Every paper, by date: page 74

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 74 of 200: 5 June 2025 to 1 June 2025.

Thursday, 5 June 2025 (52 papers, 50 on this page)

[16353] doi:10.1007/s11571-025-10266-6 [paper, data]

DMPat-based SOXFE: investigations of the violence detection using EEG signals.

Journal: Cognitive neurodynamics

Status: data only, 1 dataset cited

[16354] doi:10.1016/j.nicl.2025.103816 [paper, repository]

Idiopathic normal pressure hydrocephalus: A sulcal morphometry approach to brain phenotype and clinical response.

Journal: NeuroImage. Clinical

Authors' code: hub.docker.com/repository/docker (no license)

Status: code verified

[16355] doi:10.1016/j.nicl.2025.103817 [paper, repository]

Structural connectome manifold changes related to body mass index and their associations with eating psychopathology.

Journal: NeuroImage. Clinical

Authors' code: CAMIN-neuro/FuNP (no license), math.mcgill.ca/keith/surfstat (no license), sites.google.com/site/bctnet (no license), camin-neuro/caminopen (no license)

Status: code verified, 46 files readable, 8 matches

[16356] doi:10.1016/j.stemcr.2025.102512 [paper, data]

GSK3α negatively regulates GSK3β by decreasing its protein levels and enzymatic activity in mouse embryonic stem cells.

Journal: Stem cell reports

Status: code on request, 1 dataset cited

[16357] doi:10.1017/s0954579425100229 [paper, repository]

Longitudinal associations between the infant gut microbiome and negative affect in toddlerhood.

Journal: Development and psychopathology

Authors' code: OSF gnwzv (no license)

Status: code verified, 2 files readable

[16358] doi:10.1038/s41398-025-03395-3 [paper, data]

Sex and regional differences in gene expression across the striatum in psychosis.

Journal: Translational psychiatry

Status: data only, 1 dataset cited

[16359] doi:10.1038/s41398-025-03405-4 [paper]

Dim light at night induces depression-like behaviors during the postpartum period through circadian rhythm related pathways in mice.

Journal: Translational psychiatry

Status: code on request

[16360] doi:10.1038/s41467-025-60414-z [paper, repository]

Stimulus-specific and adaptive value representations in the basolateral amygdala in male mice.

Journal: Nature communications

Authors' code: fmi-basel/2Photon_Analysis (MIT)

Status: code verified, 291 files readable, 3 matches

[16361] doi:10.1038/s41467-025-60476-z [paper, repository]

A gatekeeper sympathetic control of lacrimal tear secretion and dry eye onset through the NA-Adra1a-Ucp2 pathway.

Journal: Nature communications

Authors' code: lixiaoyu1014/snrna-analysis-of-scop-sample (no license), Zenodo 15307689 (CC-BY-4.0)

Status: code verified, 2 files readable, 1 match

[16362] doi:10.1038/s41467-025-60532-8 [paper, data]

Control of epithelial tissue organization by mRNA localization.

Journal: Nature communications

Status: data only, 1 dataset cited

[16363] doi:10.1038/s41467-025-60583-x [paper, data]

β-propeller protein-associated neurodegeneration protein WDR45 regulates stress granule disassembly via phase separation with Caprin-1.

Journal: Nature communications

Status: data only, 1 dataset cited

[16364] doi:10.1038/s41562-025-02191-9 [paper, repository]

Protracted development of gaze behaviour.

Journal: Nature human behaviour

Authors' code: OSF ycrav (no license)

Status: code verified

[16365] doi:10.1038/s41592-025-02706-2 [paper, repository]

Krakencoder: a unified brain connectome translation and fusion tool.

Journal: Nature methods

Authors' code: kjamison/krakencoder (MIT), kjamison/fmriclean (MIT), opensource.org/license/mit (no license), OSF dfp92 (no license)

Status: code verified, 51 files readable, 18 matches

[16366] doi:10.1038/s41593-025-01982-7 [paper, repository]

Homeostasis of a representational map in the neocortex.

Journal: Nature neuroscience

Authors' code: doi:10.12751/g-node.2gxcrx (no license)

Status: code verified

[16367] doi:10.1038/s41597-025-05189-0 [paper, repository]

Psilocybin's acute and persistent brain effects: a precision imaging drug trial.

Journal: Scientific data

Authors' code: siegelandthebrain1/Psilocybin_PFM (no license), siegelandthebrain1/PSIL_PFM (no license), MidnightScanClub/SCAN (MIT), 4dfp.readthedocs.io (no license)

Status: code verified, 618 files readable, 2 matches

[16368] doi:10.1038/s41598-025-03151-z [paper, repository]

A 3D lightweight network with Roberts edge enhancement model (LR-Net) for brain tumor segmentation.

Journal: Scientific reports

Authors' code: woaierxu/LR-Net (no license)

Status: code verified, 29 files readable, 3 matches

[16369] doi:10.1038/s41598-025-94742-3 [paper, data]

Brain lateralization for perceiving direction of motion is reversed in Williams syndrome and related to BUD23.

Journal: Scientific reports

Status: data only, 1 dataset cited

[16370] doi:10.1038/s41698-025-00964-z [paper]

TRIM65 regulates glucose metabolic reprogramming to promote glioma cell proliferation via ubiquitination and degradation of AMPK.

Journal: NPJ precision oncology

Status: code on request

[16371] doi:10.1038/s42003-025-08289-0 [paper, data]

Thalamic input to the lateral amygdala determines the temporal window of fear-memory association.

Journal: Communications biology

Status: data only, 1 dataset cited

[16372] doi:10.1038/s42003-025-08304-4 [paper, repository]

Preemptive transcranial direct current stimulation mitigates susceptibility to persistent pain.

Journal: Communications biology

Authors' code: OSF 7gqwh (no license)

Status: code verified, 4 files readable, 1 match

[16373] doi:10.1038/s42003-025-08323-1 [paper, repository]

Distinct functional domains of Dystroglycan regulate inhibitory synapse formation and maintenance in cerebellar Purkinje cells.

Journal: Communications biology

Authors' code: jnjahncke/mini_analysis (MIT)

Status: empty repository, 2 files readable

[16374] doi:10.1042/cs20242943 [paper, repository]

Elevated phenylacetylglutamine caused by gut dysbiosis associated with type 2 diabetes increases neutrophil extracellular traps formation and exacerbates brain infarction.

Journal: Clinical science (London, England : 1979)

Authors' code: bbuchfink/diamond (GPL-3.0)

Status: code verified, 461 files readable

[16375] doi:10.1073/pnas.2419960122 [paper, repository]

Physics of notochord tube expansion in ascidians.

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

Authors' code: WenjieShi8514/Physics_tube (no license), Zenodo 15005334 (CC-BY-4.0)

Status: code verified, 11 files readable, 9 matches

[16376] doi:10.1073/pnas.2422396122 [paper, data]

Shared disbelief and shared belief: Belief and disbelief as drivers of interpersonal neural synchronization during narrative processing.

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

Status: data only, 1 dataset cited

[16377] doi:10.1073/pnas.2501225122 [paper, repository]

Assembly of a functional neuronal circuit in embryos of an ancestral metazoan is influenced by temperature and the microbiome.

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

Authors' code: ChNoack-Ki/Hydra-Embryos (no license)

Status: code verified, 32 files readable, 3 matches

[16378] doi:10.1101/2025.06.02.657387 [paper, data]

Receptor-enriched analysis of functional connectivity (REACT) for understanding cannabinoid neuropsychopharmacology

Journal: bioRxiv (preprint)

Status: data only, 1 dataset cited

[16379] doi:10.1101/2025.06.04.657818 [paper, repository]

A High-Resolution Atlas of the Brain Predicts Lineage and Birth Order Underly Neuronal Identity

Journal: bioRxiv (preprint)

Authors' code: JaneliaSciComp/VVDViewer (BSD-3-Clause), aaron-allen/Dmel-adult-central-brain-atlas (no license), SGDDNB/ShinyCell (GPL-3.0), Zenodo 17513514 (CC-BY-4.0), Zenodo 17513513 (CC-BY-4.0)

Status: code verified, 1,357 files readable, 8 matches

[16380] doi:10.1128/spectrum.02536-24 [paper, data]

Gut microbiota regulates the brain metabolism of sexually mature drones.

Journal: Microbiology spectrum

Status: data only, 2 datasets cited

[16381] doi:10.1162/imag.a.20 [paper, repository]

Electrophysiological signatures of ongoing thoughts during naturalistic behavior.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF 9hrny (no license)

Status: code verified, 15 files readable, 7 matches

[16382] doi:10.1162/imag.a.24 [paper]

Visual body part representation of the lateral occipitotemporal cortex in individuals with autism spectrum disorder: A univariate and multivariate fMRI study.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

[16383] doi:10.1186/s12880-025-01721-1 [paper, data]

StrokeNeXt: an automated stroke classification model using computed tomography and magnetic resonance images.

Journal: BMC medical imaging

Status: data only, 1 dataset cited

[16384] doi:10.1186/s12974-025-03479-3 [paper, data]

Circulating T cell atlas in Moyamoya disease: insights into immunopathogenesis of cerebrovascular disorders.

Journal: Journal of neuroinflammation

Status: data only, 1 dataset cited

[16385] doi:10.1212/nxi.0000000000200414 [paper, repository]

Glymphatic System May Mediate the Relation Between Choroid Plexus and Brain Damage in Multiple Sclerosis.

Journal: Neurology(R) neuroimmunology & neuroinflammation

Authors' code: sunhongfu/QSM (MIT)

Status: code verified, 165 files readable, 4 matches

[16386] doi:10.1371/journal.pbio.3003174 [paper, repository]

Neural evidence that humans reuse strategies to solve new tasks.

Journal: PLoS biology

Authors' code: gin.g-node.org/sam.hall-mcmaster/sfgpi-behavioural-analysis (CC-BY-SA-4.0), gin.g-node.org/sam.hall-mcmaster/sfgpi-neural-analysis (CC-BY-SA-4.0), gin.g-node.org/sam.hall-mcmaster/sfgpi-task (CC-BY-SA-4.0), gin.g-node.org/sam.hall-mcmaster/sfgpi-masks (CC-BY-SA-4.0), gin.g-node.org/sam.hall-mcmaster/sfgpi-tools (no license), gin.g-node.org/sam.hall-mcmaster (no license), doi:10.12751/g-node.x9fxqi (no license), doi:10.12751/g-node.d5t523 (no license), doi:10.12751/g-node.h9fig8 (no license), doi:10.12751/g-node.ssn8qj (no license), doi:10.12751/g-node.5wr9hz (no license), doi:10.12751/g-node.9w4ee3 (no license), doi:10.12751/g-node.ntc8nq (no license), doi:10.12751/g-node.zpjw9f (no license)

Status: code verified, 85 files readable, 25 matches

[16387] doi:10.1371/journal.pbio.3003180 [paper, repository]

Sensory stimuli dominate over rhythmic electrical stimulation in modulating behavior.

Journal: PLoS biology

Authors' code: Zenodo 15230985 (MIT), ycabralcalderin/cabral-calderin-henry-entrainment-audio-tacs (MIT)

Status: code verified, 70 files readable, 11 matches

[16388] doi:10.1371/journal.pbio.3003186 [paper, repository]

Embodiment of an artificial limb in mice.

Journal: PLoS biology

Authors' code: Zenodo 14635566 (CC-BY-4.0)

Status: code verified, 2 files readable

[16389] doi:10.1371/journal.pcbi.1013105 [paper, repository]

A mathematical model suggests collectivity and inconstancy enhance the efficiency of neuronal migration in the adult brain.

Journal: PLoS computational biology

Authors' code: supp:PMC12140228/pcbi.1013105.s013.zip (no license)

Status: code verified, 3 files readable

[16390] doi:10.1371/journal.pone.0317482 [paper, data]

IFN-γ signaling is required for the efficient replication of murine hepatitis virus (MHV) strain JHM in the brains of infected mice.

Journal: PloS one

Status: data only, 1 dataset cited

[16391] doi:10.1371/journal.pone.0319031 [paper, repository]

SPectral graph theory And Random walK (SPARK) toolbox for static and dynamic characterization of (di)graphs: A tutorial.

Journal: PloS one

Authors' code: AndreaRani/SPARK (GPL-3.0)

Status: code verified, 60 files readable, 20 matches

[16392] doi:10.1371/journal.pone.0324081 [paper, repository]

Recognition of flight cadets brain functional magnetic resonance imaging data based on machine learning analysis.

Journal: PloS one

Authors' code: figshare 28608278 (CC-BY-4.0)

Status: code verified

[16393] doi:10.1371/journal.pone.0325248 [paper, data]

Variants in Lrrk2 and Snca deficiency do not alter the course of primary encephalitis due to neurotropic reovirus T3D in newborn mice.

Journal: PloS one

Status: data only, 1 dataset cited

[16394] doi:10.21769/bioprotoc.5338 [paper, repository]

Local Iontophoretic Application for Pharmacological Induction of Long-Term Synaptic Depression.

Journal: Bio-protocol

Authors' code: wisstock/domb-napari (MIT), Zenodo 14843771 (MIT)

Status: code verified, 13 files readable, 7 matches

[16395] doi:10.3389/fphar.2025.1516836 [paper, data]

Zileuton protects against arachidonic acid/5-lipoxygenase/leukotriene axis-mediated neuroinflammation in experimental traumatic brain injury.

Journal: Frontiers in pharmacology

Status: data only, 1 dataset cited

[16396] doi:10.3390/diagnostics15111441 [paper, data]

Connectogram-COH: A Coherence-Based Time-Graph Representation for EEG-Based Alzheimer's Disease Detection.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 1 dataset cited

[16397] doi:10.3390/metabo15060371 [paper, repository]

Comparison of the Metabolic Profiles Associated with Protonitazene and Protonitazepyne in Two Severe Poisonings.

Journal: Metabolites

Authors' code: legifrance.gouv.fr/codes/article_lc (no license)

Status: code found, still to be checked

[16398] doi:10.3758/s13415-025-01306-z [paper]

The reward positivity is insensitive to reinforcer devaluation.

Journal: Cognitive, affective & behavioral neuroscience

Status: code on request

[16399] doi:10.7554/elife.100123 [paper, data]

Imaging of brain electric field networks with spatially resolved EEG.

Journal: eLife

Status: data only, 1 dataset cited

[16400] doi:10.7554/elife.101769 [paper, repository]

Context-dependent modulations of subthalamo-cortical synchronization during rapid reversals of movement direction in Parkinson's disease.

Journal: eLife

Authors' code: luciewinkler/Subthalamo-Cortical-Synchronization (MIT)

Status: code verified, 41 files readable, 7 matches

[16401] doi:10.7554/elife.103069 [paper, repository]

Hierarchy between forelimb premotor and primary motor cortices and its manifestation in their firing patterns.

Journal: eLife

Authors' code: mirilab-code/forelimbhierarchy (MIT)

Status: code verified, 633 files readable, 12 matches

[16402] doi:10.7554/elife.95127 [paper, repository]

Uncertainty-modulated prediction errors in cortical microcircuits.

Journal: eLife

Authors' code: k47h4/UPE (MIT)

Status: code verified, 45 files readable, 1 match

Wednesday, 4 June 2025 (57 papers)

[16403] doi:10.1002/mrm.30552 [paper, repository]

Diffusion MRI in the cortex of the brain: Reducing partial volume effects from CSF and white matter in the mean diffusivity using high b-values and spherical b-tensor encoding.

Journal: Magnetic resonance in medicine

Authors' code: filip-szczepankiewicz/Vis_NIMG_2021 (BSD-3-Clause), mvgolub/FW-DTI-Beltrami (BSD-3-Clause)

Status: code verified, 35 files readable, 2 matches

[16404] doi:10.1007/s00422-025-01011-7 [paper, repository]

Decreased spinal inhibition leads to undiversified locomotor patterns.

Journal: Biological cybernetics

Authors' code: Zenodo 13981334 (CC-BY-4.0)

Status: code verified, 5 files readable, 7 matches

[16405] doi:10.1007/s12035-025-05100-3 [paper, data]

Differentiation of SH-SY5Y Cells into Cortical Neuron-like Cells for Tauopathy Modeling and Seeding Assays.

Journal: Molecular neurobiology

Status: data only, 1 dataset cited

[16406] doi:10.1016/j.celrep.2025.115782 [paper, repository]

The transcriptome of playfulness is sex biased in the juvenile rat medial amygdala: A role for inhibitory neurons.

Journal: Cell reports

Authors' code: ncbi.nlm.nih.gov/geo/query (no license)

Status: code verified

[16407] doi:10.1016/j.celrep.2025.115808 [paper, repository]

Spatio-temporal organization of network activity patterns in the hippocampus.

Journal: Cell reports

Authors' code: Zenodo 15275527 (CC-BY-4.0), vitorlds/hipp-lfp-embedding (no license)

Status: code verified, 18 files readable, 3 matches

[16408] doi:10.1016/j.cub.2025.05.034 [paper]

Oxytocin facilitates human touch-induced play behavior in rats.

Journal: Current biology : CB

Status: code on request

[16409] doi:10.1016/j.isci.2025.112821 [paper]

Theta-encoded information flow from dorsal CA1 to prelimbic cortex drives memory reconsolidation.

Journal: iScience

Status: code on request

[16410] doi:10.1016/j.mcpro.2025.101012 [paper, data]

Soluble VCAM-1 May Serve as a Pharmacodynamic CSF Marker to Monitor BACE2 Activity in Non-Human Primates.

Journal: Molecular & cellular proteomics : MCP

Status: code on request, 1 dataset cited

[16411] doi:10.1038/s41398-025-03409-0 [paper]

Family history, inflammation, and cerebellum in major depression: a combined VBM and dynamic functional connectivity study.

Journal: Translational psychiatry

Status: code on request

[16412] doi:10.1038/s41467-025-59659-5 [paper, repository]

Perinatal serotonin signalling dynamically influences the development of cortical GABAergic circuits with consequences for lifelong sensory encoding.

Journal: Nature communications

Authors' code: Butt-lab (no license)

Status: code verified

[16413] doi:10.1038/s41467-025-60328-w [paper, repository]

Intracellular accumulation of amyloid-ß is a marker of selective neuronal vulnerability in Alzheimer's disease.

Journal: Nature communications

Authors' code: figshare 27909663 (CC-BY-4.0), AlessiaCaramello/Vulnerable-neurons-in-AD (no license), Zenodo 15150093 (CC-BY-4.0)

Status: code verified, 30 files readable, 20 matches

[16414] doi:10.1038/s41467-025-60474-1 [paper, data]

Brown adipose tissue secretes OLFM4 to coordinate sensory and sympathetic innervation via Schwann cells.

Journal: Nature communications

Status: data only, 1 dataset cited

[16415] doi:10.1038/s41467-025-60545-3 [paper, repository]

Reduction of SEM charging artefacts in native cryogenic biological samples.

Journal: Nature communications

Authors' code: rosalindfranklininstitute/fib-sem-charge-mitigation (Apache-2.0), sklumpe/SerialFIB (GPL-3.0), Zenodo 15350835 (Apache-2.0)

Status: code verified, 46 files readable, 4 matches

[16416] doi:10.1038/s41586-025-09037-4 [paper, repository]

Molecular gradients shape synaptic specificity of a visuomotor transformation.

Journal: Nature

Authors' code: bjhardcastle/SlidebookObj (MIT), avaccari/DrosophilaFISH (GPL-3.0), avaccari/DrosophilaCon (GPL-3.0), google/neuroglancer (Apache-2.0), kurmangaliyev-lab (no license), avaccari/DrosophilaVPNWiring (GPL-3.0)

Status: code verified, 1,014 files readable, 2 matches

[16417] doi:10.1038/s41586-025-09052-5 [paper, repository]

Increased CSF drainage by non-invasive manipulation of cervical lymphatics.

Journal: Nature

Authors' code: Zenodo 15172410 (CC-BY-4.0), Zenodo 8286107 (CC-BY-4.0), Zenodo 8286119 (CC-BY-4.0), Zenodo 8286108 (CC-BY-4.0), Zenodo 8286120 (CC-BY-4.0)

Status: code verified, 1 file readable

[16418] doi:10.1038/s41593-025-01986-3 [paper, repository]

Formation of an expanding memory representation in the hippocampus.

Journal: Nature neuroscience

Authors' code: figshare 28628939 (CC-BY-4.0)

Status: code verified

[16419] doi:10.1038/s41597-025-05117-2 [paper, repository]

Updating TCGA glioma classification through integration of molecular data following the latest WHO guidelines.

Journal: Scientific data

Authors' code: sysbiomed/MONET (no license)

Status: code verified, 6 files readable, 4 matches

[16420] doi:10.1038/s41597-025-05247-7 [paper, repository]

HCP Multi-Pipeline: a derived dataset to investigate analytical variability in fMRI.

Journal: Scientific data

Authors' code: gitlab.inria.fr/egermani/hcp_pipelines (MIT), swh:/browse/snapshot/17870c3d782aa25a7ffdd6165fe27ce6eac6c90b/directory/ (no license), hub.docker.com/r/elodiegermani (no license)

Status: code verified, 22 files readable, 7 matches

[16421] doi:10.1038/s41597-025-05268-2 [paper, repository]

Unveiling the Spatiotemporal Dynamics of Global Brain Circulation: A Comprehensive Corpus (2000-2024).

Journal: Scientific data

Authors' code: Computational-social-science (no license)

Status: code verified

[16422] doi:10.1038/s41598-025-01882-7 [paper, repository]

Optimal graph representations and neural networks for multichannel time series data in seizure phase classification.

Journal: Scientific reports

Authors' code: Richqrd/bgreg-main-public (no license)

Status: code verified, 82 files readable, 18 matches

[16423] doi:10.1038/s42003-025-08128-2 [paper, repository]

Monoallelic gene expression in developing cells increases genetic noise and Shannon entropy.

Journal: Communications biology

Authors' code: epinoise/scbiasnoise (GPL-3.0), epinoise/genexpsim (GPL-3.0), epinoise/star-align-ase (GPL-3.0), doi:10.12751/g-node.xlvv9e (no license), doi:10.12751/g-node.89c3z3 (no license), doi:10.12751/g-node.7knth1 (no license)

Status: code verified, 35 files readable, 6 matches

[16424] doi:10.1038/s42003-025-08140-6 [paper, data]

Synaptic potentiation of engram cells is necessary and sufficient for context fear memory.

Journal: Communications biology

Status: data only, 1 dataset cited

[16425] doi:10.1038/s42003-025-08231-4 [paper, repository]

Structural-functional brain network coupling during cognitive demand reveals intelligence-relevant communication strategies.

Journal: Communications biology

Authors' code: civier/HCP-dMRI-connectome (MIT), faskowit/app-fmri-2-mat (MIT), jonasAthiele/BrainReconfiguration_Intelligence (no license), brain-networks/local_scfc (no license), johannaleapopp/SC_FC_Coupling_Task_Intelligence (no license), Zenodo 15348080 (CC-BY-4.0)

Status: code verified, 223 files readable, 5 matches

[16426] doi:10.1038/s44277-025-00032-1 [paper, repository]

Predicting cognitive functioning in early psychosis: factors supporting and limiting generalizability of connectome-based models.

Journal: NPP - digital psychiatry and neuroscience

Authors' code: heryilmaz/CogPred_HCP_EP (no license)

Status: code verified, 16 files readable, 6 matches

[16427] doi:10.1091/mbc.e24-11-0500 [paper]

Delamination of epithelia induced by air-liquid interfaces.

Journal: Molecular biology of the cell

Status: code on request

[16428] doi:10.1093/braincomms/fcaf217 [paper, data]

Unveiling covert disownership after stroke: a neuropsychological and neural approach.

Journal: Brain communications

Status: data only, 1 dataset cited

[16429] doi:10.1098/rsbl.2025.0193 [paper, repository]

Correction: Habitat complexity influences neuron number in six species of Puerto Rican <i>Anolis</i>.

Journal: Biology letters

Authors' code: doi:10.6084/m9.figshare.c.7043223 (no license)

Status: code found, still to be checked

[16430] doi:10.1098/rsif.2024.0880 [paper, repository]

Dynamic causal modelling in probabilistic programming languages.

Journal: Journal of the Royal Society, Interface

Authors' code: ins-amu/DCM_PPLs (GPL-3.0), doi:10.6084/m9.figshare.c.7803859 (no license)

Status: code verified, 33 files readable, 5 matches

[16431] doi:10.1098/rspb.2024.2880 [paper, repository]

Humans use underestimates of auditory spatial and temporal uncertainty for perceptual inference.

Journal: Proceedings. Biological sciences

Authors' code: OSF pdcw4 (no license), doi:10.6084/m9.figshare.c.7831779 (no license)

Status: code verified, 339 files readable, 9 matches

[16432] doi:10.1101/2025.06.02.657367 [paper, repository]

Animate-inanimate object categorization from minimal visual information in the human brain, human behavior, and deep neural networks

Journal: bioRxiv (preprint)

Authors' code: brialorelle/texformgen (no license)

Status: code verified, 186 files readable

[16433] doi:10.1101/2025.06.04.657833 [paper, repository]

A Role for Exaptation in Sculpting Sexually Dimorphic Brains from Shared Neural Lineages

Journal: bioRxiv (preprint)

Authors' code: aaron-allen/Dmel-adult-central-brain-atlas (no license), SGDDNB/ShinyCell (GPL-3.0), JaneliaSciComp/VVDViewer (BSD-3-Clause), Zenodo 17513514 (CC-BY-4.0), Zenodo 17513513 (CC-BY-4.0)

Status: code verified, 1,357 files readable, 6 matches

[16434] doi:10.1111/acel.70106 [paper, repository]

Cross-Analysis of Single-Cell Transcriptomic Datasets Reveals Conserved Neurogenic Gene Signatures and New Insights Into Neural Stem Cell Aging.

Journal: Aging cell

Authors' code: OPolzer/aNSC_scRNAseq_comparison (no license)

Status: code verified, 4 files readable, 10 matches

[16435] doi:10.1111/epi.18487 [paper, repository]

Harvard Electroencephalography Database: A comprehensive clinical electroencephalographic resource from four Boston hospitals.

Journal: Epilepsia

Authors' code: bdsp-core/iiic-sparcnet (other), chengstark/protopmed-eeg (other)

Status: code verified, 73 files readable

[16436] doi:10.1126/sciadv.adr8164 [paper, repository]

Adolescent maturation of cortical excitation-inhibition ratio based on individualized biophysical network modeling.

Journal: Science advances

Authors' code: cubnm.readthedocs.io (no license), amnsbr/bnm_cuda (no license), amnsbr/eidev (no license), Zenodo 12097081 (CC-BY-4.0), Zenodo 12097805 (CC-BY-4.0), Zenodo 14246606 (CC-BY-4.0)

Status: code verified, 336 files readable, 18 matches

[16437] doi:10.1126/sciadv.ads2689 [paper, data]

Diversity and complexity of auditory representation in the hearing systems of <i>Aedes aegypti</i> mosquitoes.

Journal: Science advances

Status: data only, 3 datasets cited

[16438] doi:10.1126/sciadv.adw7080 [paper, data]

Inhibition of acute lung inflammation by a neuroimmune circuit induced by vagal nerve stimulation.

Journal: Science advances

Status: data only, 1 dataset cited

[16439] doi:10.1162/imag.a.31 [paper, repository]

Brain wiring economics, network organisation and population-level genomics.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: AlicjaMonaghan/abcd_genes_brain_cognition (no license)

Status: code verified, 21 files readable, 30 matches

[16440] doi:10.1186/s13024-025-00850-z [paper, data]

The UNC5C T835M mutation associated with Alzheimer's disease leads to neurodegeneration involving oxidative stress and hippocampal atrophy in aged mice.

Journal: Molecular neurodegeneration

Status: data only, 1 dataset cited

[16441] doi:10.1186/s13059-025-03619-1 [paper, repository]

Identifying associations of de novo noncoding variants with autism through integration of gene expression, sequence, and sex information.

Journal: Genome biology

Authors' code: ernstlab/ENSAS (MIT)

Status: code verified, 3 files readable, 2 matches

[16442] doi:10.1186/s13229-025-00667-z [paper, repository]

Subgrouping autism and ADHD based on structural MRI population modelling centiles.

Journal: Molecular autism

Authors' code: evarol/HYDRA (other), clarapecci/subgrouping_autism_adhd_population_modelling (GPL-3.0)

Status: code verified, 13 files readable, 7 matches

[16443] doi:10.1186/s40708-025-00260-3 [paper, data]

Advancing Alzheimer's disease detection: a novel convolutional neural network based framework leveraging EEG data and segment length analysis.

Journal: Brain informatics

Status: data only, 1 dataset cited

[16444] doi:10.1371/journal.pcbi.1013041 [paper, repository]

Adaptation across the 2D population code explains the spatially distributive nature of motor learning.

Journal: PLoS computational biology

Authors' code: Zenodo 15298976 (CC-BY-4.0)

Status: code verified, 5 files readable, 5 matches

[16445] doi:10.1371/journal.pcbi.1013082 [paper, repository]

A detailed kinetic model of Eastern equine encephalitis virus replication in a susceptible host cell.

Journal: PLoS computational biology

Authors' code: LarkinIt/EEEV-Replication-Model (MIT)

Status: code verified, 19 files readable, 19 matches

[16446] doi:10.1371/journal.pcbi.1013084 [paper, repository]

Isolating single cycles of neural oscillations in population spiking.

Journal: PLoS computational biology

Authors' code: esiabri/isocycle (CC-BY-NC-SA-4.0), figshare 1 (no license)

Status: code verified, 12 files readable, 1 match

[16447] doi:10.1371/journal.pcbi.1013099 [paper, repository]

GABAergic neurons can facilitate the propagation of cortical spreading depolarization: experiments in mouse neocortical slices and a novel neural field computational model.

Journal: PLoS computational biology

Authors' code: Zenodo 14230278 (CC-BY-4.0), emrebasp/a-neural-field-model-for-cortical-spreading-depression (CC0-1.0)

Status: code verified, 42 files readable, 2 matches

[16448] doi:10.1371/journal.pone.0323756 [paper, data]

Genome-wide DNA methylation analysis of hippocampal tissue in a murine model of attention deficit-hyperactivity disorder.

Journal: PloS one

Status: data only, 1 dataset cited

[16449] doi:10.18632/aging.206266 [paper, repository]

DoliClock: a lipid-based aging clock reveals accelerated aging in neurological disorders.

Journal: Aging

Authors' code: ddlatumalea/DoliClock-2.0 (no license)

Status: dead link

[16450] doi:10.3389/fncom.2025.1598138 [paper, repository]

Neural oscillation in low-rank SNNs: bridging network dynamics and cognitive function.

Journal: Frontiers in computational neuroscience

Authors' code: LiBinUtokyo/LowRank_ModifiedTheta_SNN (MIT)

Status: code verified, 6 files readable, 4 matches

[16451] doi:10.3389/fneur.2025.1548322 [paper]

Exploring sphingolipid metabolism-related biomarkers for Parkinson's disease: a transcriptomic analysis.

Journal: Frontiers in neurology

Status: data only

[16452] doi:10.3389/fnhum.2025.1569411 [paper, repository]

Hybrid brain-computer interface using error-related potential and reinforcement learning.

Journal: Frontiers in human neuroscience

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

Status: dead link

[16453] doi:10.3389/fnimg.2025.1480807 [paper, data]

Efficient Fourier base fitting on masked or incomplete structured data.

Journal: Frontiers in neuroimaging

Status: data only, 1 dataset cited

[16454] doi:10.3389/fninf.2025.1544143 [paper, repository]

NESTML: a generic modeling language and code generation tool for the simulation of spiking neural networks with advanced plasticity rules.

Journal: Frontiers in neuroinformatics

Authors' code: Zenodo 7193351 (GPL-2.0)

Status: code verified

[16455] doi:10.3389/fpsyt.2025.1586613 [paper, data]

Correlation study of BDNF/TrkB/CREB, violence, and cognitive function in first-episode drug-naive schizophrenia patients.

Journal: Frontiers in psychiatry

Status: data only, 1 dataset cited

[16456] doi:10.3390/bios15060358 [paper, data]

Sensing of Volatile Organic Compounds by Haller's Structure in Ixodidae Tick: Electroscutumography and Olfactometric Bioassay.

Journal: Biosensors

Status: data only, 1 dataset cited

[16457] doi:10.3390/brainsci15060603 [paper, repository]

Exploring Neural Signaling Patterns and Their Physiological Origins in Fibromyalgia by Means of Functional MRI Guided by a Review of the Literature.

Journal: Brain sciences

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

Status: code verified, 32 files readable, 1 match

[16458] doi:10.3390/brainsci15060607 [paper, data]

The Role of the Sentence Constraint in New Word Acquisition While Reading in Adolescents: The ERP N400 and P600 and Reading-Related Skills.

Journal: Brain sciences

Status: data only, 1 dataset cited

[16459] doi:10.3390/brainsci15060610 [paper, repository]

Alterations in Olfactory Cortex Volume in Mild Cognitive Impairment and Mild Alzheimer's Disease Dementia: A Study of Sex-Related Differences.

Journal: Brain sciences

Authors' code: www0.cs.ucl.ac.uk/staff/g.ridgway (no license)

Status: code verified

Tuesday, 3 June 2025 (45 papers)

[16460] doi:10.1007/s00234-025-03661-7 [paper, repository]

Prediction of etiology and prognosis based on hematoma location of spontaneous intracerebral hemorrhage: a multicenter diagnostic study.

Journal: Neuroradiology

Authors' code: JLhos-fmri/SPLSM_version1.0 (GPL-3.0)

Status: code verified, 59 files readable, 1 match

[16461] doi:10.1007/s00401-025-02890-7 [paper, repository]

Immunohistochemical evaluation of a trial of gantenerumab or solanezumab in dominantly inherited Alzheimer disease.

Journal: Acta neuropathologica

Authors' code: ysu001/PUP (BSD-3-Clause)

Status: code verified, 277 files readable

[16462] doi:10.1007/s11682-025-01023-8 [paper, repository]

White matter microstructural alterations and brain metabolism distributions in Parkinson's disease.

Journal: Brain imaging and behavior

Authors' code: jyeatman/AFQ (gnu)

Status: code verified, 165 files readable, 6 matches

[16463] doi:10.1007/s12021-025-09733-6 [paper, repository]

Estimation of Task-Related Dynamic Brain Connectivity via Data Inflation and Classification Model Explainability.

Journal: Neuroinformatics

Authors' code: Zenodo 14692736 (CC-BY-4.0)

Status: code verified, 25 files readable, 9 matches

[16464] doi:10.1016/j.celrep.2025.115768 [paper, repository]

Vasopressin and oxytocin excite BNST neurons via oxytocin receptors, which reduce anxious arousal.

Journal: Cell reports

Authors' code: Zenodo 15238413 (CC-BY-4.0), nsdesai/patch_clamp_analysis (no license)

Status: code verified, 36 files readable, 4 matches

[16465] doi:10.1016/j.celrep.2025.115777 [paper, data]

Astrocyte induction of disease-associated microglia is suppressed by acute exposure to fAD neurons in human iPSC triple cultures.

Journal: Cell reports

Status: code on request, 1 dataset cited

[16466] doi:10.1016/j.isci.2025.112491 [paper, repository]

Learning-efficient spiking neural networks with multi-compartment spatio-temporal backpropagation.

Journal: iScience

Authors' code: fangwei123456/spikingjelly (Apache-2.0)

Status: code verified, 513 files readable, 1 match

[16467] doi:10.1016/j.isci.2025.112816 [paper, data]

Genetically encoded and modular subcellular organelle probes reveal dysfunction in lysosomes and mitochondria driven by PRKN knockout.

Journal: iScience

Status: code on request, 1 dataset cited

[16468] doi:10.1016/j.neuroimage.2025.121304 [paper, data]

Assessing the impact of artifact correction and artifact rejection on the performance of SVM- and LDA-based decoding of EEG signals.

Journal: NeuroImage

Status: data only, 1 dataset cited

[16469] doi:10.1016/j.xops.2025.100842 [paper, data]

Retinal Structures in Autism Spectrum Disorder: Results from a Case-Control Study.

Journal: Ophthalmology science

Status: data only, 1 dataset cited

[16470] doi:10.1016/j.xpro.2025.103870 [paper, repository]

Protocol for assisting frequency band definition and decoding neural dynamics using hierarchical clustering and multivariate pattern analysis.

Journal: STAR protocols

Authors' code: Zenodo 14697222 (CC-BY-4.0)

Status: code verified

[16471] doi:10.1038/s41398-025-03404-5 [paper, repository]

Longitudinal stability of mood-related resting-state networks in youth with symptomatic bipolar-I/II disorder.

Journal: Translational psychiatry

Authors' code: danella/BDLONG_Analysis (no license)

Status: code verified, 2 files readable

[16472] doi:10.1038/s41467-025-59612-6 [paper, repository]

Sonic hedgehog medulloblastomas are dependent on Netrin-1 for survival.

Journal: Nature communications

Authors' code: gitlab.curie.fr/data-analysis/vegan (no license), bioinfo-pf-curie/RNA-seq (CECILL-2.1)

Status: code verified, 17 files readable

[16473] doi:10.1038/s41467-025-60187-5 [paper]

Forebrain neural progenitors effectively integrate into host brain circuits and improve neural function after ischemic stroke.

Journal: Nature communications

Status: data only

[16474] doi:10.1038/s41467-025-60361-9 [paper, repository]

Sequential emergence and contraction of epithelial subtypes in the prenatal human choroid plexus revealed by a stem cell model.

Journal: Nature communications

Authors' code: jinworks/CellChat (GPL-3.0), satijalab.org/seurat/articles (no license), wagnerde/STITCH (BSD-2-Clause), wangshuxiong/soptsc (MIT)

Status: code verified, 310 files readable, 6 matches

[16475] doi:10.1038/s41467-025-60435-8 [paper, repository]

Three dimensional multiscalar neurovascular nephron connectivity map of the human kidney across the lifespan.

Journal: Nature communications

Authors' code: JainLabWUSM/lightsheetsubmission (CC-BY-NC-SA-4.0), pypi.org/project/nettracer3d (no license), codeocean:0676884 (no license)

Status: code verified, 28 files readable, 20 matches

[16476] doi:10.1038/s41522-025-00737-3 [paper]

TSP50 deficiency in neural stem cells aggravates colitis in mice by altering intestinal microbiome.

Journal: NPJ biofilms and microbiomes

Status: data only

[16477] doi:10.1038/s41531-025-00950-z [paper]

Proinflammatory and GABA eating bacteria in Parkinson's disease gut microbiome from a meta-analysis prospective.

Journal: NPJ Parkinson's disease

Status: code on request

[16478] doi:10.1038/s41598-025-04347-z [paper, repository]

Navigation in brain networks is possible using only local measures.

Journal: Scientific reports

Authors' code: usidramki/usidramki1 (no license)

Status: code verified, 8 files readable

[16479] doi:10.1038/s41598-025-98653-1 [paper, data]

A novel EEG artifact removal algorithm based on an advanced attention mechanism.

Journal: Scientific reports

Status: data only, 1 dataset cited

[16480] doi:10.1038/s42003-025-08235-0 [paper, repository]

The genomics of the domestication syndrome in a songbird model species.

Journal: Communications biology

Authors' code: madzafv/SongbirdDomesticationGenomics (no license)

Status: dead link

[16481] doi:10.1038/s44271-025-00270-1 [paper, repository]

Decoding words during sentence production with ECoG reveals syntactic role encoding and structure-dependent temporal dynamics.

Journal: Communications psychology

Authors' code: OSF geuty (no license)

Status: code verified, 57 files readable, 6 matches

[16482] doi:10.1038/s44318-025-00455-8 [paper, repository]

Epigenetic regulation of neural stem cell aging in the mouse hippocampus by Setd8 downregulation.

Journal: The EMBO journal

Authors' code: alexdobin/STAR (MIT), deweylab/RSEM (GPL-3.0)

Status: code verified, 718 files readable

[16483] doi:10.1038/s44400-025-00010-6 [paper, data]

Multiplex digital spatial profiling identifies subregion dependent targeted proteome changes across variants of dementia.

Journal: NPJ dementia

Status: data only, 1 dataset cited

[16484] doi:10.1073/pnas.2402557122 [paper, repository]

Disrupted diencephalon development and neuropeptidergic pathways in zebrafish with autism-risk mutations.

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

Authors' code: thymelab (no license)

Status: code verified

[16485] doi:10.1073/pnas.2416541122 [paper, data]

Transcranial direct current stimulation neuromodulates intracranial cognitive evoked activity in humans.

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

Status: data only, 1 dataset cited

[16486] doi:10.1073/pnas.2423367122 [paper, data]

Reciprocal projections between the globus pallidus externa and cortex span motor and nonmotor regions.

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

Status: data only, 1 dataset cited

[16487] doi:10.1101/2025.06.02.657392 [paper, repository]

Aberrant cerebrovascular reactivity presents as an early biomarker of psychosis susceptibility in patients with 22q11.2DS

Journal: bioRxiv (preprint)

Authors' code: danizoeller/myMixedModelsTrajectories (GPL-3.0)

Status: code verified, 24 files readable

[16488] doi:10.1111/bjop.12799 [paper, data]

The method of loci in the context of psychological research: A systematic review and meta-analysis.

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

Status: data only, 1 dataset cited

[16489] doi:10.1111/bpa.70021 [paper]

Hippo pathway effectors are associated with glioma patient survival, control cell proliferation and sterol metabolism through TEAD3.

Journal: Brain pathology (Zurich, Switzerland)

Status: data only

[16490] doi:10.1111/jne.70054 [paper, data]

Crosstalk between thyroid hormones and the central corticotropin-releasing factor system in Atlantic salmon.

Journal: Journal of neuroendocrinology

Status: data only, 1 dataset cited

[16491] doi:10.1162/imag.a.19 [paper, repository]

Comparing methods for deriving the auditory brainstem response to continuous speech in human listeners.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: maddoxlab/peaky_vs_anm (no license)

Status: code verified, 13 files readable, 3 matches

[16492] doi:10.1162/imag.a.26 [paper]

Arousal and sustained attention fluctuate differently with respiration in younger and older adults.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

[16493] doi:10.1186/s40035-025-00486-5 [paper, data]

A genome-wide RNA interference screening reveals protectiveness of SNX5 knockdown in a Parkinson's disease cell model.

Journal: Translational neurodegeneration

Status: data only, 1 dataset cited

[16494] doi:10.1242/dev.204610 [paper, data]

CSF1R ligands promote microglial proliferation but are not the sole regulators of developmental microglial proliferation.

Journal: Development (Cambridge, England)

Status: data only, 1 dataset cited

[16495] doi:10.1242/jeb.250165 [paper, repository]

Long-term multichannel recordings in Drosophila flies reveal altered predictive processing during sleep compared with wake.

Journal: The Journal of experimental biology

Authors' code: MNVDP/MultichannelLFPAnalysis (MIT)

Status: code verified, 12 files readable, 3 matches

[16496] doi:10.1371/journal.pone.0325325 [paper, repository]

Neuromechanisms and subjective experiences during human-dog interactions: Assessing motivation and mental state in a randomized, controlled trial.

Journal: PloS one

Authors' code: OSF tz26c (no license)

Status: code verified, 1 file readable

[16497] doi:10.1523/eneuro.0233-24.2025 [paper, repository]

AxoDen: An Algorithm for the Automated Quantification of Axonal Density in Defined Brain Regions.

Journal: eNeuro

Authors' code: raqueladaia/AxoDen (GPL-3.0), axoden.streamlit.app (no license)

Status: code verified, 16 files readable, 1 match

[16498] doi:10.21037/qims-2024-2751 [paper, repository]

Predicting malignant cerebral edema after acute ischemic stroke: a machine-learning model with multi-region radiomics.

Journal: Quantitative imaging in medicine and surgery

Authors' code: aim-harvard/pyradiomics (BSD-3-Clause)

Status: code verified, 60 files readable, 2 matches

[16499] doi:10.3389/fnins.2025.1591169 [paper, repository]

Harmonization of diffusion MRI on healthy subjects using NeuroCombat and LongCombat: a B-Q MINDED brain intra- and inter-scanner study.

Journal: Frontiers in neuroscience

Authors' code: Jfortin1/neuroCombat_Rpackage (no license), jcbeer/longCombat (Artistic-2.0)

Status: code verified, 18 files readable, 2 matches

[16500] doi:10.3389/fnins.2025.1605762 [paper, data]

Association of genetic variants, protein domains, and phenotypes in the ZMIZ1 syndromic neurodevelopmental disorder.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[16501] doi:10.3390/bioengineering12060607 [paper, data]

Regional Brain Aging Disparity Index: Region-Specific Brain Aging State Index for Neurodegenerative Diseases and Chronic Disease Specificity.

Journal: Bioengineering (Basel, Switzerland)

Status: data only, 1 dataset cited

[16502] doi:10.3390/biomimetics10060359 [paper, repository]

Biomimetic Visual Information Spatiotemporal Encoding Method for In Vitro Biological Neural Networks.

Journal: Biomimetics (Basel, Switzerland)

Authors' code: wangxingchen231/Biomimetic-Visual-Information-Spatiotemporal-Encoding-Method (no license)

Status: code verified, 1 file readable

[16503] doi:10.3390/s25113522 [paper, data]

A Novel PNDA-MMNet Model for Evaluating Dynamic Changes in the Brain State of Patients with PTSD During Neurofeedback Training.

Journal: Sensors (Basel, Switzerland)

Status: data only, 1 dataset cited

[16504] doi:10.7554/elife.91771 [paper, repository]

The role of GABA in semantic memory and its neuroplasticity.

Journal: eLife

Authors' code: biu.bangor.ac.uk/projects.php.en (no license), OSF pmqxh (no license)

Status: code verified

Monday, 2 June 2025 (32 papers)

[16505] doi:10.1001/jamanetworkopen.2025.14316 [paper, repository]

Active Travel Mode and Incident Dementia and Brain Structure.

Journal: JAMA network open

Authors' code: OSF t78bs (no license)

Status: empty repository

[16506] doi:10.1002/mrm.30591 [paper, repository]

Robust multi-coil MRI reconstruction via self-supervised denoising.

Journal: Magnetic resonance in medicine

Authors' code: utcsilab/gsure-diffusion-mri (MIT)

Status: code verified, 43 files readable, 5 matches

[16507] doi:10.1007/s00239-025-10253-9 [paper, repository]

Adaptation to Freshwater in Allis Shad Involved a Combination of Genomic and Epigenomic Changes.

Journal: Journal of molecular evolution

Authors' code: PJADPereira/methylation_aalosa (Unlicense), Zenodo 15540097 (Unlicense)

Status: code verified, 34 files readable, 9 matches

[16508] doi:10.1016/j.neuropharm.2025.110541 [paper, data]

Increased c-Fos immunoreactivity in anxiety-related brain regions following paroxetine discontinuation.

Journal: Neuropharmacology

Status: data only, 2 datasets cited

[16509] doi:10.1016/j.xpro.2025.103864 [paper]

Protocol for culture, purification, and target validation of a hybridoma-generated monoclonal antibody targeting Aβ truncated species.

Journal: STAR protocols

Status: code on request

[16510] doi:10.1021/acs.jmedchem.5c00577 [paper, data]

Lead Optimization of a Butyrylcholinesterase Inhibitor for the Treatment of Alzheimer's Disease.

Journal: Journal of medicinal chemistry

Status: data only, 1 dataset cited

[16511] doi:10.1021/acsomega.5c00843 [paper, data]

Investigation on the Substrate Specificity of Serine Protease Neuropsin by Molecular Dynamics Simulation and Marmoset Gene Atlas (MGA).

Journal: ACS omega

Status: data only, 1 dataset cited

[16512] doi:10.1038/s41398-025-03411-6 [paper]

Assessing the association between ADHD and brain maturation in late childhood and emotion regulation in early adolescence.

Journal: Translational psychiatry

Status: code on request

[16513] doi:10.1038/s41467-025-60078-9 [paper, repository]

Concept transfer of synaptic diversity from biological to artificial neural networks.

Journal: Nature communications

Authors' code: figshare 19114151 (CC-BY-4.0), ceades.github.io/pytorch_bio_transformations (no license), CeadeS/pytorch_bio_transformations (MIT), CeadeS/BioLearn (MIT)

Status: code verified, 98 files readable, 7 matches

[16514] doi:10.1038/s41467-025-60105-9 [paper, repository]

ELMO2 is an essential regulator of carotid artery development.

Journal: Nature communications

Authors' code: Bioinformatics-Service-MPI-Munster (no license)

Status: code verified

[16515] doi:10.1038/s41467-025-60185-7 [paper, repository]

Atlas of Proteomic signatures of brain structure and its links to brain disorders.

Journal: Nature communications

Authors' code: hitrp/proteomicsignatureofbrainstructure (no license)

Status: dead link

[16516] doi:10.1038/s41467-025-60475-0 [paper, data]

Methionine cycle in C. elegans serotonergic neurons regulates diet-dependent behaviour and longevity through neuron-gut signaling.

Journal: Nature communications

Status: data only, 1 dataset cited

[16517] doi:10.1038/s41467-025-60482-1 [paper, repository]

Divergent combinations of enhancers encode spatial gene expression.

Journal: Nature communications

Authors' code: xmuhuanglab/eSpatial (no license), codeocean:2493559 (no license), Zenodo 15383127 (CC-BY-4.0)

Status: code verified, 10 files readable, 7 matches

[16518] doi:10.1038/s41526-025-00478-9 [paper, data]

Reducing motion sickness during simulated astronaut post-spaceflight water landings using anticipatory cues or postural control.

Journal: NPJ microgravity

Status: data only, 1 dataset cited

[16519] doi:10.1038/s41593-025-01952-z [paper, data]

Neuronal aging causes mislocalization of splicing proteins and unchecked cellular stress.

Journal: Nature neuroscience

Status: data only, 3 datasets cited

[16520] doi:10.1038/s41597-025-04895-z [paper, repository]

The Transdiagnostic Connectome Project: an open dataset for studying brain-behavior relationships in psychiatry.

Journal: Scientific data

Authors' code: aestrivex/bctpy (GPL-3.0), sites.google.com/site/bctnet (no license), HolmesLab/TransdiagnosticConnectomeProject (MIT)

Status: code verified, 90 files readable, 16 matches

[16521] doi:10.1038/s41597-025-05104-7 [paper, repository]

A Transcriptomic Dataset of Embryonic Murine Telencephalon of Fmr1-Deficient Mice.

Journal: Scientific data

Authors' code: reneshbedre/bioinfokit (MIT), hgdownload.soe.ucsc.edu/goldenpath/mm10 (no license), seaborn.pydata.org (no license), r-project.org/help.html (no license)

Status: code verified, 8 files readable

[16522] doi:10.1038/s42003-025-08287-2 [paper, repository]

Second-order threat conditioning in the amygdala-posterior piriform cortex network.

Journal: Communications biology

Authors' code: karmaout/SOC_Multiomic_sequencing (MIT)

Status: code verified, 11 files readable, 15 matches

[16523] doi:10.1038/s44172-025-00428-z [paper]

Acoustic hologram-enabled simultaneous multi-target blood-brain barrier opening (AH-SiMBO).

Journal: Communications engineering

Status: code on request

[16524] doi:10.1073/pnas.2412729122 [paper, repository]

Structure-function coupling in the first month of life: Associations with age and attention.

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

Authors' code: utooley/Tooley2024_structure_function_neonates (no license)

Status: code verified, 7 files readable, 12 matches

[16525] doi:10.1073/pnas.2417850122 [paper, repository]

Symmetries and synchronization from whole-neural activity in the <i>Caenorhabditis elegans</i> connectome: Integration of functional and structural networks.

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

Authors' code: makselab/c_elegans_neural_network (GPL-3.0), OSF 9zvtq (no license), makselab/fibration_reconstruction_algorithm (no license), OSF 8kjmz (no license)

Status: code verified, 35 files readable, 1 match

[16526] doi:10.1093/braincomms/fcaf212 [paper, repository]

Early brain iron changes in Parkinson's disease and isolated rapid eye movement sleep behaviour disorder: a four-year longitudinal multimodal quantitative MRI study.

Journal: Brain communications

Authors' code: stnava.github.io/ants (no license)

Status: code verified

[16527] doi:10.1101/gad.352646.125 [paper, repository]

A boundary-defining protein facilitates megabase-scale regulatory chromosomal loop formation in <i>Drosophila</i> neurons.

Journal: Genes & development

Authors' code: ariannaravera/OligoDNA-FISH (other)

Status: code verified, 3 files readable, 2 matches

[16528] doi:10.1101/gr.280082.124 [paper]

Meta-analysis of activated neurons reveals dynamic regulation of diverse classes of alternative splicing.

Journal: Genome research

Status: data only

[16529] doi:10.1113/ep092470 [paper, data]

Eccentric training at long muscle lengths induces greater corticospinal and spinal reflex plasticity than eccentric training at short muscle lengths.

Journal: Experimental physiology

Status: data only, 1 dataset cited

[16530] doi:10.1186/s12909-025-07423-0 [paper, data]

Rehabilitation nursing for brain tumor patients: a scoping review.

Journal: BMC medical education

Status: data only, 1 dataset cited

[16531] doi:10.1186/s12916-025-04129-4 [paper, repository]

Evaluating metabolome-wide causal effects on risk for psychiatric and neurodegenerative disorders.

Journal: BMC medicine

Authors' code: lpgilchrist/metabolite_MR_neuropsychiatric (no license)

Status: code verified, 16 files readable, 5 matches

[16532] doi:10.1186/s12974-025-03470-y [paper, data]

Inflammation-induced lysosomal dysfunction in human iPSC-derived microglia is exacerbated by APOE 4/4 genotype.

Journal: Journal of neuroinflammation

Status: data only, 1 dataset cited

[16533] doi:10.1186/s40478-025-02035-7 [paper, repository]

A comprehensive, multi-center, immunogenomic analysis of melanoma brain metastases.

Journal: Acta neuropathologica communications

Authors' code: gitlab.oit.duke.edu/ (no license), gitlab.oit.duke.edu/dcibioinformatics/pubs/anders-kennedy-mbm (AGPL-3.0)

Status: code verified, 77 files readable, 27 matches

[16534] doi:10.1371/journal.pbio.3003209 [paper, data]

An auditory cortical-striatal circuit supports sound-triggered timing to predict future events.

Journal: PLoS biology

Status: data only, 1 dataset cited

[16535] doi:10.1371/journal.pone.0323213 [paper, data]

The effect of D-cycloserine on brain connectivity over a course of pulmonary rehabilitation - A randomised control trial with neuroimaging endpoints.

Journal: PloS one

Status: data only, 1 dataset cited

[16536] doi:10.17879/freeneuropathology-2025-6387 [paper, repository]

Applying machine learning to assist in the morphometric assessment of brain arteriolosclerosis through automation.

Journal: Free neuropathology

Authors' code: jerryjlou/ArtSeg-VasMorph (CC-BY-NC-ND-4.0)

Status: code verified, 71 files readable, 7 matches

Sunday, 1 June 2025 (90 papers, 40 on this page)

[16537] doi:10.1001/jamapsychiatry.2025.0192 [paper, repository]

Functional vs Structural Cortical Deficit Pattern Biomarkers for Major Depressive Disorder.

Journal: JAMA psychiatry

Authors' code: cran.r-project.org/package=rvipkg (no license)

Status: code verified

[16538] doi:10.1002/alz.70246 [paper, repository]

Perceptual discrimination of complex objects: Apolipoprotein E e4 gene-dose effects in mid-life.

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

Authors' code: OSF qns2r (no license)

Status: code verified, 26 files readable, 1 match

[16539] doi:10.1002/alz.70270 [paper, repository]

Brain tissue electrical conductivity as a promising biomarker for dementia assessment using MRI.

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

Authors' code: eptlib.github.io/methods (no license)

Status: code verified

[16540] doi:10.1002/alz.70326 [paper, repository]

Assessing the Global Impact of Brain Small Vessel Disease on Cognition: The Multi-Ethnic Study of Atherosclerosis.

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

Authors' code: UTHSCSA-NAL/SVD_Cognition_MESA (no license), mesa-nhlbi.org (no license)

Status: code verified, 2 files readable, 9 matches

[16541] doi:10.1002/alz.70339 [paper, data]

Cell-specific protein expression in Alzheimer's disease prefrontal cortex.

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

Status: data only, 1 dataset cited

[16542] doi:10.1002/alz.70381 [paper, repository]

Plasma NfL and GFAP for predicting VCI and related brain changes in community and clinical cohorts.

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

Authors' code: psmd-marker.com (no license)

Status: code verified

[16543] doi:10.1002/alz.70384 [paper]

Associations between temporal lobe cortical NODDI measures and memory function in individuals without clinical dementia.

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

Status: code on request

[16544] doi:10.1002/bimj.70053 [paper, repository]

Impact of Methodological Assumptions and Covariates on the Cutoff Estimation in ROC Analysis.

Journal: Biometrical journal. Biometrische Zeitschrift

Authors' code: soutikghosal/Covariate-wise-optimal-cutoff (no license)

Status: code verified, 34 files readable, 9 matches

[16545] doi:10.1002/brb3.70608 [paper, repository]

A Meta-Analysis of the Effects of Early Life Stress on the Prefrontal Cortex Transcriptome Reveals Long-Term Downregulation of Myelin-Related Gene Expression.

Journal: Brain and behavior

Authors' code: hagenaue/BrainDataAlchemy (MIT), tonid2/EarlyLifeStressSummer2023 (no license)

Status: code verified, 83 files readable, 22 matches

[16546] doi:10.1002/brb3.70625 [paper, data]

Proteome-Wide and Immune Cell Phenotype Mendelian Randomization Highlights Immune Involvement in Genetic Generalized Epilepsy.

Journal: Brain and behavior

Status: data only, 1 dataset cited

[16547] doi:10.1002/cbf.70093 [paper, repository]

In Vitro Comparison of Two Python-Based Programs for the Automated Analysis of Tight-Junction Phenotype in Brain Endothelium During Bacterial Infection.

Journal: Cell biochemistry and function

Authors' code: devonsmo/ijoq (GPL-3.0), StrokaLab/JAnaP (no license)

Status: code verified, 69 files readable

[16548] doi:10.1002/cpz1.70167 [paper, repository]

Two-Photon Microscopy Functional Assays for Serial Imaging of Brain Microvessels and the Neurovascular Unit Through Disease Progression.

Journal: Current protocols

Authors' code: mcdowellkonnor/Vasometrics (no license)

Status: empty repository, 1 file readable

[16549] doi:10.1002/hbm.70217 [paper, repository]

Characterization of Portable Ultra-Low Field MRI Scanners for Multi-Center Structural Neuroimaging.

Journal: Human brain mapping

Authors' code: UNITY-Physics/unity_qa_paper (MIT), UNITY-Physics/GHOST (MIT)

Status: code verified, 37 files readable, 1 match

[16550] doi:10.1002/hbm.70223 [paper, repository]

Event-Marked Windowed Communication: Inferring Activity Propagation from Neural Time Series.

Journal: Human brain mapping

Authors' code: vmadanmohan/EWC (no license)

Status: code verified, 30 files readable, 4 matches

[16551] doi:10.1002/hbm.70229 [paper, repository]

Deep-Diffeomorphic Networks for Conditional Brain Templates.

Journal: Human brain mapping

Authors' code: evanmy/conditional_deformation (no license), neel-dey/Atlas-GAN (MIT)

Status: code verified, 82 files readable, 3 matches

[16552] doi:10.1002/hbm.70234 [paper, repository]

Neurophysiological Progression in Alzheimer's Disease: Insights From Dynamic Causal Modelling of Longitudinal Magnetoencephalography.

Journal: Human brain mapping

Authors' code: NIMG-22-2183/L-DCM_HBM (no license), dementiasplatform.uk/data-portal (no license)

Status: code verified, 15 files readable, 4 matches

[16553] doi:10.1002/hbm.70239 [paper, repository]

Network Occlusion Sensitivity Analysis Identifies Regional Contributions to Brain Age Prediction.

Journal: Human brain mapping

Authors' code: HeLingfei/NOSA_BrainAge (no license)

Status: code verified, 19 files readable, 4 matches

[16554] doi:10.1002/hbm.70240 [paper, repository]

Neuroanatomical Changes in the Stopping Network Across the Adult Lifespan Assessed With Quantitative and Diffusion MRI.

Journal: Human brain mapping

Authors' code: OSF hnz79 (no license)

Status: code verified, 2 files readable, 1 match

[16555] doi:10.1002/hbm.70242 [paper, data]

Neurophysiological Basis of Emotional Face Perception and Working Memory Load in a Dual-Task MEG Study.

Journal: Human brain mapping

Status: data only, 1 dataset cited

[16556] doi:10.1002/hbm.70243 [paper, repository]

Do Transformers and CNNs Learn Different Concepts of Brain Age?

Journal: Human brain mapping

Authors' code: kenshohara/3D-ResNets-PyTorch (MIT), lucidrains/vit-pytorch (MIT)

Status: code verified, 127 files readable

[16557] doi:10.1002/hbm.70245 [paper, repository]

Mapping Caudolenticular Gray Matter Bridges in the Human Brain Striatum Through Diffusion Magnetic Resonance Imaging and Tractography.

Journal: Human brain mapping

Authors' code: scilus/scilpy (MIT), LittleBrainLab/meshtrack (no license), LittleBrainLab/microbrain (MIT)

Status: code verified, 629 files readable, 13 matches

[16558] doi:10.1002/hbm.70247 [paper, data]

Misspelled-Word Reading Modulates Late Cortical Dynamics.

Journal: Human brain mapping

Status: data only, 1 dataset cited

[16559] doi:10.1002/hbm.70252 [paper, data]

Brain Aging in Patients With Cardiovascular Disease From the UK Biobank.

Journal: Human brain mapping

Status: data only, 1 dataset cited

[16560] doi:10.1002/hbm.70253 [paper]

Single-Subject Network Analysis of FDOPA PET in Parkinson's Disease and Psychosis Spectrum.

Journal: Human brain mapping

Status: code on request

[16561] doi:10.1002/hbm.70256 [paper, repository]

Big Data, Small Bias: Harmonizing Diffusion MRI-Based Structural Connectomes to Mitigate Site-Related Bias in Data Integration.

Journal: Human brain mapping

Authors' code: Sherry-SR/Connectome_Harmonization (BSD-3-Clause)

Status: code verified, 7 files readable, 4 matches

[16562] doi:10.1002/hbm.70257 [paper, repository]

Harmonization of Structural Brain Connectivity Through Distribution Matching.

Journal: Human brain mapping

Authors' code: rpomponio/neuroHarmonize (MIT), andy1764/CovBat_Harmonization (no license), zzstefan/Distribution_matching (MIT)

Status: code verified, 69 files readable, 3 matches

[16563] doi:10.1002/hbm.70258 [paper, repository]

Structural White Matter Correlates of the Crowding Effect: Insights From a Tractography Study of the Arcuate Fasciculus Post-Hemispherotomy.

Journal: Human brain mapping

Authors' code: MedVisBonn/bonndit (GPL-3.0), jbisten/hemitracts (no license)

Status: code verified, 66 files readable, 2 matches

[16564] doi:10.1002/hbm.70264 [paper, data]

Correction of Physiological Artifacts in Multi-Echo fMRI Data-Evaluation of Possible RETROICOR Implementations.

Journal: Human brain mapping

Status: data only, 1 dataset cited

[16565] doi:10.1002/iub.70030 [paper, data]

Tyrosine and Phenylalanine Activate Neuronal DNA Repair but Exhibit Opposing Effects on Global Transcription and Adult Female Mice Are Resilient to TyrRS/YARS1 Depletion.

Journal: IUBMB life

Status: data only, 1 dataset cited

[16566] doi:10.1002/jcsm.13830 [paper, data]

Enhancing Neurocognitive Health via Activity, Nutrition and Cognitive Exercise (ENHANCE): A Randomized Controlled Trial.

Journal: Journal of cachexia, sarcopenia and muscle

Status: data only, 1 dataset cited

[16567] doi:10.1002/nbm.70038 [paper, repository]

WAND: Wavelet Analysis-Based Neural Decomposition of MRS Signals for Artifact Removal.

Journal: NMR in biomedicine

Authors' code: julianmer/WAND-for-MRS (no license)

Status: code verified, 31 files readable, 6 matches

[16568] doi:10.1002/nbm.70051 [paper, repository]

In Vivo Characterization of Magnetic Inclusions in the Subcortex From Nonexponential Transverse Relaxation Decay.

Journal: NMR in biomedicine

Authors' code: LREN-physics/TransverseRelaxation (GPL-3.0)

Status: code verified, 10 files readable, 3 matches

[16569] doi:10.1002/nbm.70056 [paper, repository]

Polyacrylamide Gel Calibration Phantoms for Quantification in Sodium MRI.

Journal: NMR in biomedicine

Authors' code: BBillot/SynthSeg (Apache-2.0)

Status: code verified, 48 files readable

[16570] doi:10.1002/nbm.70057 [paper, repository]

An Optimized Framework of QSM Mask Generation Using Deep Learning: QSMmask-Net.

Journal: NMR in biomedicine

Authors' code: HUFS-AIIMST/QSMmask-net (no license)

Status: code verified, 3 files readable, 1 match

[16571] doi:10.1002/nbm.70065 [paper, repository]

Assessing Semiregional Cerebral Oxygen Consumption (CMRO<sub>2</sub>) in Preterm Neonates: A Quantitative MRI Cohort Study With Exploratory Analysis of Respiratory Support.

Journal: NMR in biomedicine

Authors' code: WeberLab/CMRO2 (no license), kamesy/QSM.m (MIT)

Status: code verified, 177 files readable, 8 matches

[16572] doi:10.1002/prp2.70123 [paper, data]

Downstream Signaling of Muscarinic M<sub>4</sub> Receptors Is Regulated by Receptor Density and Cellular Environment.

Journal: Pharmacology research & perspectives

Status: data only, 1 dataset cited

[16573] doi:10.1002/smi.70065 [paper, data]

Stress-Induced Responses in Conscious Movement Processing and Walking Behaviour in Older Adults.

Journal: Stress and health : journal of the International Society for the Investigation of Stress

Status: data only, 1 dataset cited

[16574] doi:10.1007/s00702-025-02952-w [paper, data]

Species-specific sensitivity to intracerebroventricular streptozotocin in rats and mice highlights pathways and proteins relevant to Alzheimer's disease.

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

Status: data only, 1 dataset cited

[16575] doi:10.1016/j.crmeth.2025.101082 [paper]

Expansion microscopy reveals nano-scale insights into the human neuromuscular junction.

Journal: Cell reports methods

Status: code on request

[16576] doi:10.1016/j.xcrm.2025.102189 [paper, repository]

The human neural cell atlas of Zika virus infection in developing brain tissue.

Journal: Cell reports. Medicine

Authors' code: Zenodo 15360164 (CC-BY-4.0), galelab/stokes_sc_atlas_zikv_brain_infection (no license)

Status: code verified, 12 files readable, 1 match

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