paper, data]

Inflammatory Gene Expression in Livers Undergoing Ex Situ Normothermic Perfusion Is Attenuated by Leukocyte Removal From the Perfusate.

Journal: Transplantation

Status: data only, 1 dataset cited

[20770] doi:10.1186/s10194-025-01950-3 [paper, repository]

Machine learning-driven identification of critical gene programs and key transcription factors in migraine.

Journal: The journal of headache and pain

Authors' code: Zenodo 13894995 (CC-BY-4.0)

Status: code verified, 3 files readable, 3 matches

[20771] doi:10.1186/s12984-024-01489-5 [paper, data]

Towards personalized immersive virtual reality neurorehabilitation: a human-centered design.

Journal: Journal of neuroengineering and rehabilitation

Status: data only, 1 dataset cited

[20772] doi:10.1186/s13024-025-00800-9 [paper, repository]

Genetic context modulates aging and degeneration in the murine retina.

Journal: Molecular neurodegeneration

Authors' code: churchill-lab/g2gtools (no license)

Status: code verified, 19 files readable

[20773] doi:10.1186/s13073-025-01427-7 [paper, repository]

Nanopore-based random genomic sampling for intraoperative molecular diagnosis.

Journal: Genome medicine

Authors' code: nanoporetech/pod5-file-format (MPL-2.0), nanoporetech/duplex-tools (MPL-2.0), nanoporetech/modkit (GPL-3.0), femiliani/iSCORED (MIT)

Status: code verified, 367 files readable, 4 matches

[20774] doi:10.1186/s40708-024-00248-5 [paper, repository]

CalciumZero: a toolbox for fluorescence calcium imaging on iPSC derived brain organoids.

Journal: Brain informatics

Authors' code: CanYing0913/CalciumZero (no license)

Status: code verified, 21 files readable, 1 match

[20775] doi:10.1242/dev.204357 [paper, data]

Sox10 is required for systemic initiation of bone mineralization.

Journal: Development (Cambridge, England)

Status: data only, 1 dataset cited

[20776] doi:10.3389/fpsyt.2024.1420395 [paper, data]

Phenome-wide association studies between <i>SERINC2</i> and neuropsychiatric disorders.

Journal: Frontiers in psychiatry

Status: data only, 1 dataset cited

[20777] doi:10.3390/e27010096 [paper, repository]

A Resource-Efficient Multi-Entropy Fusion Method and Its Application for EEG-Based Emotion Recognition.

Journal: Entropy (Basel, Switzerland)

Authors' code: zyzc75/BREM-SIMILARITY (no license)

Status: code verified, 14 files readable

[20778] doi:10.7554/elife.96724 [paper, data]

A septo-hypothalamic-medullary circuit directs stress-induced analgesia.

Journal: eLife

Status: data only, 1 dataset cited

[20779] doi:10.7717/peerj-cs.2649 [paper, repository]

Improved BCI calibration in multimodal emotion recognition using heterogeneous adversarial transfer learning.

Journal: PeerJ. Computer science

Authors' code: supp:PMC11784743/peerj-cs-11-2649-s001.zip (no license)

Status: code verified, 21 files readable, 6 matches

Sunday, 19 January 2025 (7 papers)

[20780] doi:10.1002/glia.24674 [paper]

CD11c-Expressing Microglia Are Transient, Driven by Interactions With Apoptotic Cells.

Journal: Glia

Status: data only

[20781] doi:10.1016/j.mtbio.2025.101485 [paper, repository]

Nanosensor-based imaging of realtime dopamine release in neurons derived from iPSCs of patients with Parkinson's disease.

Journal: Materials today. Bio

Authors' code: davidackerman/nnmf (BSD-3-Clause)

Status: code verified, 70 files readable

[20782] doi:10.1016/j.neuroimage.2025.121041 [paper, repository]

The neural activity of auditory conscious perception.

Journal: NeuroImage

Authors' code: BlumenfeldLab/Christisonlagay-et-al_2025 (no license)

Status: code verified, 104 files readable, 12 matches

[20783] doi:10.1021/acsenvironau.4c00059 [paper, repository]

Following the Mixtures of Organic Micropollutants with &lt;i&gt;In Vitro&lt;/i&gt; Bioassays in a Large Lowland River from Source to Sea.

Journal: ACS environmental Au

Authors' code: git.ufz.de/braung/automatedbioassayscreening (no license)

Status: code verified

[20784] doi:10.1038/s41420-025-02295-1 [paper, data]

Age-associated microglial transcriptome leads to diminished immunogenicity and dysregulation of MCT4 and P2RY12/P2RY13 related functions.

Journal: Cell death discovery

Status: data only, 1 dataset cited

[20785] doi:10.3390/brainsci15010092 [paper, data]

Gustatory-Visual Interaction in Human Brain Cortex: fNIRS Study.

Journal: Brain sciences

Status: data only, 1 dataset cited

[20786] doi:10.3390/ijms26020819 [paper, data]

A Study on Potential Sources of Perineuronal Net-Associated Sema3A in Cerebellar Nuclei Reveals Toxicity of Non-Invasive AAV-Mediated Cre Expression in the Central Nervous System.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

Saturday, 18 January 2025 (15 papers)

[20787] doi:10.1007/s10291-024-01808-2 [paper, repository]

Detection of ionospheric disturbances with a sparse GNSS network in simulated near-real time Mw 7.8 and Mw 7.5 Kahramanmaraş earthquake sequence.

Journal: GPS solutions

Authors' code: cddis.nasa.gov/data_and_derived_products/gnss (no license), Zenodo 10895878 (CC-BY-4.0), fionaluhrmann/iono_anomaly_2023 (no license)

Status: code verified, 6 files readable, 2 matches

[20788] doi:10.1016/j.xpro.2024.103587 [paper]

Protocol for the visualization of pRps6-positive cells in larval zebrafish brains using whole-mount immunofluorescence and light-sheet microscopy.

Journal: STAR protocols

Status: code on request

[20789] doi:10.1038/s41467-025-55831-z [paper, repository]

A data-driven latent variable approach to validating the research domain criteria framework.

Journal: Nature communications

Authors' code: murraylab/brainsmash (GPL-3.0), braindynamicslab/rdoc-lfa (GPL-3.0), Zenodo 14340279 (GPL-3.0)

Status: code verified, 28 files readable, 3 matches

[20790] doi:10.1038/s41467-025-55863-5 [paper, repository]

Quantification and prediction of human fetal (-)-Δ⁹-tetrahydrocannabinol/(±)-11-OH-Δ⁹-tetrahydrocannabinol exposure during pregnancy to inform fetal cannabis toxicity.

Journal: Nature communications

Authors' code: Zenodo 14027760 (CC-BY-4.0)

Status: code verified, 9 files readable, 2 matches

[20791] doi:10.1038/s41467-025-56099-z [paper, data]

α-Synuclein fibrils enhance HIV-1 infection of human T cells, macrophages and microglia.

Journal: Nature communications

Status: data only, 1 dataset cited

[20792] doi:10.1038/s41467-025-56125-0 [paper, repository]

Syngap1 promotes cognitive function through regulation of cortical sensorimotor dynamics.

Journal: Nature communications

Authors' code: RumbaughLab/Vaissiere_etal_NatCom_2024 (no license)

Status: code verified, 58 files readable, 4 matches

[20793] doi:10.1038/s41467-025-56129-w [paper, repository]

A high-performance GRAB sensor reveals differences in the dynamics and molecular regulation between neuropeptide and neurotransmitter release.

Journal: Nature communications

Authors' code: Zenodo 14405339 (CC-BY-4.0)

Status: code verified, 1 file readable

[20794] doi:10.1038/s41467-025-56162-9 [paper, repository]

Incremental accumulation of linguistic context in artificial and biological neural networks.

Journal: Nature communications

Authors' code: huggingface.co/togethercomputer/gpt-neoxt-chat-base-20b (apache), RefaelTikochinski/Incremental-Accumulation-of-Linguistic-Context-in-Artificial-and-Biological-Neural-Networks (no license)

Status: code verified, 4 files readable

[20795] doi:10.1038/s41534-025-00960-y [paper]

Noise-agnostic quantum error mitigation with data augmented neural models.

Journal: NPJ quantum information

Status: code on request

[20796] doi:10.1038/s41598-025-86337-9 [paper, repository]

Transcriptomic analysis reinforces the implication of spatacsin in neuroinflammation and neurodevelopment.

Journal: Scientific reports

Authors' code: Daniel2601/TranscriptomicScripts (no license)

Status: code verified, 5 files readable, 1 match

[20797] doi:10.1038/s42003-024-07414-9 [paper, repository]

Longitudinal investigation of neurobiological changes across pregnancy.

Journal: Communications biology

Authors' code: vanderbiltsealab/NCAP (GPL-3.0)

Status: code verified, 9 files readable

[20798] doi:10.1038/s42003-025-07486-1 [paper, repository]

Prefrontal cortex synchronization with the hippocampus and parietal cortex is strategy-dependent during spatial learning.

Journal: Communications biology

Authors' code: figshare 28108070 (CC-BY-4.0)

Status: code verified, 9 files readable, 4 matches

[20799] doi:10.1038/s42003-025-07505-1 [paper, repository]

Cortical areas associated to higher cognition drove primate brain evolution.

Journal: Communications biology

Authors' code: Zenodo 14614902 (CC-BY-4.0)

Status: code verified, 2 files readable, 4 matches

[20800] doi:10.2147/jir.s499343 [paper, data]

Exploring the Kidney-Brain Crosstalk: Biomarkers for Early Detection of Kidney Injury-Related Alzheimer's Disease.

Journal: Journal of inflammation research

Status: data only, 1 dataset cited

[20801] doi:10.3390/neurosci6010008 [paper, repository]

Distinguishing Early from Late Mild Cognitive Impairment Using Magnetic Resonance Free-Water Diffusion Tensor Imaging.

Journal: NeuroSci

Authors' code: Jfortin1/ComBatHarmonization (no license)

Status: code verified, 17 files readable

Friday, 17 January 2025 (41 papers, 31 on this page)

[20802] doi:10.1002/1878-0261.13748 [paper, data]

Consensus molecular subtyping of colorectal carcinoma brain metastases reveals a metabolic signature associated with poor patient survival.

Journal: Molecular oncology

Status: data only, 1 dataset cited

[20803] doi:10.1002/alz.14507 [paper, data]

Plasma proteomic biomarkers as mediators or moderators for the association between poor cardiovascular health and white matter microstructural integrity: The UK Biobank study.

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

Status: data only, 1 dataset cited

[20804] doi:10.1016/j.celrep.2024.115207 [paper, repository]

Situating the salience and parietal memory networks in the context of multiple parallel distributed networks using precision functional mapping.

Journal: Cell reports

Authors' code: Zenodo 14278880 (CC-BY-4.0)

Status: code verified, 1 file readable

[20805] doi:10.1016/j.crmeth.2024.100964 [paper, repository]

Unifying community whole-brain imaging datasets enables robust neuron identification and reveals determinants of neuron position in C. elegans.

Journal: Cell reports methods

Authors' code: yemini-lab/neuropal_id (CC-BY-NC-SA-4.0), focolab/eats-worm (MIT), wormid.org (no license), Zenodo 13910335 (CC-BY-4.0), focolab/ndx-multichannel-volume (BSD-3-Clause), Zenodo 13906028 (CC-BY-NC-4.0), Zenodo 13905893 (CC-BY-NC-4.0), Zenodo 13910463 (CC-BY-4.0), XinweiYu/fDNC_Neuron_ID (no license), amin-nejat/stat-atlas (no license), lu-lab/CRF_Cell-ID (no license), Zenodo 3692138 (Apache-2.0), focolab/NWBelegans (no license), dandi/dandi-cli (Apache-2.0)

Status: code verified, 1,218 files readable, 18 matches

[20806] doi:10.1016/j.isci.2025.111831 [paper, data]

Stimulation of TRPV1+ peripheral somatosensory nerves suppress inflammation via the somato-autonomic reflex.

Journal: iScience

Status: code on request, 1 dataset cited

[20807] doi:10.1016/j.nicl.2025.103733 [paper, repository]

Resting-state functional near-infrared spectroscopy in neurodegenerative diseases - A systematic review.

Journal: NeuroImage. Clinical

Authors' code: OSF 5yfr4 (no license)

Status: code found, still to be checked

[20808] doi:10.1016/j.patter.2024.101149 [paper, repository]

Unraveling the complexity of rat object vision requires a full convolutional network and beyond.

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

Authors' code: Zenodo 13987011 (CC-BY-4.0)

Status: code verified

[20809] doi:10.1016/j.ynstr.2024.100703 [paper, repository]

Shared genetic risk and causal associations between Post-traumatic stress disorder and migraine with antithrombotic agents and other medications.

Journal: Neurobiology of stress

Authors' code: bulik/ldsc (GPL-3.0), lukejoconnor/LCV (no license)

Status: code verified, 39 files readable, 2 matches

[20810] doi:10.1021/acs.jcim.4c01815 [paper, repository]

Permeability Benchmarking: Guidelines for Comparing &lt;i&gt;in Silico&lt;/i&gt;, &lt;i&gt;in Vitro&lt;/i&gt;, and &lt;i&gt;in Vivo&lt;/i&gt; Measurements.

Journal: Journal of chemical information and modeling

Authors' code: chrisjorg/Permeability (no license)

Status: code verified, 3 files readable

[20811] doi:10.1038/s41398-025-03225-6 [paper, repository]

Frequency-specific changes in prefrontal activity associated with maladaptive belief updating in volatile environments in euthymic bipolar disorder.

Journal: Translational psychiatry

Authors' code: fil.ion.ucl.ac.uk/spm (no license)

Status: code verified

[20812] doi:10.1038/s41398-025-03230-9 [paper]

Linking altered neuronal and synaptic properties to nicotinic receptor Alpha5 subunit gene dysfunction: a translational investigation in rat mPFC and human cortical layer 6.

Journal: Translational psychiatry

Status: code on request

[20813] doi:10.1038/s41593-024-01845-7 [paper, repository]

Dynamical constraints on neural population activity.

Journal: Nature neuroscience

Authors' code: BatistaLabCode/DynamicalConstraints (MIT)

Status: code verified, 152 files readable, 10 matches

[20814] doi:10.1038/s41598-024-83338-y [paper, repository]

No significant relationship found between spontaneous motor tempo, heartbeat, and individual alpha frequency: an analysis of internal tempos.

Journal: Scientific reports

Authors' code: OSF xp9hv (no license), OSF evnkf (no license)

Status: code verified, 10 files readable, 7 matches

[20815] doi:10.1038/s41598-024-85032-5 [paper, repository]

Interpretable and integrative deep learning for discovering brain-behaviour associations.

Journal: Scientific reports

Authors' code: Zenodo 10987502 (CC-BY-4.0)

Status: code verified, 50 files readable, 5 matches

[20816] doi:10.1038/s41598-025-85531-z [paper, repository]

Single-cell profiling transcriptomic reveals cellular heterogeneity and cellular crosstalk in breast cancer lymphatic node, bone, and brain metastases.

Journal: Scientific reports

Authors' code: broadinstitute/inferCNV (other)

Status: code verified, 82 files readable, 3 matches

[20817] doi:10.1038/s42003-025-07506-0 [paper, repository]

An atlas of neuropathic pain-associated molecular pathological characteristics in the mouse spinal cord.

Journal: Communications biology

Authors' code: Jianglab1/SC_DRG-bulk_single_spatial (GPL-3.0), Zenodo 14533892 (GPL-3.0)

Status: code verified, 16 files readable, 6 matches

[20818] doi:10.1073/pnas.2409577121 [paper, repository]

Precision data-driven modeling of cortical dynamics reveals person-specific mechanisms underpinning brain electrophysiology.

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

Authors' code: singhmf/MINDy-BPKF (MIT)

Status: code verified, 76 files readable, 1 match

[20819] doi:10.1073/pnas.2417228122 [paper, data]

Stimulating the regenerative capacity of the human retina with proneural transcription factors in 3D cultures.

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

Status: data only, 1 dataset cited

[20820] doi:10.1126/sciadv.adq6663 [paper, repository]

Control of striatal circuit development by the chromatin regulator <i>Zswim6</i>.

Journal: Science advances

Authors' code: shenlab-sinai/chip-seq_preprocess (GPL-2.0), Fuccillo-Lab (no license)

Status: code verified, 18 files readable

[20821] doi:10.1126/sciadv.adr3241 [paper, repository]

Seizure detection via reservoir computing in MoS₂-based charge trap memory devices.

Journal: Science advances

Authors' code: Zenodo 13859574 (CC-BY-4.0)

Status: code verified, 2 files readable, 1 match

[20822] doi:10.1126/sciadv.adr4606 [paper, data]

Genome-wide and phenome-wide studies provided insights into brain glymphatic system function and its clinical associations.

Journal: Science advances

Status: data only, 3 datasets cited

[20823] doi:10.1159/000543215 [paper, data]

Unusual Presentation of a Rare Case of Immunotherapy Combination-Induced Encephalitis: A Case Report.

Journal: Case reports in oncology

Status: data only, 1 dataset cited

[20824] doi:10.1161/strokeaha.124.049079 [paper, data]

Proteins Involved in Endothelial Function and Inflammation Are Implicated in Cerebral Small Vessel Disease.

Journal: Stroke

Status: data only, 1 dataset cited

[20825] doi:10.1162/imag_a_00440 [paper, repository]

Predicting task-related brain activity from resting-state brain dynamics with fMRI Transformer.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: Transconnectome/SwiFUN (Apache-2.0), ShacharGal/connTask (no license)

Status: code verified, 39 files readable, 8 matches

[20826] doi:10.1186/s13046-025-03280-3 [paper, data]

V-ATPase in glioma stem cells: a novel metabolic vulnerability.

Journal: Journal of experimental & clinical cancer research : CR

Status: data only, 1 dataset cited

[20827] doi:10.1212/nxg.0000000000200226 [paper, data]

UK Biobank-A Unique Resource for Discovery and Translation Research on Genetics and Neurologic Disease.

Journal: Neurology. Genetics

Status: data only, 1 dataset cited

[20828] doi:10.1212/nxi.0000000000200359 [paper, data]

Conformational Antibodies to Proteolipid Protein-1 and Its Peripheral Isoform DM20 in Patients With CNS Autoimmune Demyelinating Disorders.

Journal: Neurology(R) neuroimmunology & neuroinflammation

Status: data only, 1 dataset cited

[20829] doi:10.12659/msm.946754 [paper, repository]

Quantifying Gait Asymmetry in Stroke Patients: A Statistical Parametric Mapping (SPM) Approach.

Journal: Medical science monitor : international medical journal of experimental and clinical research

Authors' code: spm1d.org (no license)

Status: code verified

[20830] doi:10.1371/journal.pcbi.1012746 [paper, repository]

Adaptation optimizes sensory encoding for future stimuli.

Journal: PLoS computational biology

Authors' code: cpc-lab-stocker/adapt-discr-efficient-code (no license)

Status: code verified, 17 files readable

[20831] doi:10.1371/journal.pone.0315538 [paper, data]

Convolutional neural network (CNN) configuration using a learning automaton model for neonatal brain image segmentation.

Journal: PloS one

Status: data only, 1 dataset cited

[20832] doi:10.1371/journal.pone.0316545 [paper, repository]

Neural plasticity in early potters: Shape analysis and TMS-EEG co-registration trace the rise of a new motor skill.

Journal: PloS one

Authors' code: Zenodo 14379018 (CC-BY-4.0)

Status: code verified, 2 files readable

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