Every paper, by date: page 73

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 73 of 200: 13 June 2025 to 5 June 2025.

Friday, 13 June 2025 (24 papers)

[16129] doi:10.1016/j.compbiomed.2025.110484 [paper, repository]

Does restrictive anorexia nervosa impact brain aging? A machine learning approach to estimate age based on brain structure.

Journal: Computers in biology and medicine

Authors' code: Yuvi-416/AN-BrainAGE (no license)

Status: code verified, 3 files readable, 3 matches

[16130] doi:10.1016/j.nicl.2025.103826 [paper, repository]

Multivariate neural markers of individual differences in thought control difficulties.

Journal: NeuroImage. Clinical

Authors' code: jakederosa123/individual_differences_thought_control (no license)

Status: code verified, 13 files readable, 6 matches

[16131] doi:10.1038/s41380-025-03075-0 [paper]

Directing negative emotional states through parallel genetically-distinct basolateral amygdala pathways to ventral striatum subregions.

Journal: Molecular psychiatry

Status: code on request

[16132] doi:10.1038/s41398-025-03413-4 [paper, repository]

Multilevel brain functional connectivity and task-based representations explaining heterogeneity in major depressive disorder.

Journal: Translational psychiatry

Authors' code: canlab/Lindquist_Dynamic_Correlation (no license), Jfortin1/ComBatHarmonization (no license), pcntoolkit.readthedocs.io (no license)

Status: code verified, 176 files readable, 1 match

[16133] doi:10.1038/s41531-025-01027-7 [paper, repository]

Repurposing the memory-promoting meclofenoxate hydrochloride as a treatment for Parkinson's disease through integrative multi-omics analysis.

Journal: NPJ Parkinson's disease

Authors' code: fanc232CO/iGOLD_pipline (no license)

Status: code verified, 5 files readable

[16134] doi:10.1038/s41531-025-01028-6 [paper]

Excitation-inhibition balance abnormally shapes structure-function coupling of gray matter in Parkinson's disease.

Journal: NPJ Parkinson's disease

Status: code on request

[16135] doi:10.1038/s41539-025-00318-1 [paper]

A visual generalization gradient of conceptual stimuli based on fear acquisition in visual and auditory modalities.

Journal: NPJ science of learning

Status: code on request

[16136] doi:10.1038/s41556-025-01678-x [paper, repository]

Cell state-specific cytoplasmic density controls spindle architecture and scaling.

Journal: Nature cell biology

Authors' code: OpticalDiffractionTomography (no license), git.embl.de/grp-almf/automictools-zenblue-spindle-kletter (no license), TobiasKletter/Scaling (no license)

Status: code verified, 22 files readable, 6 matches

[16137] doi:10.1093/braincomms/fcaf228 [paper, repository]

Lesion distribution and network mapping in dyskinetic cerebral palsy.

Journal: Brain communications

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

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

[16138] doi:10.1093/nargab/lqaf080 [paper, repository]

Neur-Ally: a deep learning model for regulatory variant prediction based on genomic and epigenomic features in brain and its validation in certain neurological disorders.

Journal: NAR genomics and bioinformatics

Authors' code: anilprakash94/neur_ally (MIT), Zenodo 14875845 (CC-BY-4.0)

Status: code verified, 35 files readable, 9 matches

[16139] doi:10.1111/mec.17831 [paper, repository]

Developmental Behavioural Plasticity and DNA Methylation Patterns in Response to Predation Stress in Trinidadian Guppies.

Journal: Molecular ecology

Authors' code: rcristofari/penguin-tools (no license), doi:10.5061/dryad.dbrv15fch (no license), janayfox/Guppy-Cue-Exposure (no license), Zenodo 14814597 (MIT)

Status: code verified, 78 files readable, 12 matches

[16140] doi:10.1126/sciadv.adr1644 [paper, repository]

Beyond volume: Unraveling the genetics of human brain geometry.

Journal: Science advances

Authors' code: Zenodo 14987679 (CC-BY-NC-SA-4.0), cog-genomics.org/plink (no license), fuma.ctglab.nl (no license), ldlink.nih.gov (no license), Deep-MI/BrainPrint (MIT), precimed/mostest (GPL-3.0), sriramlab/SCORE (no license), FinucaneLab/pops (GPL-3.0)

Status: code verified, 360 files readable, 10 matches

[16141] doi:10.1126/sciadv.adt4771 [paper, repository]

Instant noninvasive near-infrared deep brain stimulation using optoelectronic nanoparticles without genetic modification.

Journal: Science advances

Authors' code: Zenodo 14729162 (CC-BY-4.0)

Status: code verified, 1 file readable, 1 match

[16142] doi:10.1186/s12931-025-03296-5 [paper, data]

Estimating hypoxia-induced brain dysfunction and cognitive decline through exhaled breath monitoring.

Journal: Respiratory research

Status: data only, 1 dataset cited

[16143] doi:10.1289/ehp15574 [paper, repository]

Effects of Bisphenol A and Retinoic Acid Exposure on Neuron and Brain Formation: A Study in Human Induced Pluripotent Stem Cells and Zebrafish Embryos.

Journal: Environmental health perspectives

Authors' code: gpr120/hiPSC-Zebrafish-exprs (no license), gpr120/RA_gradient_model (no license)

Status: code verified, 32 files readable, 7 matches

[16144] doi:10.1371/journal.pcbi.1013148 [paper, repository]

Unveiling the role of local metabolic constraints on the structure and activity of spiking neural networks.

Journal: PLoS computational biology

Authors' code: Wiss/edsnn (no license)

Status: code verified, 18 files readable

[16145] doi:10.1371/journal.pone.0325288 [paper, data]

Adaptive weighted dual MAML: Proposing a novel method for the automated diagnosis of partial sleep deprivation.

Journal: PloS one

Status: data only, 1 dataset cited

[16146] doi:10.3389/fphar.2025.1510250 [paper, data]

The anti-depressive role of the Pei Yuan Kai Yu formula in cerebral small vessel disease based on gut microbiota.

Journal: Frontiers in pharmacology

Status: data only, 1 dataset cited

[16147] doi:10.3390/cancers17121974 [paper, repository]

MRI-Based Radiomics Ensemble Model for Predicting Radiation Necrosis in Brain Metastasis Patients Treated with Stereotactic Radiosurgery and Immunotherapy.

Journal: Cancers

Authors' code: AI4Onc/mri-radiomics-ensemble-rn-bm-prediction (no license)

Status: code verified, 2 files readable

[16148] doi:10.3390/genes16060706 [paper, data]

Expansion of the Genotypic and Phenotypic Spectrum of <i>TCTN3</i>-Related Joubert Syndrome.

Journal: Genes

Status: data only, 1 dataset cited

[16149] doi:10.3390/metabo15060399 [paper, data]

A Systems Hypothesis of Lipopolysaccharide-Induced Vitamin Transport Suppression and Metabolic Reprogramming in Autism Spectrum Disorders: An Open Call for Validation and Therapeutic Translation.

Journal: Metabolites

Status: data only, 1 dataset cited

[16150] doi:10.7554/elife.90387 [paper, repository]

Precise spatial tuning of visually driven alpha oscillations in human visual cortex.

Journal: eLife

Authors' code: KenYMB/ECoG_alphaPRF (no license), WinawerLab/ECoG_utils (no license), BAIRR01/BAIR_stimuli (no license), BAIRR01/vistadisp (no license), irisgroen/temporalECoG (no license)

Status: code verified, 958 files readable, 26 matches

[16151] doi:10.7554/elife.91582 [paper, repository]

Neural substrates of cold nociception in &lt;i&gt;Drosophila&lt;/i&gt; larva.

Journal: eLife

Authors' code: coxlabgsu/campari-intensity-and-cold-plate-assay-analysis (GPL-3.0)

Status: empty repository, 2 files readable

[16152] doi:10.7554/elife.98777 [paper, repository]

A multiplex of connectome trajectories enables several connectivity patterns in parallel.

Journal: eLife

Authors' code: connectlab/Mostame2024_Multiplex_iEEG_fMRI (no license)

Status: code verified, 6 files readable, 1 match

Thursday, 12 June 2025 (26 papers)

[16153] doi:10.1016/j.celrep.2025.115858 [paper, repository]

Decoding gene networks controlling hypothalamic and prethalamic neuron development.

Journal: Cell reports

Authors' code: dkim195/HyDD2 (no license)

Status: code verified, 155 files readable, 40 matches

[16154] doi:10.1038/s41531-025-01037-5 [paper]

Clinical correlates of data-driven subtypes of deep gray matter atrophy and dopamine availability in early Parkinson's disease.

Journal: NPJ Parkinson's disease

Status: code on request

[16155] doi:10.1038/s42003-025-08322-2 [paper, repository]

Evaluating analytic strategies to obtain high-resolution, vertex-level measures of cortical neuroanatomy in children in low- and middle-income countries.

Journal: Communications biology

Authors' code: Zenodo 15496004 (CC-BY-4.0)

Status: code verified

[16156] doi:10.1038/s42003-025-08324-0 [paper, data]

Forward and convergent remapping of receptive fields from local field potentials in frontal eye fields.

Journal: Communications biology

Status: data only, 1 dataset cited

[16157] doi:10.1038/s44321-025-00260-0 [paper, data]

Reelin-LRP8 signaling mediates brain dissemination of breast cancer cells via abluminal migration.

Journal: EMBO molecular medicine

Status: data only, 1 dataset cited

[16158] doi:10.1063/5.0250953 [paper, data]

Modeling nitric oxide diffusion and plasticity modulation in cerebellar learning.

Journal: APL bioengineering

Status: data only, 2 datasets cited

[16159] doi:10.1073/pnas.2414005122 [paper, repository]

Representation of locomotive action affordances in human behavior, brains, and deep neural networks.

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

Authors' code: OSF v3rcq (no license)

Status: empty repository, 1 file readable

[16160] doi:10.1093/braincomms/fcaf232 [paper, repository]

Listener effort measures clinically meaningful change of dysarthria in amyotrophic lateral sclerosis.

Journal: Brain communications

Authors' code: EverythingALS/LEClinicallyMeaningfulDysarthriaALS (no license)

Status: code verified, 6 files readable, 4 matches

[16161] doi:10.1155/ghe3/4427791 [paper]

A Multilevel Analysis of the Association Between Quality of Antenatal Care and Folic Acid Supplementation During Pregnancy Among Guatemalan Women.

Journal: Global health, epidemiology and genomics

Status: code on request

[16162] doi:10.1162/imag.a.32 [paper, repository]

Human gray matter microstructure mapped using neurite exchange imaging (NEXI) on a clinical scanner.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: Mic-map/graymatter_swissknife (Apache-2.0), ejcanalesr/multicomponent-T2-toolbox (no license)

Status: code verified, 100 files readable, 4 matches

[16163] doi:10.1162/nol_a_00166 [paper, repository]

Role for Left Dorsomedial Prefrontal Cortex in Self-Generated, but not Externally Cued, Language Production.

Journal: Neurobiology of language (Cambridge, Mass.)

Authors' code: atdemarco/svrlsmgui (GPL-3.0), deb-levy/dmPFC_NoL (CC0-1.0)

Status: code verified, 145 files readable, 6 matches

[16164] doi:10.1172/jci.insight.186338 [paper, data]

Device-free isolation of photoreceptor cells from patient iPSC-derived retinal organoids.

Journal: JCI insight

Status: data only, 1 dataset cited

[16165] doi:10.1186/s10194-025-02051-x [paper, repository]

Regional and whole-brain neurofunctional alterations during pain empathic processing of physical but not affective pain in migraine patients.

Journal: The journal of headache and pain

Authors' code: scanUCLA/spm12-getBetas (no license)

Status: code verified, 2 files readable

[16166] doi:10.1186/s13148-025-01903-2 [paper, repository]

Restoring endogenous Dlg4/PSD95 expression by an artificial transcription factor ameliorates cognitive and motor learning deficits in the R6/2 mouse model of Huntington's disease.

Journal: Clinical epigenetics

Authors' code: Gfernandezv (no license)

Status: code verified

[16167] doi:10.1371/journal.pbio.3003198 [paper, repository]

A unified framework to model synaptic dynamics during the sleep-wake cycle.

Journal: PLoS biology

Authors' code: Zenodo 15210933 (CC-BY-4.0), u963593d/synapse_boundary_simulation (no license)

Status: code verified, 136 files readable, 12 matches

[16168] doi:10.1371/journal.pntd.0013088 [paper, data]

Does schistosome infection affect behavior through the gut-brain axis?

Journal: PLoS neglected tropical diseases

Status: data only, 1 dataset cited

[16169] doi:10.1371/journal.pone.0324066 [paper, repository]

Providing context: Extracting non-linear and dynamic temporal motifs from brain activity.

Journal: PloS one

Authors' code: eloygeenjaar/dynamical-motifsGitHub (no license)

Status: dead link

[16170] doi:10.17305/bb.2025.11898 [paper, data]

Glioblastoma induces CAF-like astrocyte activation via the AKT/mTOR-SERPINH1/COL5A1 axis.

Journal: Biomolecules & biomedicine

Status: data only, 1 dataset cited

[16171] doi:10.18178/joig.13.3.275-285 [paper, data]

Automatic Detection and Classification of Cerebral Microbleeds Using 3D CNN.

Journal: Journal of image and graphics

Status: data only, 1 dataset cited

[16172] doi:10.2196/66055 [paper, data]

Knowledge Graph-Enhanced Deep Learning Model (H-SYSTEM) for Hypertensive Intracerebral Hemorrhage: Model Development and Validation.

Journal: Journal of medical Internet research

Status: data only, 1 dataset cited

[16173] doi:10.3389/fpain.2025.1574474 [paper, data]

Behavioral and biochemical changes associated with the analgesic effects of (2R,6R)-hydroxynorketamine alone and in combination with meloxicam following disk puncture in mice.

Journal: Frontiers in pain research (Lausanne, Switzerland)

Status: data only, 1 dataset cited

[16174] doi:10.3390/bioengineering12060641 [paper]

A CNN-Transformer Fusion Model for Proactive Detection of Schizophrenia Relapse from EEG Signals.

Journal: Bioengineering (Basel, Switzerland)

Status: code on request

[16175] doi:10.3390/bioengineering12060645 [paper, data]

Channel-Dependent Multilayer EEG Time-Frequency Representations Combined with Transfer Learning-Based Deep CNN Framework for Few-Channel MI EEG Classification.

Journal: Bioengineering (Basel, Switzerland)

Status: data only, 1 dataset cited

[16176] doi:10.3390/biomedicines13061451 [paper, repository]

Functional Enrichment Analysis of Rare Mutations in Patients with Brain Arteriovenous Malformations.

Journal: Biomedicines

Authors' code: sourceforge.net/snpeff (no license)

Status: code verified

[16177] doi:10.3390/nano15120914 [paper, repository]

(Alkyl-ω-ol)triphenyltin(IV)-Loaded Mesoporous Silica as Biocompatible Potential Neuroprotectors: Evaluation of Inhibitory Activity Against Enzymes Associated with the Pathophysiology of Alzheimer's Disease.

Journal: Nanomaterials (Basel, Switzerland)

Authors' code: BogdanM1/PAK-KTM (GPL-3.0), miljanmilos/CAD-Solid-Field (no license)

Status: code verified, 157 files readable

[16178] doi:10.3390/neurosci6020055 [paper, data]

Romantic Partners with Mismatched Relationship Satisfaction Showed Greater Interpersonal Neural Synchrony When Co-Viewing Emotive Videos: An Exploratory Pilot fNIRS Hyperscanning Study.

Journal: NeuroSci

Status: data only, 1 dataset cited

Wednesday, 11 June 2025 (48 papers)

[16179] doi:10.1002/glia.70048 [paper, data]

Drebrin Upregulation Regulates Astrocyte Polarization and Supports Tissue Recovery After Spinal Cord Injury in Mice.

Journal: Glia

Status: data only, 2 datasets cited

[16180] doi:10.1002/smll.202503011 [paper, data]

The Extremely Low Mechanical Force Generated by Nano-Pulling Induces Global Changes in the Microtubule Network, Nuclear Morphology, and Chromatin Transcription in Neurons.

Journal: Small (Weinheim an der Bergstrasse, Germany)

Status: data only, 2 datasets cited

[16181] doi:10.1007/s12035-025-05110-1 [paper, repository]

Differential Transcript Expression and Alternative RNA Splicing Patterns to Differentiate Focal vs. Generalized-Onset Seizures.

Journal: Molecular neurobiology

Authors' code: rob-meller (no license), Vermarashi (no license)

Status: code verified

[16182] doi:10.1016/j.cell.2025.05.025 [paper, repository]

Dopamine encodes deep network teaching signals for individual learning trajectories.

Journal: Cell

Authors' code: figshare 28877942 (MIT)

Status: code verified

[16183] doi:10.1016/j.celrep.2025.115797 [paper, repository]

Aberrant phase separation of two PKA RIβ neurological disorder mutants leads to mechanistically distinct signaling deficits.

Journal: Cell reports

Authors' code: sokrypton/colabfold (MIT)

Status: code verified, 74 files readable, 1 match

[16184] doi:10.1016/j.celrep.2025.115801 [paper, repository]

The amyloid precursor family of proteins in excitatory neurons are essential for regulating cortico-hippocampal circuit dynamics in vivo.

Journal: Cell reports

Authors' code: Zenodo 15210936 (CC-BY-4.0), petersaj/neuropixels_trajectory_explorer (GPL-3.0)

Status: code verified, 84 files readable, 8 matches

[16185] doi:10.1016/j.celrep.2025.115814 [paper, repository]

Edinger-Westphal Urocortin-1 neurons regulate consumption and affect.

Journal: Cell reports

Authors' code: Zenodo 11624342 (CC-BY-4.0), SabrinaYuY/Fiber_photometry_data_analysis (MIT)

Status: code verified, 4 files readable, 2 matches

[16186] doi:10.1016/j.nbscr.2025.100132 [paper, repository]

Loss of MeCP2 leads to sleep deficits that are time-of-day dependent and worsen with sleep deprivation.

Journal: Neurobiology of sleep and circadian rhythms

Authors' code: PeixotoLab/MeCP2Z (no license)

Status: code verified, 27 files readable, 4 matches

[16187] doi:10.1016/j.nicl.2025.103825 [paper, data]

The role of contralesional regions for post-stroke movements revealed by dynamic connectivity and TMS interference.

Journal: NeuroImage. Clinical

Status: data only, 1 dataset cited

[16188] doi:10.1016/j.ynirp.2025.100267 [paper, repository]

Representative scale-invariant characteristics of male and female brains in magnetic resonance images.

Journal: Neuroimage. Reports

Authors' code: 3dsift-rank (no license)

Status: code verified

[16189] doi:10.1021/acs.jcim.5c00869 [paper, data]

Quantum Mechanics/Molecular Mechanics Simulations Distinguish Insulin-Regulated Aminopeptidase Substrate (Oxytocin) and Inhibitor (Angiotensin IV) and Reveal Determinants of Activity and Inhibition.

Journal: Journal of chemical information and modeling

Status: data only, 1 dataset cited

[16190] doi:10.1038/s41467-025-59687-1 [paper, data]

Ventral hippocampus neurons encode meal-related memory.

Journal: Nature communications

Status: data only, 1 dataset cited

[16191] doi:10.1038/s41562-025-02231-4 [paper, repository]

Conversational content is organized across multiple timescales in the brain.

Journal: Nature human behaviour

Authors' code: yamashita-lang/dialogue (MIT)

Status: code verified, 22 files readable, 5 matches

[16192] doi:10.1038/s41586-025-09101-z [paper, repository]

Remote activation of place codes by gaze in a highly visual animal.

Journal: Nature

Authors' code: hpay/eyetrack-bird (MIT), hpay/spikesort-hp-2025 (MIT), doi:10.5061/dryad.tqjq2bw9n (no license)

Status: code verified, 221 files readable, 19 matches

[16193] doi:10.1038/s41593-025-01985-4 [paper, repository]

A flexible hippocampal population code for experience relative to reward.

Journal: Nature neuroscience

Authors' code: CINPLA/phase-precession (GPL-3.0), ahwillia/affinewarp (MIT), ahwillia/lvl (no license), GiocomoLab/Sosa_et_al_2024 (MIT)

Status: code verified, 123 files readable, 40 matches

[16194] doi:10.1038/s42003-025-08315-1 [paper, repository]

Spatial organization, chromatin accessibility and gene-regulatory programs defining mouse sensory neurons.

Journal: Communications biology

Authors' code: immunogenomics/harmony (no license), pypi.org/project/sccamel (no license)

Status: code verified, 32 files readable, 1 match

[16195] doi:10.1038/s42003-025-08321-3 [paper, repository]

Guided visual search is associated with target boosting and distractor suppression in early visual cortex.

Journal: Communications biology

Authors' code: katduecker/visual_search_rift (no license)

Status: code verified, 130 files readable, 17 matches

[16196] doi:10.1038/s42255-025-01301-1 [paper]

A food-sensitive olfactory circuit drives anticipatory satiety.

Journal: Nature metabolism

Status: code on request

[16197] doi:10.1073/pnas.2411724122 [paper, data]

Keratinocyte-TRPV1 sensory neuron interactions in a genetically controllable mouse model of chronic neuropathic itch.

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

Status: data only, 1 dataset cited

[16198] doi:10.1080/15592294.2025.2508251 [paper, data]

The myoblast methylome: multiple types of associations with chromatin and transcription.

Journal: Epigenetics

Status: data only, 2 datasets cited

[16199] doi:10.1098/rsob.250101 [paper, repository]

Unravelling axonal transcriptional landscapes: insights from induced pluripotent stem cell-derived cortical neurons and implications for motor neuron degeneration.

Journal: Open biology

Authors' code: doi:10.6084/m9.figshare.c.7819460 (no license)

Status: code found, still to be checked

[16200] doi:10.1098/rsos.250065 [paper, repository]

Tracking free water in human body by magnetic resonance imaging: new insights on the network pathways.

Journal: Royal Society open science

Authors' code: doi:10.6084/m9.figshare.c.7843835 (no license)

Status: code found, still to be checked

[16201] doi:10.1101/2025.06.10.25328978 [paper, data]

Structural Similarity Networks Reveal Brain Vulnerability in Dementia

Journal: medRxiv (preprint)

Status: data only, 1 dataset cited

[16202] doi:10.1101/2025.06.10.25328994 [paper, repository]

Preterm birth, socioeconomic status, and white matter development across childhood

Journal: medRxiv (preprint)

Authors' code: OSF bq5cd (no license)

Status: empty repository

[16203] doi:10.1101/2025.06.10.658866 [paper, data]

Large-scale bidirectional arrayed genetic screens identify <i>OXR1</i> and <i>EMC4</i> as modifiers of α-synuclein aggregation

Journal: bioRxiv (preprint)

Status: code on request, 1 dataset cited

[16204] doi:10.1101/2025.06.10.658934 [paper, repository]

Small tau aggregates exhibit disease-specific molecular profiles across tauopathies

Journal: bioRxiv (preprint)

Authors' code: Zenodo 15635269 (MIT), dboeken/boeken_tauopathies (MIT)

Status: code verified, 11 files readable, 1 match

[16205] doi:10.1101/2025.06.11.659158 [paper, repository]

Cross-species comparative connectomics reveals the evolution of an olfactory circuit

Journal: bioRxiv (preprint)

Authors' code: PrietoGodinoLab/Comparative.Connectomics.Drosophila.Larvae (no license)

Status: dead link

[16206] doi:10.1126/sciadv.adq7332 [paper, repository]

Insight into human photoreceptor function: Modeling optoretinographic responses to diverse stimuli.

Journal: Science advances

Authors' code: Zenodo 11325119 (CC-BY-4.0), rjonnal/aoffssoct_org (no license)

Status: code verified, 16 files readable

[16207] doi:10.1126/sciadv.ads4995 [paper, repository]

MiniXL: An open-source, large field-of-view epifluorescence miniscope enabling single-cell resolution and multi-region imaging in mice.

Journal: Science advances

Authors' code: Aharoni-Lab/Miniscope-LFOV (GPL-3.0)

Status: code verified, 944 files readable

[16208] doi:10.1126/sciadv.adu4523 [paper, repository]

Sequential transcriptional programs underpin activation of hippocampal stem cells.

Journal: Science advances

Authors' code: Zenodo 15029842 (CC-BY-4.0)

Status: code verified, 18 files readable, 21 matches

[16209] doi:10.1128/mra.00162-25 [paper, data]

Near-complete genome sequence of nervous necrosis virus from big-belly seahorses (&lt;i&gt;Hippocampus abdominalis&lt;/i&gt;) collected in China.

Journal: Microbiology resource announcements

Status: data only, 1 dataset cited

[16210] doi:10.1162/imag.a.35 [paper, repository]

Spectral principal axis system (SPAS) and tuning of tensor-valued encoding for microscopic anisotropy and time-dependent diffusion in the rat brain.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: samo-lasic/Lasic_SPAS_ImagingNeuroscience2025 (other), markus-nilsson/md-dmri (other)

Status: code verified, 853 files readable, 21 matches

[16211] doi:10.1162/imag.a.38 [paper]

Behavioral and neural evidence for perceptual predictions in social interactions.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

[16212] doi:10.1186/s12974-025-03480-w [paper, data]

OTUD1 exacerbates sepsis-associated encephalopathy by promoting HK2 mitochondrial release to drive microglia pyroptosis.

Journal: Journal of neuroinflammation

Status: data only, 3 datasets cited

[16213] doi:10.1186/s12993-025-00282-1 [paper, data]

Combined enriched environment and fluoxetine enhance myelin protein expression in the prefrontal cortex of a chronic unpredictable stress depression model.

Journal: Behavioral and brain functions : BBF

Status: data only, 1 dataset cited

[16214] doi:10.1242/jcs.264093 [paper, repository]

A minimal mathematical model for polarity establishment and centralspindlin-independent cytokinesis.

Journal: Journal of cell science

Authors' code: omaxian/CElegansModel (no license)

Status: code verified, 22 files readable, 3 matches

[16215] doi:10.1371/journal.pcbi.1013081 [paper, repository]

Balanced state of networks of winner-take-all units.

Journal: PLoS computational biology

Authors' code: rkp8000/balanced-wta (no license)

Status: code verified, 58 files readable, 3 matches

[16216] doi:10.1371/journal.pone.0315069 [paper, data]

Ethanol alters mechanosensory habituation in C. elegans by way of the BK potassium channel through a novel mechanism.

Journal: PloS one

Status: data only, 1 dataset cited

[16217] doi:10.1371/journal.pone.0323884 [paper, repository]

Resting-state memory consolidation in Attention-Deficit/Hyperactivity Disorder.

Journal: PloS one

Authors' code: OSF 2q6sm (no license)

Status: code verified, 1 file readable, 16 matches

[16218] doi:10.1371/journal.pone.0324457 [paper, repository]

Pain in the brain: Psychological correlates of chronic pain and fibromyalgia.

Journal: PloS one

Authors' code: M-Pass/Pain_in_the_brain (no license)

Status: code verified, 2 files readable, 1 match

[16219] doi:10.1371/journal.pone.0324802 [paper, repository]

Math skills and microstructure of the middle longitudinal fasciculus: A developmental investigation.

Journal: PloS one

Authors' code: irinabuianova/pmt (no license)

Status: code verified, 2 files readable

[16220] doi:10.1371/journal.pone.0325017 [paper, data]

Simultaneous EEG-fNIRS study of visual cognitive processing: ERP analysis and decision-related hemodynamic responses in healthy adults.

Journal: PloS one

Status: data only, 1 dataset cited

[16221] doi:10.21203/rs.3.rs-6627999/v1 [paper, repository]

Anomalies in effective connectivity explain different hallucination subtypes in Parkinson’s disease psychosis

Journal: Research Square (preprint)

Authors' code: VMiri/vMMN-dcm (no license)

Status: dead link

[16222] doi:10.21203/rs.3.rs-6803912/v1 [paper, repository]

Parallel and dynamic attention allocation during natural reading

Journal: Research Square (preprint)

Authors' code: yalipan666/Attention_in_Reading (no license)

Status: code verified, 54 files readable, 11 matches

[16223] doi:10.3390/biology14060682 [paper, data]

Combined Ionizing Radiation Caused Cognition and Non-Cognition Behavior Benefits and Modulated Microglial Activity in Wild-Type and Alzheimer's-like Transgenic Mice.

Journal: Biology

Status: data only, 1 dataset cited

[16224] doi:10.3390/s25123645 [paper, data]

Efficient Brain Tumor Segmentation for MRI Images Using YOLO-BT.

Journal: Sensors (Basel, Switzerland)

Status: data only, 1 dataset cited

[16225] doi:10.7554/elife.92092 [paper, repository]

A mathematical model that predicts human biological age from physiological traits identifies environmental and genetic factors that influence aging.

Journal: eLife

Authors' code: biologicalageukbb/biologicalageukbb-project (no license)

Status: code verified, 4 files readable, 3 matches

[16226] doi:10.7554/elife.95243 [paper, repository]

Embedding stochastic dynamics of the environment in spontaneous activity by prediction-based plasticity.

Journal: eLife

Authors' code: TAsabuki/stochastic_transition (no license)

Status: code verified, 4 files readable, 1 match

Tuesday, 10 June 2025 (33 papers)

[16227] doi:10.1007/s10334-025-01266-y [paper, repository]

Agreement of image quality metrics with radiological evaluation in the presence of motion artifacts.

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

Authors' code: melanieganz/ImageQualityMetricsMRI (MIT)

Status: code verified, 19 files readable, 2 matches

[16228] doi:10.1007/s11060-025-05079-w [paper, repository]

Predicting attention deficits and functional recovery after glioma resection through functional executive networks: insights from dynamic properties.

Journal: Journal of neuro-oncology

Authors' code: MIPLabCH/iCAPs (no license)

Status: code verified, 2,000 files readable

[16229] doi:10.1016/j.celrep.2025.115831 [paper]

Deficiency in N-cadherin-Akt3 signaling impairs the blood-brain barrier.

Journal: Cell reports

Status: code on request

[16230] doi:10.1016/j.celrep.2025.115842 [paper]

Lysophosphatidic acid and sphingosine-1-phosphate are apical polarity cues in multiple organoid systems.

Journal: Cell reports

Status: code on request

[16231] doi:10.1016/j.isci.2025.112868 [paper]

Deep learning enhanced deciphering of brain activity maps for discovery of therapeutics for brain disorders.

Journal: iScience

Status: code on request

[16232] doi:10.1016/j.molmet.2025.102187 [paper, data]

Pyruvate kinase deficiency links metabolic perturbations to neurodegeneration and axonal protection.

Journal: Molecular metabolism

Status: data only, 1 dataset cited

[16233] doi:10.1016/j.neuropsychologia.2025.109202 [paper]

Functional neural oscillatory activities reveal the impact of attentional instructions on speech auditory feedback control.

Journal: Neuropsychologia

Status: code on request

[16234] doi:10.1016/j.nicl.2025.103824 [paper, data]

Characterising grey-white matter relationships in recent-onset psychosis and its association with cognitive function.

Journal: NeuroImage. Clinical

Status: code on request, 2 datasets cited

[16235] doi:10.1016/j.simpa.2025.100771 [paper, repository]

MRI-based Alzheimer's disease classification using Vision Transformer and time-series transformer: A step-by-step guide.

Journal: Software impacts

Authors' code: SoftwareImpacts/SIMPAC-2025-98 (MIT)

Status: code verified, 5 files readable, 5 matches

[16236] doi:10.1038/s41531-025-01024-w [paper, repository]

L-Dopa-induced changes in aperiodic bursts dynamics relate to individual clinical improvement in Parkinson's disease.

Journal: NPJ Parkinson's disease

Authors' code: Hasnae12/neuronal_avalanches_PD (BSD-3-Clause)

Status: code verified, 9 files readable, 12 matches

[16237] doi:10.1038/s42003-025-08256-9 [paper, repository]

Neurocomputational mechanisms of personal benefits and justifications in moral decision-making.

Journal: Communications biology

Authors' code: OSF 2sr86 (no license)

Status: code verified, 17 files readable, 2 matches

[16238] doi:10.1038/s43856-025-00942-3 [paper, repository]

Protection against APOE4-associated phenotypes with the longevity-promoting intervention 17α-estradiol in middle-aged male mice.

Journal: Communications medicine

Authors' code: BenayounLaboratory/17aE2_APOE (MIT), Zenodo 15474598 (MIT)

Status: code verified, 26 files readable, 4 matches

[16239] doi:10.1073/pnas.2414598122 [paper, repository]

Longitudinal trajectories of brain development from infancy to school age and their relationship with literacy development.

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

Authors' code: knickmeyer-lab/ORIGINs_ICV-and-Subcortical-volume-development-in-early-childhood (no license), TeddyTuresky/Longitudinal-Trajectories-Early-Brain-Development-Language (BSD-3-Clause)

Status: code verified, 67 files readable, 14 matches

[16240] doi:10.1073/pnas.2418920122 [paper, repository]

Electrical spinal cord stimulation promotes focal sensorimotor activation that accelerates brain-computer interface skill learning.

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

Authors' code: Zenodo 15454355 (CC-BY-4.0)

Status: code verified

[16241] doi:10.1101/2025.06.10.658830 [paper, repository]

FOXP1 differentially regulates the development of murine vasopressin and oxytocin magnocellular neurons

Journal: bioRxiv (preprint)

Authors' code: jberkh/2025_Avp_Oxt_Diff (no license), tim-schubert/impro (Apache-2.0)

Status: code verified, 25 files readable, 16 matches

[16242] doi:10.1111/acel.70117 [paper, data]

Brain DNA Methylation Age, Lifestyle Factors and Dementia in the Swedish Twin Registry.

Journal: Aging cell

Status: data only, 1 dataset cited

[16243] doi:10.1111/resp.70072 [paper, data]

Inter-Night Variability of Nocturnal Pulse Oximetry in People Living With Motor Neuron Disease: A Retrospective Observational Study.

Journal: Respirology (Carlton, Vic.)

Status: data only, 1 dataset cited

[16244] doi:10.1162/imag.a.25 [paper, data]

Intrinsic functional connectivity delineates transmodal language functions.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

[16245] doi:10.1162/imag.a.30 [paper, repository]

Validating genuine changes in heartbeat-evoked potentials using pseudotrials and surrogate procedures.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: PaulSteinfath (no license)

Status: code verified

[16246] doi:10.1162/imag.a.33 [paper, repository]

Effects of an 18-month meditation training on dynamic functional connectivity states in older adults: Secondary analyses from the Age-Well randomized controlled trial.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: silverlab/megavista (no license)

Status: code verified, 2,000 files readable, 5 matches

[16247] doi:10.1242/dev.204505 [paper, repository]

Small molecule- and cell contact-inducible systems for controlling expression and differentiation in mouse embryonic stem cells.

Journal: Development (Cambridge, England)

Authors' code: Zenodo 10810571 (CC-BY-4.0), weinberz/syndevkit (no license)

Status: code verified, 36 files readable

[16248] doi:10.1371/journal.pcbi.1013112 [paper, repository]

Energy optimization induces predictive-coding properties in a multi-compartment spiking neural network model.

Journal: PLoS computational biology

Authors' code: sbohte/SNN_PC_Multicomp (no license), Zenodo 13329388 (CC-BY-4.0)

Status: code verified, 8 files readable, 5 matches

[16249] doi:10.1371/journal.pcbi.1013134 [paper, repository]

Sensorimotor integration enhances temperature stimulus processing.

Journal: PLoS computational biology

Authors' code: jcostabile/tracking (no license), haesemeyer/plaid_pub (MIT)

Status: code verified, 37 files readable, 6 matches

[16250] doi:10.3389/fmedt.2025.1491197 [paper, repository]

Deep learning for MRI-based acute and subacute ischaemic stroke lesion segmentation-a systematic review, meta-analysis, and pilot evaluation of key results.

Journal: Frontiers in medical technology

Authors' code: Elpazzu/UoE-Pilot-Analysis (no license)

Status: code verified, 4 files readable, 3 matches

[16251] doi:10.3389/fphar.2025.1509837 [paper, data]

Kininogen enhances seizure susceptibility in mice possibly through bradykinin-induced modulation of calcium transients in glutamatergic and GABAergic neurons.

Journal: Frontiers in pharmacology

Status: data only, 2 datasets cited

[16252] doi:10.3389/fpsyg.2025.1426891 [paper, data]

The impact of songs with prosocial lyrics on implicit cognition and prosocial behavior: a prospective event-related brain potential study.

Journal: Frontiers in psychology

Status: data only, 1 dataset cited

[16253] doi:10.3390/bios15060374 [paper, data]

Assessing the Role of EEG Biosignal Preprocessing to Enhance Multiscale Fuzzy Entropy in Alzheimer's Disease Detection.

Journal: Biosensors

Status: data only, 1 dataset cited

[16254] doi:10.3758/s13421-025-01731-y [paper, repository]

Dissociating voluntary mental imagery and mental simulation: Evidence from aphantasia.

Journal: Memory & cognition

Authors' code: OSF j9znu (no license)

Status: code verified, 5 files readable, 5 matches

[16255] doi:10.57264/cer-2025-0019 [paper, data]

Resource utilization and economic outcomes following repetitive transcranial magnetic stimulation for treatment-resistant depression: a retrospective observational analysis.

Journal: Journal of comparative effectiveness research

Status: data only, 1 dataset cited

[16256] doi:10.7554/elife.101163 [paper, repository]

Human brain ancestral barcodes.

Journal: eLife

Authors' code: supp:PMC12151537/elife-101163-code1.zip (no license)

Status: code verified, 8 files readable, 2 matches

[16257] doi:10.7554/elife.101779 [paper, repository]

Activity-dependent synapse elimination requires caspase-3 activation.

Journal: eLife

Authors' code: supp:PMC12151539/elife-101779-code1.zip (no license)

Status: empty repository

[16258] doi:10.7554/elife.106042 [paper, repository]

A library of lineage-specific driver lines connects developing neuronal circuits to behavior in the &lt;i&gt;Drosophila&lt;/i&gt; ventral nerve cord.

Journal: eLife

Authors' code: aaron-allen/VNC_scRNAseq (GPL-3.0)

Status: code verified, 9 files readable, 2 matches

[16259] doi:10.7717/peerj-cs.2920 [paper, repository]

A novel brain tumor magnetic resonance imaging dataset (Gazi Brains 2020): initial benchmark results and comprehensive analysis.

Journal: PeerJ. Computer science

Authors' code: open-mmlab (no license)

Status: code verified

Monday, 9 June 2025 (22 papers)

[16260] doi:10.1007/s12672-025-02671-4 [paper, data]

Transfer learning for accurate brain tumor classification in MRI: a step forward in medical diagnostics.

Journal: Discover oncology

Status: data only, 1 dataset cited

[16261] doi:10.1016/j.crmeth.2025.101074 [paper, repository]

Preserving spatial and quantitative information in unpaired biomedical image-to-image translation.

Journal: Cell reports methods

Authors' code: figshare 28707146 (CC-BY-4.0), NICALab/STABLE (GPL-3.0), figshare 28936559 (CC-BY-4.0), NICALab/SUPPORT (GPL-3.0), google/in-silico-labeling (Apache-2.0), junyanz/pytorch-CycleGAN-and-pix2pix (BSD-3-Clause), NVlabs/MUNIT (CC-BY-NC-SA-4.0), Mid-Push/santa (MIT), cabooster/UTOM (GPL-3.0)

Status: code verified, 194 files readable, 5 matches

[16262] doi:10.1016/j.isci.2025.112865 [paper]

Photocuring CsA and bFGF-embedded hemostatic hydrogel promotes recovery from TBI by mitigating ferroptosis and neuroinflammation.

Journal: iScience

Status: code on request

[16263] doi:10.1016/j.nbd.2025.106991 [paper]

Early and widespread cerebellar engagement during hippocampal seizures and interictal discharges.

Journal: Neurobiology of disease

Status: code on request

[16264] doi:10.1016/j.xcrm.2025.102182 [paper, repository]

Toward general text-guided multimodal brain MRI synthesis for diagnosis and medical image analysis.

Journal: Cell reports. Medicine

Authors' code: Wangyulin-user/TUMSyn (no license)

Status: code verified, 31 files readable, 5 matches

[16265] doi:10.1038/s41514-025-00239-8 [paper]

The role of physical activity in mitigating age-related changes in the neuromuscular control of gait.

Journal: npj aging

Status: code on request

[16266] doi:10.1038/s41514-025-00243-y [paper, data]

Evaluating EEG complexity and spectral signatures in Alzheimer's disease and frontotemporal dementia: evidence for rostrocaudal asymmetry.

Journal: npj aging

Status: code on request, 1 dataset cited

[16267] doi:10.1038/s44319-025-00493-7 [paper]

Regulated microexon alternative splicing in single neurons tunes synaptic function.

Journal: EMBO reports

Status: data only

[16268] doi:10.1039/d5an00166h [paper, repository]

Advancing atmospheric solids analysis probe mass spectrometry applications: a multifaceted approach to optimising clinical data set generation.

Journal: The Analyst

Authors' code: Liwensong2019/ASAP-MS (no license)

Status: code verified, 3 files readable

[16269] doi:10.1073/pnas.2424169122 [paper, data]

Sleep deficiency exacerbates periodontal inflammation via trigeminal TRPV1 neurons.

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

Status: data only, 1 dataset cited

[16270] doi:10.1111/dgd.70012 [paper]

Transcriptome Analysis Suggested Striking Transition Around the End of Epiboly in the Gene Regulatory Network Downstream of the Oct4-Type POU Gene in Zebrafish Embryos.

Journal: Development, growth & differentiation

Status: data only

[16271] doi:10.1117/1.jbo.30.6.067001 [paper, repository]

AI-powered remote monitoring of brain responses to clear and incomprehensible speech via speckle pattern analysis.

Journal: Journal of biomedical optics

Authors' code: natalyasegal/SpecklesAI (GPL-3.0)

Status: code verified, 30 files readable, 2 matches

[16272] doi:10.1186/s12915-025-02263-2 [paper, data]

Single-cell chromatin accessibility profiling reveals regulatory mechanisms and evolution in pig brains.

Journal: BMC biology

Status: data only, 1 dataset cited

[16273] doi:10.1186/s12974-025-03457-9 [paper, data]

Comprehensive analysis of immunoglobulin expression in the mouse brain from embryonic to adult stages.

Journal: Journal of neuroinflammation

Status: code on request, 6 datasets cited

[16274] doi:10.1186/s40659-025-00619-0 [paper, data]

Alternative strategies based on transgenic Drosophila melanogaster for the functional characterization of insect Ionotropic Receptors.

Journal: Biological research

Status: data only, 5 datasets cited

[16275] doi:10.1371/journal.pcbi.1013118 [paper, repository]

Computational modeling of ketamine-induced changes in gamma-band oscillations: The contribution of parvalbumin and somatostatin interneurons.

Journal: PLoS computational biology

Authors' code: jessierademacher/Ketamine_E-I (no license)

Status: code verified, 1,190 files readable, 2 matches

[16276] doi:10.21037/qims-24-1903 [paper, repository]

Cortical microstructural changes in minimal hepatic encephalopathy: a gray matter-based spatial statistics study.

Journal: Quantitative imaging in medicine and surgery

Authors' code: arash-n/GBSS (CC-BY-NC-4.0)

Status: code verified, 11 files readable, 1 match

[16277] doi:10.21203/rs.3.rs-6737374/v1 [paper, data]

Differential Dopaminergic Modulation of the Antennal Lobe of Drosophila melanogaster

Journal: Research Square (preprint)

Status: data only, 1 dataset cited

[16278] doi:10.3389/fpsyt.2025.1539702 [paper, repository]

Altered static and dynamic functional connectivity in major depressive disorder accompanied by high anxiety: evidence from the REST-meta-MDD consortium.

Journal: Frontiers in psychiatry

Authors' code: Jfortin1/ComBatHarmonization (no license)

Status: code verified, 17 files readable

[16279] doi:10.3390/antibiotics14060595 [paper, data]

Epoxy-Functionalized Isatin Derivative: Synthesis, Computational Evaluation, and Antibacterial Analysis.

Journal: Antibiotics (Basel, Switzerland)

Status: data only, 1 dataset cited

[16280] doi:10.3390/brainsci15060622 [paper, data]

The Rapid Sense of Direction (R-SOD) Scale: A Brief Self-Report Tool to Identify Developmental Topographical Disorientation (DTD).

Journal: Brain sciences

Status: data only, 1 dataset cited

[16281] doi:10.3390/s25123627 [paper, repository]

Wide-Based Illumination and Detection in Functional Near-Infrared Spectroscopy for Enhanced Seizure Detection in Grey Matter.

Journal: Sensors (Basel, Switzerland)

Authors' code: netaniel2/mc-simulation-fnirs (no license)

Status: code verified, 1 file readable, 1 match

Sunday, 8 June 2025 (5 papers)

[16282] doi:10.1002/mrm.30599 [paper, repository]

Strong gradients, cool performance: A 64-channel array coil with concurrent field monitoring and thermal control for ex vivo diffusion-weighted brain imaging using the 3T connectome 2.0 MRI scanner.

Journal: Magnetic resonance in medicine

Authors' code: keyarray/connectexvivocoil (no license)

Status: empty repository

[16283] doi:10.1007/s11263-025-02476-6 [paper, repository]

A Physics-Informed Deep Learning Deformable Medical Image Registration Method Based on Neural ODEs.

Journal: International journal of computer vision

Authors' code: AHA-H1987/NODE_Registration (Apache-2.0)

Status: code verified, 12 files readable

[16284] doi:10.1007/s11357-025-01720-8 [paper, repository]

Brain precapillary sphincters modulate myogenic tone in adult and aged mice.

Journal: GeroScience

Authors' code: teddygroves/sphincter (no license)

Status: code verified, 57 files readable, 1 match

[16285] doi:10.1101/2025.06.05.658071 [paper, repository]

A single evidence accumulation process informs perceptual choices and subsequent confidence reports

Journal: bioRxiv (preprint)

Authors' code: Zenodo 15586067 (CC-BY-4.0), OSF f6xyw (no license), johnpgrogan/confidencesatanalysis (no license)

Status: code verified, 111 files readable, 19 matches

[16286] doi:10.1101/2025.06.08.658475 [paper, repository]

The anti-neural role of BMP signaling is a side effect of its global function in dorsoventral patterning

Journal: bioRxiv (preprint)

Authors' code: technau/Nv2_Atlas (no license)

Status: code verified, 5 files readable

Saturday, 7 June 2025 (9 papers)

[16287] doi:10.1002/ase.70051 [paper, data]

Described neural connections enhance classroom learning of neuroanatomy.

Journal: Anatomical sciences education

Status: data only, 1 dataset cited

[16288] doi:10.1007/s00330-025-11695-x [paper, repository]

De-identification of medical imaging data: a comprehensive tool for ensuring patient privacy.

Journal: European radiology

Authors' code: hub.docker.com/r/morrempe (no license), TIO-IKIM/medical_image_deidentification (Apache-2.0)

Status: code verified, 27 files readable, 4 matches

[16289] doi:10.1007/s12035-025-05128-5 [paper, data]

Tissue-Specific Chromatin Accessibility Regions and Transcription Factor Binding Sites in Pig Brain and Endocrine Tissues.

Journal: Molecular neurobiology

Status: data only, 1 dataset cited

[16290] doi:10.1016/j.physbeh.2025.114987 [paper, data]

Effects of adolescent morphine exposure on brain stimulation reward sensitivity and dopamine neuron excitability.

Journal: Physiology & behavior

Status: data only, 1 dataset cited

[16291] doi:10.1038/s41597-025-05313-0 [paper, data]

A Multimodal Dataset Addressing Motor Function in Autism.

Journal: Scientific data

Status: data only, 1 dataset cited

[16292] doi:10.1038/s42003-025-08179-5 [paper, repository]

Genome-wide identification and analysis of recurring patterns of epigenetic variation across individuals.

Journal: Communications biology

Authors' code: ernstlab/EpiVarIndividuals (no license), Zenodo 14941933 (CC-BY-4.0)

Status: code verified, 6 files readable

[16293] doi:10.1038/s42003-025-08295-2 [paper, repository]

The spatial layout of antagonistic brain regions is explicable based on geometric principles.

Journal: Communications biology

Authors' code: ActiveNeuroImaging/SpatialAnticorrelations (no license)

Status: code verified, 8 files readable, 4 matches

[16294] doi:10.1186/s40478-025-02036-6 [paper, data]

Single-cell transcriptome sequencing reveals new epithelial-stromal associated mesenchymal-like subsets in recurrent gliomas.

Journal: Acta neuropathologica communications

Status: data only, 1 dataset cited

[16295] doi:10.3390/biomimetics10060381 [paper, data]

Enhancing Legged Robot Locomotion Through Smooth Transitions Using Spiking Central Pattern Generators.

Journal: Biomimetics (Basel, Switzerland)

Status: data only, 1 dataset cited

Friday, 6 June 2025 (55 papers)

[16296] doi:10.1002/advs.202500691 [paper, repository]

Resolving Artifacts in Voltage-Clamp Experiments with Computational Modeling: An Application to Fast Sodium Current Recordings.

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

Authors' code: CardiacModelling/nav-artefact-model (BSD-3-Clause), Zenodo 15200038 (BSD-3-Clause)

Status: code verified, 60 files readable, 2 matches

[16297] doi:10.1007/s00401-025-02901-7 [paper, repository]

Analysis of the splicing landscape of the frontal cortex in FTLD-TDP reveals subtype specific patterns and cryptic splicing.

Journal: Acta neuropathologica

Authors' code: derijkp/genomecomb (GPL-3.0)

Status: code verified, 179 files readable

[16298] doi:10.1007/s11548-025-03438-6 [paper]

Hypothalamus and intracranial volume segmentation at the group level by use of a Gradio-CNN framework.

Journal: International journal of computer assisted radiology and surgery

Status: code on request

[16299] doi:10.1016/j.celrep.2025.115796 [paper]

Combinatorial transcriptional regulation establishes subtype-appropriate synaptic properties in auditory neurons.

Journal: Cell reports

Status: code on request

[16300] doi:10.1016/j.dcn.2025.101581 [paper, data]

Self-referential encoding in the developing brain.

Journal: Developmental cognitive neuroscience

Status: data only, 1 dataset cited

[16301] doi:10.1016/j.ebiom.2025.105791 [paper, data]

Mazdutide, a dual agonist targeting GLP-1R and GCGR, mitigates diabetes-associated cognitive dysfunction: mechanistic insights from multi-omics analysis.

Journal: EBioMedicine

Status: data only, 1 dataset cited

[16302] doi:10.1016/j.isci.2025.112713 [paper, repository]

GeneSurfer enables transcriptome-wide exploration and annotation of gene co-expression modules in 3D spatial transcriptomics data.

Journal: iScience

Authors' code: ManiVaultStudio/GeneSurfer (LGPL-3.0), alleninstitute/abc_atlas_access (BSD-2-Clause)

Status: code verified, 379 files readable, 9 matches

[16303] doi:10.1016/j.molmet.2025.102178 [paper, repository]

VGluT3 BNST neurons transmit GABA and restrict sucrose consumption.

Journal: Molecular metabolism

Authors' code: root-lab.org/code (no license)

Status: code verified

[16304] doi:10.1016/j.neuroimage.2025.121311 [paper, repository]

Investigating the neurovascular coupling across multiple motor execution and imagery conditions: a whole-brain EEG-informed fMRI analysis.

Journal: NeuroImage

Authors' code: bfinl/EEG-fMRI-MI (no license)

Status: code verified, 15 files readable, 1 match

[16305] doi:10.1016/j.neuron.2025.05.016 [paper, data]

Neurodevelopmental origins of structural and psychomotor defects in CXCR4-linked primary immunodeficiency.

Journal: Neuron

Status: code on request, 1 dataset cited

[16306] doi:10.1021/acs.jcim.5c00858 [paper, data]

Mapping the Interactions Among Class IIa Histone Deacetylases and Myocyte Enhancer Factor 2s.

Journal: Journal of chemical information and modeling

Status: data only, 5 datasets cited

[16307] doi:10.1038/s41386-025-02142-y [paper, repository]

Prelimbic cortical excitatory overdrive and inhibitory underdrive accompany environmental suppression of food seeking.

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

Authors' code: mccutcheonlab/trompy (MIT)

Status: code verified, 38 files readable

[16308] doi:10.1038/s41467-025-60183-9 [paper, repository]

Refining centromedian nucleus stimulation for generalized epilepsy with targeting and mechanistic insights from intraoperative electrophysiology.

Journal: Nature communications

Authors' code: jho323/NCOMMS-24-17835B (no license), jho323/NCOMMS-24−17835B (no license)

Status: code verified, 13 files readable, 2 matches

[16309] doi:10.1038/s41467-025-60378-0 [paper, repository]

Rewired m6A of promoter antisense RNAs in Alzheimer's disease regulates neuronal genes in 3D nucleome.

Journal: Nature communications

Authors' code: macs3-project/MACS (BSD-3-Clause), Zenodo 15019230 (CC-BY-4.0), BenxiaHu/MAPT-paRNA_in_AD (no license), BenxiaHu/HiCPlot (MIT)

Status: code verified, 247 files readable, 2 matches

[16310] doi:10.1038/s41467-025-60504-y [paper, repository]

Distinct neural population code and causal roles of primate caudate nucleus in multimodal decision-making.

Journal: Nature communications

Authors' code: ZacZeng/CN-causally-contributes-to-MSDM (AGPL-3.0), Zenodo 15260721 (apgl-v3)

Status: code verified, 450 files readable, 12 matches

[16311] doi:10.1038/s41467-025-60542-6 [paper, repository]

Aging and diet alter the protein ubiquitylation landscape in the mouse brain.

Journal: Nature communications

Authors' code: Zenodo 15270436 (CC-BY-4.0)

Status: code verified

[16312] doi:10.1038/s41537-025-00622-0 [paper, repository]

The electroencephalography protocol for the Accelerating Medicines Partnership® Schizophrenia Program: Reliability and stability of measures.

Journal: Schizophrenia (Heidelberg, Germany)

Authors' code: Zenodo 7849718 (other-open), Zenodo 6326487 (other-open), amp-scz/eeg-qc-dash (no license), amp-scz/utility (no license)

Status: code verified, 281 files readable, 1 match

[16313] doi:10.1038/s41551-025-01413-9 [paper, repository]

A deep learning system for detecting silent brain infarction and predicting stroke risk.

Journal: Nature biomedical engineering

Authors' code: njiang2024/DeepRETStroke (CC-BY-NC-4.0)

Status: code verified, 10 files readable, 3 matches

[16314] doi:10.1038/s41559-025-02720-9 [paper, repository]

A single-cell atlas of the bobtail squid visual and nervous system highlights molecular principles of convergent evolution.

Journal: Nature ecology & evolution

Authors' code: wtsi-hpag/Scaff10X (MIT), dariagavr/EberryiVisual (GPL-3.0), Zenodo 15102917 (GPL-3.0)

Status: code verified, 51 files readable, 4 matches

[16315] doi:10.1038/s41562-025-02220-7 [paper, repository]

End-to-end topographic networks as models of cortical map formation and human visual behaviour.

Journal: Nature human behaviour

Authors' code: KietzmannLab/All-TNN (MIT)

Status: code verified, 44 files readable, 18 matches

[16316] doi:10.1038/s41592-025-02704-4 [paper, repository]

Benchmarking methods for mapping functional connectivity in the brain.

Journal: Nature methods

Authors' code: Imperial-MIND-lab/integrated-info-decomp (BSD-3-Clause), OSF 75je2 (no license), netneurolab/liu_fc-pyspi (BSD-3-Clause), DynamicsAndNeuralSystems/pyspi (GPL-3.0)

Status: code verified, 59 files readable, 6 matches

[16317] doi:10.1038/s41593-025-01944-z [paper, repository]

Spatial reasoning via recurrent neural dynamics in mouse retrosplenial cortex.

Journal: Nature neuroscience

Authors' code: jonnew/Oat (GPL-3.0), jvoigts/Voigts_Kanitscheider_et_al_2024 (no license), Zenodo 1098579 (other-open)

Status: code verified, 362 files readable, 1 match

[16318] doi:10.1038/s41593-025-01961-y [paper, repository]

Noninvasive reduction of neural rigidity alters autistic behaviors in humans.

Journal: Nature neuroscience

Authors' code: sites.google.com/site/ezakitakahiro (no license)

Status: code verified

[16319] doi:10.1038/s41597-025-04687-5 [paper, repository]

Population-scale cross-disorder atlas of the human prefrontal cortex at single-cell resolution.

Journal: Scientific data

Authors' code: DiseaseNeuroGenomics/psychAD_SciData (MIT)

Status: code verified, 5 files readable, 8 matches

[16320] doi:10.1038/s41597-025-05286-0 [paper, repository]

A multi-modal dataset of electroencephalography and functional near-infrared spectroscopy recordings for motor imagery of multi-types of joints from unilateral upper limb.

Journal: Scientific data

Authors' code: Bill-Chen-BJ/FJMI_EEG_fNIRS (no license)

Status: code verified, 6 files readable, 11 matches

[16321] doi:10.1038/s41598-025-04737-3 [paper]

Biomechanics characterization of an implantable ultrathin intracortical electrode through finite element method.

Journal: Scientific reports

Status: code on request

[16322] doi:10.1038/s41746-025-01703-1 [paper, repository]

Machine learning to predict penumbra core mismatch in acute ischemic stroke using clinical note data.

Journal: NPJ digital medicine

Authors' code: shaunk24/CTP_NLP (no license)

Status: code verified, 7 files readable, 3 matches

[16323] doi:10.1038/s42003-025-08329-9 [paper, repository]

The neural circuit mechanism for auditory responses in the mediodorsal thalamic nucleus of awake mice.

Journal: Communications biology

Authors' code: Aaronwong1219/PSTH (no license)

Status: code verified, 11 files readable, 3 matches

[16324] doi:10.1038/s43018-025-00976-5 [paper, repository]

crossNN is an explainable framework for cross-platform DNA methylation-based classification of tumors.

Journal: Nature cancer

Authors' code: euskirchen-lab/crossnn (no license), pesk/nanoDx (GPL-3.0)

Status: code verified, 16 files readable

[16325] doi:10.1080/20008066.2025.2508548 [paper, data]

Efficacy of psychosocial interventions on social functioning in individuals with childhood maltreatment experiences: a protocol for a systematic review and network meta-analysis.

Journal: European journal of psychotraumatology

Status: data only, 1 dataset cited

[16326] doi:10.1093/braincomms/fcaf216 [paper, repository]

Distinct clinical phenotypes and their neuroanatomic correlates in chronic traumatic brain injury.

Journal: Brain communications

Authors' code: kumarr14/TBI-Clinical-Phenotype-Project (no license)

Status: code verified, 2 files readable, 2 matches

[16327] doi:10.1093/braincomms/fcaf218 [paper, repository]

Determinants of brain network resilience after stroke.

Journal: Brain communications

Authors' code: JulianKlug/stroke-resilience (MIT)

Status: code verified, 77 files readable, 6 matches

[16328] doi:10.1093/pnasnexus/pgaf182 [paper, repository]

Remote sensing intelligent interpretation brain: Real-time intelligent understanding of the Earth.

Journal: PNAS nexus

Authors' code: pan.baidu.com/s/14tlfxbz5vqjgsmju7inuya (no license)

Status: code verified

[16329] doi:10.1101/2025.06.03.657596 [paper]

Heterogeneity in human brain clearance adds resilience against tauopathy – a computational model informed by glymphatic MRI

Journal: bioRxiv (preprint)

Status: code on request

[16330] doi:10.1101/2025.06.03.657632 [paper, repository]

High-dimensional neuronal activity from low-dimensional latent dynamics: a solvable model

Journal: bioRxiv (preprint)

Authors' code: nips.cc/public/guides (no license)

Status: code verified

[16331] doi:10.1101/2025.06.05.657930 [paper, data]

Auditory cortical coding of spectrotemporal modulations is sufficient to support perceptual categorization of speech and music

Journal: bioRxiv (preprint)

Status: code on request, 1 dataset cited

[16332] doi:10.1113/jp288197 [paper, repository]

Electrophysiological characterization of pre-adolescents born with intrauterine growth restriction: insights from clinical and computational data.

Journal: The Journal of physiology

Authors' code: Leo-Bueno/BSICoS-globular_hearts_simulation (CC-BY-4.0)

Status: code verified, 8 files readable

[16333] doi:10.1126/sciadv.adq2742 [paper, data]

Vimentin network dysregulation mediates neurite deficits in &lt;i&gt;SNCA&lt;/i&gt; duplication Parkinson's patient-derived midbrain neurons.

Journal: Science advances

Status: data only, 1 dataset cited

[16334] doi:10.1126/sciadv.adq7855 [paper, data]

Three-dimensional cell-cell interactions promote direct reprogramming of patient fibroblasts into functional and transplantable neurons.

Journal: Science advances

Status: data only, 1 dataset cited

[16335] doi:10.1126/sciadv.adq9990 [paper, repository]

Personalized deep neural networks reveal mechanisms of math learning disabilities in children.

Journal: Science advances

Authors' code: Zenodo 14503680 (CC-BY-4.0), scsnl/Strock_SciAdv_2025 (CC-BY-NC-4.0)

Status: code verified, 41 files readable, 9 matches

[16336] doi:10.1162/imag.a.27 [paper, repository]

Perception of social experiences and cortical thickness change together throughout early adolescence: Findings from the ABCD cohort.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF cmpnz (no license)

Status: code verified, 1 file readable, 1 match

[16337] doi:10.1162/imag.a.28 [paper, data]

Neural correlates of approach-avoidance tendencies toward physical activity and sedentary stimuli: An MRI study.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

[16338] doi:10.1186/s40658-025-00760-5 [paper, data]

Impact of image reconstruction on cerebral blood flow measured with &lt;sup&gt;15&lt;/sup&gt;O-water positron emission tomography.

Journal: EJNMMI physics

Status: data only, 2 datasets cited

[16339] doi:10.1242/bio.061867 [paper, data]

Persistent enteric neuroinflammation chronically impairs colonic motility in a pyridostigmine bromide-induced mouse model of Gulf War illness.

Journal: Biology open

Status: data only, 1 dataset cited

[16340] doi:10.1371/journal.pcbi.1013125 [paper, repository]

Fusing multisensory signals across channels and time.

Journal: PLoS computational biology

Authors' code: swathianil/Temporal_Nonlinear_fusion (MIT)

Status: code verified, 34 files readable, 3 matches

[16341] doi:10.1371/journal.pcbi.1013150 [paper, repository]

Nonequilibrium brain dynamics elicited as the origin of perturbative complexity.

Journal: PLoS computational biology

Authors' code: yonisanzperl/Perturbation_in_dynamical_models (no license), wiepstikvoort/Nonequilibrium-asymmetry-PCI (MIT)

Status: code verified, 85 files readable, 6 matches

[16342] doi:10.1371/journal.pone.0319004 [paper, data]

Leveraging technology to probe mechanisms of psychopathology: A proof of concept study of inhibitory control.

Journal: PloS one

Status: data only, 1 dataset cited

[16343] doi:10.1371/journal.pone.0323617 [paper, data]

Lateralized cerebellar connectivity differentiates auditory pathways in echolocating and non-echolocating whales.

Journal: PloS one

Status: data only, 1 dataset cited

[16344] doi:10.1371/journal.pone.0325510 [paper, data]

The effects of visual stimulation on the cortical activity of brainstem stroke dysphagia patients: A functional near-infrared spectroscopy study.

Journal: PloS one

Status: data only, 1 dataset cited

[16345] doi:10.14336/ad.2025.0596 [paper, data]

Age-dependent Transcriptional and Circuit Alterations in the brain Underlie Post-Anesthesia Neurobehavioral Dysfunction.

Journal: Aging and disease

Status: data only, 1 dataset cited

[16346] doi:10.3389/fcell.2025.1582924 [paper, repository]

Hedgehog signaling controls astral microtubules and mitotic spindle orientation in neural progenitors and iPSCs.

Journal: Frontiers in cell and developmental biology

Authors' code: amedyukhina/napari-filament-annotator (Apache-2.0)

Status: code verified, 20 files readable

[16347] doi:10.3390/brainsci15060612 [paper, repository]

Hybrid Deep Learning Architecture with Adaptive Feature Fusion for Multi-Stage Alzheimer's Disease Classification.

Journal: Brain sciences

Authors' code: MuhammadAhmad7171/Alzheimer-s-Disease-5C (MIT)

Status: code verified, 2 files readable, 1 match

[16348] doi:10.3390/brainsci15060613 [paper, repository]

Lightweight Brain Tumor Segmentation Through Wavelet-Guided Iterative Axial Factorization Attention.

Journal: Brain sciences

Authors' code: ZyySagit/WIAF-Brain-Tumor-Segmentation (no license)

Status: code verified, 2 files readable, 1 match

[16349] doi:10.3390/life15060921 [paper, data]

Psychiatric Implications of Genetic Variations in Oligodendrocytes: Insights from hiPSC Models.

Journal: Life (Basel, Switzerland)

Status: data only, 1 dataset cited

[16350] doi:10.3758/s13415-025-01318-9 [paper, data]

Lower reward sensitivity in frontostriatal stroke: Influence of depression and resting-state functional connectivity.

Journal: Cognitive, affective & behavioral neuroscience

Status: data only, 1 dataset cited

Thursday, 5 June 2025 (52 papers, 2 on this page)

[16351] doi:10.1002/advs.202417408 [paper, repository]

BrainFusion: a Low-Code, Reproducible, and Deployable Software Framework for Multimodal Brain‒Computer Interface and Brain‒Body Interaction Research.

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

Authors' code: lwh-scut/BrainFusion (BSD-3-Clause)

Status: code verified, 59 files readable, 12 matches

[16352] doi:10.1007/s11064-025-04432-9 [paper, repository]

An Open-Science Computational Model of Organelle Acidification to Integrate Putative Mechanisms of Synaptic Vesicle Acidification and Filling.

Journal: Neurochemical research

Authors' code: colab.research.google.com/drive/1fmforaui4oyfxsihx-d_h8yn3kjaspt- (no license), Synthetic-Physiology-Lab/SynapticVesicles (no license), colab.research.google.com/drive/1etv4i53z5igd20yoesyrfgfmiqymw502 (no license), colab.research.google.com/drive/12dsun_rb9_chnkmmaeye6zlxl27rclar (no license), colab.research.google.com/drive/1ibtqupabykc0ho2lel6o_aiuebu8cd93 (no license), colab.research.google.com/drive/1xpfqspki8kry1wut5jfovrhgaxpjgvp0 (no license)

Status: code verified, 8 files readable, 5 matches

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