Every paper, by date: page 133

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 133 of 200: 5 March 2024 to 26 February 2024.

Tuesday, 5 March 2024 (33 papers, 11 on this page)

[29569] doi:10.3389/fncir.2024.1280604 [paper, data]

An operating principle of the cerebral cortex, and a cellular mechanism for attentional trial-and-error pattern learning and useful classification extraction.

Journal: Frontiers in neural circuits

Status: data only, 1 dataset cited

[29570] doi:10.3389/fnins.2023.1303727 [paper, data]

Sex-specific regulation of the cortical transcriptome in response to sleep deprivation.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[29571] doi:10.3389/fnins.2024.1333782 [paper, repository]

Evidence based on Mendelian randomization and colocalization analysis strengthens causal relationships between structural changes in specific brain regions and risk of amyotrophic lateral sclerosis.

Journal: Frontiers in neuroscience

Authors' code: chr1swallace/coloc (no license)

Status: code verified, 41 files readable, 2 matches

[29572] doi:10.3389/fnins.2024.1349540 [paper, data]

Electrophysiological correlates of temporal numerosity adaptation.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[29573] doi:10.3390/biomedicines12030580 [paper, repository]

Segmenting Ischemic Penumbra and Infarct Core Simultaneously on Non-Contrast CT of Patients with Acute Ischemic Stroke Using Novel Convolutional Neural Network.

Journal: Biomedicines

Authors' code: GitHub-TXZ/I2PC-Net (no license)

Status: code verified, 12 files readable, 2 matches

[29574] doi:10.3390/cimb46030133 [paper, data]

Melanocortin Derivatives Induced Vascularization and Neuroglial Proliferation in the Rat Brain under Conditions of Cerebral Ischemia.

Journal: Current issues in molecular biology

Status: data only, 1 dataset cited

[29575] doi:10.3390/ijms25053020 [paper, data]

Gene Expression of <i>CSF3R</i>/CD114 Is Associated with Poorer Patient Survival in Glioma.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[29576] doi:10.3390/nu16050738 [paper, repository]

The Cerebellar Response to Visual Portion Size Cues Is Associated with the Portion Size Effect in Children.

Journal: Nutrients

Authors' code: OSF cnwk4 (no license)

Status: code verified, 18 files readable, 14 matches

[29577] doi:10.3390/s24051678 [paper, data]

Adaptive Time-Frequency Segment Optimization for Motor Imagery Classification.

Journal: Sensors (Basel, Switzerland)

Status: data only, 2 datasets cited

[29578] doi:10.7554/elife.85303 [paper, repository]

Behavioral discrimination and olfactory bulb encoding of odor plume intermittency.

Journal: eLife

Authors' code: doi:10.5061/dryad.crjdfn387 (no license)

Status: code verified

[29579] doi:10.7554/elife.88117 [paper, repository]

Gene-environment pathways to cognitive intelligence and psychotic-like experiences in children.

Journal: eLife

Authors' code: Transconnectome/Intell_PLE_Pathway (no license)

Status: code verified, 8 files readable

Monday, 4 March 2024 (28 papers)

[29580] doi:10.1007/s10753-024-01991-x [paper, data]

A New Modulator of Neuroinflammation in Diabetic Retinopathy: USP25.

Journal: Inflammation

Status: data only, 1 dataset cited

[29581] doi:10.1016/j.celrep.2024.113896 [paper, repository]

Regulation of transcription patterns, poly(ADP-ribose), and RNA-DNA hybrids by the ATM protein kinase.

Journal: Cell reports

Authors' code: prwoolley/atm_par_rchip_paper (no license)

Status: code verified, 17 files readable

[29582] doi:10.1016/j.heliyon.2024.e27329 [paper]

Tumor-infiltrating CD8⁺ sub-populations in primary and recurrent glioblastoma: An <i>in-silico</i> study.

Journal: Heliyon

Status: data only

[29583] doi:10.1016/j.isci.2024.109370 [paper, repository]

Topological structure of population activity in mouse visual cortex encodes densely sampled stimulus rotations.

Journal: iScience

Authors' code: KBeshkov/NeuralHomology (no license)

Status: code verified, 14 files readable, 10 matches

[29584] doi:10.1016/j.isci.2024.109397 [paper, repository]

Deciphering the spatiotemporal transcriptional and chromatin accessibility of human retinal organoid development at the single-cell level.

Journal: iScience

Authors' code: Zenodo 10658110 (CC-BY-4.0), scverse/scanpy (BSD-3-Clause), rachelqueen1/bbsrc_ret_organoids (no license)

Status: code verified, 168 files readable, 12 matches

[29585] doi:10.1016/j.isci.2024.109401 [paper, data]

Emergence of complex oscillatory dynamics in the neuronal networks with long activity time of inhibitory synapses.

Journal: iScience

Status: data only, 1 dataset cited

[29586] doi:10.1016/j.isci.2024.109408 [paper, repository]

Sleep-dependent engram reactivation during hippocampal memory consolidation associated with subregion-specific biosynthetic changes.

Journal: iScience

Authors' code: umich-brcf-bioinf-projects/Aton_saton_CU8-GeoMx (no license), sites.lsa.umich.edu/aton-lab (no license)

Status: code verified, 3 files readable, 1 match

[29587] doi:10.1016/j.isci.2024.109415 [paper]

Cortical brain organoid slices (cBOS) for the study of human neural cells in minimal networks.

Journal: iScience

Status: code on request

[29588] doi:10.1038/s41467-024-46023-2 [paper, repository]

Genetic architecture of the structural connectome.

Journal: Nature communications

Authors' code: TIGRLab/tractify (MIT), thomasyeolab/cbig (MIT), bulik/ldsc (GPL-3.0), qlu-lab/GNOVA-2.0 (GPL-3.0)

Status: code verified, 2,055 files readable, 24 matches

[29589] doi:10.1038/s41539-024-00231-z [paper, data]

Relation of life sciences students' metacognitive monitoring to neural activity during biology error detection.

Journal: NPJ science of learning

Status: code on request, 1 dataset cited

[29590] doi:10.1038/s41598-024-56014-4 [paper, data]

The fear of COVID-19 contagion: an exploratory EEG-fMRI study.

Journal: Scientific reports

Status: data only, 1 dataset cited

[29591] doi:10.1038/s41598-024-56023-3 [paper, data]

The impact of medial temporal and parietal atrophy on cognitive function in dementia.

Journal: Scientific reports

Status: data only, 1 dataset cited

[29592] doi:10.1038/s42003-024-05871-w [paper, repository]

A machine learning toolbox for the analysis of sharp-wave ripples reveals common waveform features across species.

Journal: Communications biology

Authors' code: PridaLab/rippl-AI (no license), Zenodo 10513183 (CC-BY-4.0)

Status: code verified, 20 files readable, 13 matches

[29593] doi:10.1038/s42003-024-05932-0 [paper, data]

High-density cortical µECoG arrays concurrently track spreading depolarizations and long-term evolution of stroke in awake rats.

Journal: Communications biology

Status: data only, 1 dataset cited

[29594] doi:10.1159/000538168 [paper, data]

Identification of Differentially Expressed MicroRNAs in the Rat Hippocampus during Adolescence through an Epigenome-Wide Analysis.

Journal: Developmental neuroscience

Status: data only, 1 dataset cited

[29595] doi:10.1186/s12868-024-00854-3 [paper, repository]

State-transition dynamics of resting-state functional magnetic resonance imaging data: model comparison and test-to-retest analysis.

Journal: BMC neuroscience

Authors' code: sislam99/fmri_state_transition_dynamics (MIT)

Status: code verified, 6 files readable, 4 matches

[29596] doi:10.1186/s12987-024-00523-x [paper, data]

The proteome of the blood-brain barrier in rat and mouse: highly specific identification of proteins on the luminal surface of brain microvessels by in vivo glycocapture.

Journal: Fluids and barriers of the CNS

Status: data only, 1 dataset cited

[29597] doi:10.1186/s40035-024-00403-2 [paper, repository]

LRRK2 kinase inhibition reverses G2019S mutation-dependent effects on tau pathology progression.

Journal: Translational neurodegeneration

Authors' code: jkbrynildsen/tau-spread (MIT), DaniellaDeWeerd/NutilToUsable (GPL-3.0)

Status: code verified, 41 files readable, 4 matches

[29598] doi:10.1242/dev.202545 [paper, repository]

Exploiting spatiotemporal regulation of FZD5 during neural patterning for efficient ventral midbrain specification.

Journal: Development (Cambridge, England)

Authors' code: carmonalab/UCell (GPL-3.0), tudaga/LabelCorrection (MIT)

Status: code verified, 31 files readable, 3 matches

[29599] doi:10.1242/dev.202649 [paper, data]

Sall4 regulates posterior trunk mesoderm development by promoting mesodermal gene expression and repressing neural genes in the mesoderm.

Journal: Development (Cambridge, England)

Status: data only, 2 datasets cited

[29600] doi:10.1371/journal.pcbi.1011874 [paper, repository]

How neuronal morphology impacts the synchronisation state of neuronal networks.

Journal: PLoS computational biology

Authors' code: rpgowers/morph-excite-code (MIT)

Status: code verified, 40 files readable, 1 match

[29601] doi:10.1371/journal.pcbi.1011906 [paper, repository]

Dimensionality of locomotor behaviors in developing C. elegans.

Journal: PLoS computational biology

Authors' code: ssterrett/wopodyn (BSD-3-Clause)

Status: code verified, 34 files readable, 3 matches

[29602] doi:10.1371/journal.pone.0289395 [paper, data]

Cold temperature induces a TRPM8-independent calcium release from the endoplasmic reticulum in human platelets.

Journal: PloS one

Status: data only, 1 dataset cited

[29603] doi:10.14336/ad.2024.0205-1 [paper, data]

The identification of a Distinct Astrocyte Subtype that Diminishes in Alzheimer's Disease.

Journal: Aging and disease

Status: data only, 1 dataset cited

[29604] doi:10.1523/eneuro.0246-23.2024 [paper, repository]

Single-Nucleus RNA-Seq Characterizes the Cell Types Along the Neuronal Lineage in the Adult Human Subependymal Zone and Reveals Reduced Oligodendrocyte Progenitor Abundance with Age.

Journal: eNeuro

Authors' code: sofiapuvogelvittini/humanSEZ_snRNAseq_analysis (no license)

Status: code verified, 10 files readable, 5 matches

[29605] doi:10.1523/eneuro.0277-23.2023 [paper, repository]

Decoding Semantics from Dynamic Brain Activation Patterns: From Trials to Task in EEG/MEG Source Space.

Journal: eNeuro

Authors' code: magna-fede/SourceSpaceDecoding_SDvsLD (GPL-3.0)

Status: code verified, 28 files readable, 7 matches

[29606] doi:10.3389/fnhum.2024.1339728 [paper, repository]

Effective connectivity of working memory performance: a DCM study of MEG data.

Journal: Frontiers in human neuroscience

Authors' code: asantoangles/dcm_working_memory (no license)

Status: code verified, 4 files readable, 2 matches

[29607] doi:10.3389/fnhum.2024.1358809 [paper, repository]

A toolbox for decoding BCI commands based on event-related potentials.

Journal: Frontiers in human neuroscience

Authors' code: christoph.reichert/erpcca (no license), treder/mvpa-light (MIT)

Status: code verified, 187 files readable, 18 matches

Sunday, 3 March 2024 (3 papers)

[29608] doi:10.1038/s41598-024-54966-1 [paper]

Motor imagery ability scores are related to cortical activation during gait imagery.

Journal: Scientific reports

Status: code on request

[29609] doi:10.1038/s41598-024-56001-9 [paper, repository]

Automated detection of Alzheimer's disease: a multi-modal approach with 3D MRI and amyloid PET.

Journal: Scientific reports

Authors' code: montanarograziano/Multimodal-approach-for-AD (MIT)

Status: code verified, 47 files readable, 9 matches

[29610] doi:10.1186/s13287-024-03671-x [paper, data]

Induced pluripotent stem cell derived pericytes respond to mediators of proliferation and contractility.

Journal: Stem cell research & therapy

Status: data only, 1 dataset cited

Saturday, 2 March 2024 (12 papers)

[29611] doi:10.1007/s10548-024-01043-5 [paper, data]

Microstate Analysis of Continuous Infant EEG: Tutorial and Reliability.

Journal: Brain topography

Status: data only, 3 datasets cited

[29612] doi:10.1016/j.dcn.2024.101363 [paper, data]

Excitatory and inhibitory neurochemical markers of anxiety in young females.

Journal: Developmental cognitive neuroscience

Status: data only, 1 dataset cited

[29613] doi:10.1016/j.isci.2024.109371 [paper, repository]

Revealing <i>in vivo</i> cellular mechanisms of cerebral microbleeds on neurons and microglia across cortical layers.

Journal: iScience

Authors' code: Zenodo 10602521 (CC-BY-4.0)

Status: code verified

[29614] doi:10.1016/j.isci.2024.109376 [paper, repository]

Visual tracking brain-computer interface.

Journal: iScience

Authors' code: Oser-1210/Visual_Tracking_BCI (MIT)

Status: code verified, 88 files readable

[29615] doi:10.1016/j.isci.2024.109390 [paper, data]

CKR-1 orchestrates two motor states from a single motoneuron in <i>C. elegans</i>.

Journal: iScience

Status: data only, 1 dataset cited

[29616] doi:10.1016/j.isci.2024.109391 [paper, data]

0.263 terahertz irradiation induced genes expression changes in <i>Caenorhabditis elegans</i>.

Journal: iScience

Status: code on request, 1 dataset cited

[29617] doi:10.1016/j.isci.2024.109395 [paper, repository]

Microbiome depletion prior to repeat mild TBI differentially alters social deficits and prefrontal cortex plasticity in adolescent and adult rats.

Journal: iScience

Authors' code: OSF hp43a (no license)

Status: empty repository

[29618] doi:10.1016/j.neuropharm.2024.109895 [paper, repository]

Quantitative T&lt;sub&gt;2&lt;/sub&gt; mapping-based longitudinal assessment of brain injury and therapeutic rescue in the rat following acute organophosphate intoxication.

Journal: Neuropharmacology

Authors' code: ajchaudhari/T2-mapping (GPL-3.0)

Status: code verified, 10 files readable

[29619] doi:10.1038/s41386-024-01832-3 [paper, repository]

Effects of gene dosage and development on subcortical nuclei volumes in individuals with 22q11.2 copy number variations.

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

Authors' code: charles-schleifer/22q_subcort_volumes (no license)

Status: code verified, 9 files readable, 7 matches

[29620] doi:10.1038/s41598-024-55874-0 [paper, data]

Migraine headache (MH) classification using machine learning methods with data augmentation.

Journal: Scientific reports

Status: data only, 1 dataset cited

[29621] doi:10.1155/2024/6673522 [paper]

The Dark and Gloomy Brain: Grey Matter Volume Alterations in Major Depressive Disorder-Fine-Grained Meta-Analyses.

Journal: Depression and anxiety

Status: code on request

[29622] doi:10.1186/s42238-024-00219-x [paper, data]

Oral Cannabis consumption and intraperitoneal THC:CBD dosing results in changes in brain and plasma neurochemicals and endocannabinoids in mice.

Journal: Journal of cannabis research

Status: data only, 3 datasets cited

Friday, 1 March 2024 (66 papers)

[29623] doi:10.1002/hbm.26601 [paper, repository]

Evaluation of behavioral variance/covariance explained by the neuroimaging data through a pattern-based regression.

Journal: Human brain mapping

Authors' code: dichen27/VDI_Regression (no license)

Status: code verified, 7 files readable

[29624] doi:10.1002/hbm.26620 [paper, repository]

Neuroscience meets behavior: A systematic literature review on magnetic resonance imaging of the brain combined with real-world digital phenotyping.

Journal: Human brain mapping

Authors' code: Zenodo 5826281 (MIT), OSF q25uf (no license), Zenodo 10291750 (CC-BY-4.0), anatomomi/neuroscience-meets-behavior (Apache-2.0), neurostuff/nimare (MIT)

Status: code verified, 319 files readable, 8 matches

[29625] doi:10.1002/hbm.26622 [paper, repository]

Neural signatures of shared subjective affective engagement and disengagement during movie viewing.

Journal: Human brain mapping

Authors' code: attentionaffectlab/Engagement-and-Disengagement (no license)

Status: code verified, 2 files readable, 1 match

[29626] doi:10.1002/hbm.26623 [paper, repository]

Lost in space(s): Multimodal neuroimaging of disorientation along the Alzheimer's disease continuum.

Journal: Human brain mapping

Authors' code: neuropsychiatrylab.com/codes (no license)

Status: code verified

[29627] doi:10.1002/hbm.26625 [paper, repository]

Optimising brain age estimation through transfer learning: A suite of pre-trained foundation models for improved performance and generalisability in a clinical setting.

Journal: Human brain mapping

Authors' code: MIDIconsortium/BrainAge (CC-BY-NC-ND-4.0)

Status: code verified, 6 files readable, 4 matches

[29628] doi:10.1002/hbm.26633 [paper, data]

Comparison of approaches to control for intracranial volume in research on the association of brain volumes with cognitive outcomes.

Journal: Human brain mapping

Status: data only, 1 dataset cited

[29629] doi:10.1002/hbm.26639 [paper, repository]

The neuroanatomy of visual extinction following right hemisphere brain damage: Insights from multivariate and Bayesian lesion analyses in acute stroke.

Journal: Human brain mapping

Authors' code: yongsheng-zhang/SVR-LSM (no license)

Status: code verified, 30 files readable, 4 matches

[29630] doi:10.1002/hbm.26640 [paper, repository]

Mode-based morphometry: A multiscale approach to mapping human neuroanatomy.

Journal: Human brain mapping

Authors' code: NSBLab/MBM (Apache-2.0), NSBLab/MBM_paper (no license)

Status: code verified, 385 files readable, 1 match

[29631] doi:10.1002/hbm.26641 [paper, repository]

General and specific patterns of cortical gene expression as spatial correlates of complex cognitive functioning.

Journal: Human brain mapping

Authors' code: JoannaMoodie/moodie-geneexpression-cognition (CC-BY-4.0)

Status: code verified, 4 files readable, 7 matches

[29632] doi:10.1002/hbm.26644 [paper, repository]

Data-driven MEG analysis to extract fMRI resting-state networks.

Journal: Human brain mapping

Authors' code: FlorinNeuro (no license), bihealth.org/en/translation (no license)

Status: code verified

[29633] doi:10.1002/hbm.26645 [paper, repository]

Effects of dopamine and opioid receptor antagonism on the neural processing of social and nonsocial rewards.

Journal: Human brain mapping

Authors' code: OSF kw623 (no license)

Status: code verified, 1 file readable, 2 matches

[29634] doi:10.1002/hbm.26646 [paper, repository]

Prior-guided individualized thalamic parcellation based on local diffusion characteristics.

Journal: Human brain mapping

Authors' code: thalamicseg/hipsthomasdocker (no license)

Status: code verified, 8 files readable

[29635] doi:10.1002/hbm.26648 [paper, repository]

Dynamic threat-reward neural processing under semi-naturalistic ecologically relevant scenarios.

Journal: Human brain mapping

Authors' code: itsourcecode.com/free-projects/python-projects (no license), dlevitas/PACMAN_MRI_study (no license)

Status: code verified, 9 files readable, 1 match

[29636] doi:10.1002/hbm.26653 [paper, data]

Perceptual uncertainty explains activation differences between audiovisual congruent speech and McGurk stimuli.

Journal: Human brain mapping

Status: data only, 1 dataset cited

[29637] doi:10.1002/hbm.26655 [paper, repository]

The transition from vision to language: Distinct patterns of functional connectivity for subregions of the visual word form area.

Journal: Human brain mapping

Authors' code: cvnlab/nsdcode (BSD-2-Clause)

Status: code verified, 53 files readable

[29638] doi:10.1002/hbm.26660 [paper, repository]

Feature similarity gradients detect alterations in the neonatal cortex associated with preterm birth.

Journal: Human brain mapping

Authors' code: ecr05/dHCP_template_alignment (MIT), git.ecdf.ed.ac.uk/jbrl/neonatal-vbi (no license), brain-development.org/brain-atlases/atlases-from-the-dhcp-project (no license)

Status: code verified, 8 files readable, 1 match

[29639] doi:10.1016/j.isci.2024.109381 [paper]

High-frequency neural activity dysregulation is associated with sleep and psychiatric disorders in BMAL1-deficient animal models.

Journal: iScience

Status: code on request

[29640] doi:10.1016/s2589-7500(23)00250-9 [paper, repository]

Normative modelling of brain morphometry across the lifespan with CentileBrain: algorithm benchmarking and model optimisation.

Journal: The Lancet. Digital health

Authors' code: amarquand/PCNtoolkit (GPL-3.0)

Status: code verified, 126 files readable, 2 matches

[29641] doi:10.1038/s41467-024-46088-z [paper, repository]

Distinct neurochemical influences on fMRI response polarity in the striatum.

Journal: Nature communications

Authors' code: Zenodo 7683340 (agpl-3.0-or-later)

Status: code verified, 10 files readable, 5 matches

[29642] doi:10.1038/s41467-024-46348-y [paper, repository]

Distributed feature representations of natural stimuli across parallel retinal pathways.

Journal: Nature communications

Authors' code: Jen-Chun-Hsiang/ONBCEncoding (no license), Zenodo 10569732 (CC-BY-4.0)

Status: code verified, 172 files readable, 21 matches

[29643] doi:10.1038/s41539-024-00226-w [paper, repository]

Visual perceptual learning of feature conjunctions leverages non-linear mixed selectivity.

Journal: NPJ science of learning

Authors' code: figshare 21268509 (CC-BY-4.0)

Status: code verified, 22 files readable, 2 matches

[29644] doi:10.1038/s41556-024-01356-4 [paper, repository]

Combinatorial selective ER-phagy remodels the ER during neurogenesis.

Journal: Nature cell biology

Authors' code: harperlaboratory/iNeuron_ERphagy (MIT), Zenodo 10606794 (MIT)

Status: code verified, 6 files readable, 9 matches

[29645] doi:10.1038/s41598-024-54593-w [paper]

Neurobiologically realistic neural network enables cross-scale modeling of neural dynamics.

Journal: Scientific reports

Status: code on request

[29646] doi:10.1038/s41598-024-55608-2 [paper, repository]

Automatic monitoring of neural activity with single-cell resolution in behaving Hydra.

Journal: Scientific reports

Authors' code: raphaelreme/trase-in (MIT), stardist/stardist (BSD-3-Clause)

Status: code verified, 70 files readable, 6 matches

[29647] doi:10.1038/s42255-024-01008-9 [paper]

Systemic proteome adaptions to 7-day complete caloric restriction in humans.

Journal: Nature metabolism

Status: code on request

[29648] doi:10.1038/s44319-024-00082-0 [paper, data]

PHF6-mediated transcriptional control of NSC via Ephrin receptors is impaired in the intellectual disability syndrome BFLS.

Journal: EMBO reports

Status: data only, 1 dataset cited

[29649] doi:10.1088/1741-2552/ad1053 [paper, repository]

Multimodal subspace identification for modeling discrete-continuous spiking and field potential population activity.

Journal: Journal of neural engineering

Authors' code: ShanechiLab/MultiscaleSID (other)

Status: code verified, 19 files readable, 9 matches

[29650] doi:10.1093/bib/bbae199 [paper, repository]

Metabolic models predict fotemustine and the combination of eflornithine/rifamycin and adapalene/cannabidiol for the treatment of gliomas.

Journal: Briefings in bioinformatics

Authors' code: sysbiolux/GliomaGEM (no license)

Status: code verified, 21 files readable, 12 matches

[29651] doi:10.1093/bib/bbae230 [paper, data]

Single-cell RNA-seq data analysis reveals functionally relevant biomarkers of early brain development and their regulatory footprints in human embryonic stem cells (hESCs).

Journal: Briefings in bioinformatics

Status: data only, 2 datasets cited

[29652] doi:10.1093/bioinformatics/btae156 [paper, repository]

A model-based hierarchical Bayesian approach to Sholl analysis.

Journal: Bioinformatics (Oxford, England)

Authors' code: vonkaenelerik/hierarchical_sholl (no license), vonkaenelerik/ShollBayes (other)

Status: code verified, 23 files readable, 2 matches

[29653] doi:10.1093/bioinformatics/btae177 [paper, repository]

ViNe-Seg: deep-learning-assisted segmentation of visible neurons and subsequent analysis embedded in a graphical user interface.

Journal: Bioinformatics (Oxford, England)

Authors' code: wkentaro/labelme (GPL-3.0), AllenInstitute/AllenSDK (BSD-2-Clause), codeneuro/neurofinder (no license), NiRuff/ViNe-Seg (no license)

Status: code verified, 1,295 files readable, 1 match

[29654] doi:10.1093/brain/awad297 [paper, repository]

Pleiotropy with sex-specific traits reveals genetic aspects of sex differences in Parkinson's disease.

Journal: Brain : a journal of neurology

Authors' code: chiaracapp/Gene-Expression-and-Genetic-Sex-Differences-in-PD (no license)

Status: code verified, 7 files readable, 5 matches

[29655] doi:10.1093/brain/awad325 [paper, repository]

Clinical severity in Parkinson's disease is determined by decline in cortical compensation.

Journal: Brain : a journal of neurology

Authors' code: mejoh/Personalized-Parkinson-Project-Motor (no license)

Status: code verified, 411 files readable, 12 matches

[29656] doi:10.1093/brain/awad345 [paper, repository]

Machine learning nominates the inositol pathway and novel genes in Parkinson's disease.

Journal: Brain : a journal of neurology

Authors' code: gan-orlab/gene_prio (no license)

Status: code verified, 22 files readable, 3 matches

[29657] doi:10.1093/brain/awad346 [paper, repository]

Synthesizing images of tau pathology from cross-modal neuroimaging using deep learning.

Journal: Brain : a journal of neurology

Authors' code: Neurology-AI-Program/AI_imputed_tau_PET (no license)

Status: code verified, 3 files readable, 1 match

[29658] doi:10.1093/brain/awad402 [paper, repository]

Integrating direct electrical brain stimulation with the human connectome.

Journal: Brain : a journal of neurology

Authors' code: Zenodo 10439149 (CC-BY-4.0), FBK-NILab/intraopmap (MIT)

Status: code verified, 59 files readable, 9 matches

[29659] doi:10.1093/cercor/bhae046 [paper, repository]

The developmental trajectory of 1H-MRS brain metabolites from childhood to adulthood.

Journal: Cerebral cortex (New York, N.Y. : 1991)

Authors' code: schorschinho/osprey (MIT)

Status: code verified, 487 files readable, 8 matches

[29660] doi:10.1093/cercor/bhae073 [paper, repository]

Conversational production and comprehension: fMRI-evidence reminiscent of but deviant from the classical Broca-Wernicke model.

Journal: Cerebral cortex (New York, N.Y. : 1991)

Authors' code: carolinearvidsson/RobotfMRI (no license)

Status: code verified, 24 files readable

[29661] doi:10.1093/cercor/bhae078 [paper, repository]

Neuroimaging genomics as a window into the evolution of human sulcal organization.

Journal: Cerebral cortex (New York, N.Y. : 1991)

Authors' code: gitlab.gwdg.de/ole.goltermann/evolutionarysulcusmorph (no license)

Status: code verified, 25 files readable, 1 match

[29662] doi:10.1093/cercor/bhae087 [paper, repository]

Perceiving and misperceiving speech: lexical and sublexical processing in the superior temporal lobes.

Journal: Cerebral cortex (New York, N.Y. : 1991)

Authors' code: OSF vkdj7 (no license)

Status: empty repository

[29663] doi:10.1093/gbe/evae047 [paper, repository]

The Complex Landscape of Structural Divergence Between the Drosophila pseudoobscura and D. persimilis Genomes.

Journal: Genome biology and evolution

Authors' code: javibio-git/SV_analysis_for_Dpse_and_Dper (no license), ohdongha/orthnet (GPL-3.0), 4ureliek/Parsing-RepeatMasker-Outputs (MIT), 4ureliek/TEanalysis (MIT)

Status: code verified, 70 files readable, 5 matches

[29664] doi:10.1093/ijnp/pyae013 [paper]

Profiling Small RNA From Brain Extracellular Vesicles in Individuals With Depression.

Journal: The international journal of neuropsychopharmacology

Status: data only

[29665] doi:10.1093/nar/gkad1257 [paper, data]

Aberrant DNA repair reveals a vulnerability in histone H3.3-mutant brain tumors.

Journal: Nucleic acids research

Status: data only, 1 dataset cited

[29666] doi:10.1093/nar/gkae029 [paper, repository]

MMCT-Loop: a mix model-based pipeline for calling targeted 3D chromatin loops.

Journal: Nucleic acids research

Authors' code: CSUBioGroup/Bacon (GPL-3.0), figshare 24948801 (CC-BY-4.0), CSUBioGroup/MMCT-Loop (no license), figshare 24913698 (CC-BY-4.0)

Status: code verified, 58 files readable, 6 matches

[29667] doi:10.1093/pnasnexus/pgae095 [paper, data]

Decoding face recognition abilities in the human brain.

Journal: PNAS nexus

Status: data only, 1 dataset cited

[29668] doi:10.1093/scan/nsae017 [paper, repository]

Working memory load impairs tacit coordination but not inter-brain EEG synchronization.

Journal: Social cognitive and affective neuroscience

Authors' code: unishare.nl/index.php/s (no license)

Status: dead link

[29669] doi:10.1093/schbul/sbad140 [paper, repository]

Clustering Schizophrenia Genes by Their Temporal Expression Patterns Aids Functional Interpretation.

Journal: Schizophrenia bulletin

Authors' code: norment/open-science (no license)

Status: code verified, 61 files readable

[29670] doi:10.1111/adb.13389 [paper, repository]

Increased ventral anterior insular connectivity to sports betting availability indexes problem gambling.

Journal: Addiction biology

Authors' code: dbrevers/sports_betting_study (no license)

Status: code verified, 5 files readable

[29671] doi:10.1111/cns.14636 [paper, data]

Fat mass and obesity associated protein inhibits neuronal ferroptosis via the FYN/Drp1 axis and alleviate cerebral ischemia/reperfusion injury.

Journal: CNS neuroscience & therapeutics

Status: data only, 11 datasets cited

[29672] doi:10.1111/cns.14680 [paper, repository]

Morphometric similarity differences in drug-naive Parkinson's disease correlate with transcriptomic signatures.

Journal: CNS neuroscience & therapeutics

Authors' code: BMHLab/AHBAprocessing (no license), SarahMorgan/Morphometric_Similarity_SZ (MIT), frantisekvasa/rotate_parxellation (no license)

Status: code verified, 388 files readable, 3 matches

[29673] doi:10.1111/cns.14690 [paper, data]

Molecular basis underlying changes of brain entropy and functional connectivity in major depressive disorders after electroconvulsive therapy.

Journal: CNS neuroscience & therapeutics

Status: data only, 1 dataset cited

[29674] doi:10.1111/cns.14700 [paper]

Identifying of immune-associated genes for assessing the obesity-associated risk to the offspring in maternal obesity: A bioinformatics and machine learning.

Journal: CNS neuroscience & therapeutics

Status: data only

[29675] doi:10.1111/jcmm.18151 [paper]

Identification of key regulatory molecules in the early development stage of Alzheimer's disease.

Journal: Journal of cellular and molecular medicine

Status: data only

[29676] doi:10.1117/1.jmi.11.2.024011 [paper, repository]

Empirical assessment of the assumptions of ComBat with diffusion tensor imaging.

Journal: Journal of medical imaging (Bellingham, Wash.)

Authors' code: MASILab/AtlasToDiffusionReg (no license), Jfortin1/neuroCombat (MIT)

Status: code verified, 15 files readable, 4 matches

[29677] doi:10.1117/1.jmi.11.2.024013 [paper, repository]

Simulation of acquisition shifts in T2 weighted fluid-attenuated inversion recovery magnetic resonance images to stress test artificial intelligence segmentation networks.

Journal: Journal of medical imaging (Bellingham, Wash.)

Authors' code: PTB-MR/mrpro (Apache-2.0)

Status: code verified, 276 files readable, 2 matches

[29678] doi:10.1126/sciadv.adi9294 [paper, repository]

Integrative processing in artificial and biological vision predicts the perceived beauty of natural images.

Journal: Science advances

Authors' code: CSAILVision/places365 (MIT), Zenodo 10277386 (CC-BY-4.0)

Status: code verified, 28 files readable, 1 match

[29679] doi:10.1126/sciadv.adk8123 [paper, repository]

Early IGF-1 receptor inhibition in mice mimics preterm human brain disorders and reveals a therapeutic target.

Journal: Science advances

Authors' code: Zenodo 10458808 (no license)

Status: code verified, 1 file readable, 2 matches

[29680] doi:10.1167/jov.24.3.1 [paper, repository]

The brain does not process horizontal reflection when attending to vertical reflection, and vice versa.

Journal: Journal of vision

Authors' code: OSF 9wn7j (no license)

Status: code verified, 1 file readable

[29681] doi:10.1172/jci162246 [paper, data]

Glucocorticoid receptor-dependent therapeutic efficacy of tauroursodeoxycholic acid in preclinical models of spinocerebellar ataxia type 3.

Journal: The Journal of clinical investigation

Status: data only, 1 dataset cited

[29682] doi:10.1186/s12911-024-02460-z [paper, repository]

A comparative study of CNN-capsule-net, CNN-transformer encoder, and Traditional machine learning algorithms to classify epileptic seizure.

Journal: BMC medical informatics and decision making

Authors' code: BioAITeam/A-Comparative-Study-of-CNN-Capsule-Net-CNN-Transformer-Encoder-and-traditional-Machine-Learning-Al (no license)

Status: code verified, 61 files readable, 6 matches

[29683] doi:10.1186/s40644-024-00669-9 [paper, repository]

Deep learning-based metastasis detection in patients with lung cancer to enhance reproducibility and reduce workload in brain metastasis screening with MRI: a multi-center study.

Journal: Cancer imaging : the official publication of the International Cancer Imaging Society

Authors' code: jieunp/BM_detection_AI (Apache-2.0)

Status: code verified, 75 files readable

[29684] doi:10.1371/journal.pone.0298961 [paper, data]

The relationship between alpha power and heart rate variability commonly seen in various mental states.

Journal: PloS one

Status: data only, 1 dataset cited

[29685] doi:10.1371/journal.pone.0299284 [paper]

Deep EEG source localization via EMD-based fMRI high spatial frequency.

Journal: PloS one

Status: code on request

[29686] doi:10.3389/fphar.2024.1366683 [paper, data]

Anti-neuroinflammatory effect of hydroxytyrosol: a potential strategy for anti-depressant development.

Journal: Frontiers in pharmacology

Status: data only, 1 dataset cited

[29687] doi:10.3390/s24051618 [paper, data]

Data Augmentation Techniques for Accurate Action Classification in Stroke Patients with Hemiparesis.

Journal: Sensors (Basel, Switzerland)

Status: data only, 1 dataset cited

[29688] doi: [paper, data]

Stomach clusterin as a gut-derived feeding regulator.

Journal: BMB reports

Status: data only, 1 dataset cited

Thursday, 29 February 2024 (31 papers)

[29689] doi:10.1002/alz.13733 [paper, repository]

Entorhinal-based path integration selectively predicts midlife risk of Alzheimer's disease.

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

Authors' code: tinyurl.com/yc3ybr6e (no license)

Status: code verified

[29690] doi:10.1007/s00406-024-01758-3 [paper]

White matter brain age as a biomarker of cerebrovascular burden in the ageing brain.

Journal: European archives of psychiatry and clinical neuroscience

Status: code on request

[29691] doi:10.1016/j.celrep.2024.113857 [paper, repository]

A molecular atlas of adult C. elegans motor neurons reveals ancient diversity delineated by conserved transcription factor codes.

Journal: Cell reports

Authors' code: Zenodo 10567646 (CC-BY-4.0)

Status: code verified, 5 files readable, 12 matches

[29692] doi:10.1016/j.heliyon.2024.e27183 [paper, repository]

A general description of criticality in neural network models.

Journal: Heliyon

Authors' code: lepodl/criticality (no license)

Status: code verified, 23 files readable, 3 matches

[29693] doi:10.1016/j.isci.2024.109364 [paper]

Dynamic modulation of mouse thalamocortical visual activity by salient sounds.

Journal: iScience

Status: code on request

[29694] doi:10.1016/j.isci.2024.109368 [paper, repository]

Neurovascular coupling in the attention during visual working memory processes.

Journal: iScience

Authors' code: OSF 98q3f (no license)

Status: code verified, 17 files readable

[29695] doi:10.1016/j.xpro.2024.102909 [paper]

Integration of in vivo electrophysiology and optogenetics in rodents with PEDOT:PSS neural electrode array.

Journal: STAR protocols

Status: code on request

[29696] doi:10.1021/acsomega.4c00595 [paper, data]

Understanding the Modulation of α-Synuclein Fibrillation by <i>N</i>-Acetyl Aspartate: A Brain Metabolite.

Journal: ACS omega

Status: data only, 1 dataset cited

[29697] doi:10.1038/s41467-024-46012-5 [paper, repository]

Gamma oscillatory complexity conveys behavioral information in hippocampal networks.

Journal: Nature communications

Authors' code: mathworks.com/products/matlab.html (no license)

Status: code found, still to be checked

[29698] doi:10.1038/s41593-024-01589-4 [paper, repository]

PolyGR and polyPR knock-in mice reveal a conserved neuroprotective extracellular matrix signature in C9orf72 ALS/FTD neurons.

Journal: Nature neuroscience

Authors' code: cortex-lab/phy (BSD-3-Clause)

Status: code verified, 165 files readable, 2 matches

[29699] doi:10.1038/s41597-024-03021-9 [paper, repository]

A large open access dataset of brain metastasis 3D segmentations on MRI with clinical and imaging information.

Journal: Scientific data

Authors' code: cbica.github.io/captk (no license)

Status: code verified

[29700] doi:10.1038/s41597-024-03060-2 [paper, repository]

Open datasets and code for multi-scale relations on structure, function and neuro-genetics in the human brain.

Journal: Scientific data

Authors' code: compneurobilbao/bha2 (MIT), ccraddock.github.io/cluster_roi (no license), abagen.readthedocs.io (no license)

Status: code verified, 32 files readable, 6 matches

[29701] doi:10.1038/s41597-024-03073-x [paper, repository]

Brain tumor segmentation using synthetic MR images - A comparison of GANs and diffusion models.

Journal: Scientific data

Authors' code: muhamadusman/Assist (MIT), tkarras/progressive_growing_of_gans (CC-BY-NC-4.0), NVlabs/stylegan (CC-BY-NC-4.0), NVlabs/stylegan2 (other), NVlabs/stylegan3 (other), MIC-DKFZ/nnUNet (Apache-2.0), open-mmlab/mmsegmentation (Apache-2.0)

Status: code verified, 1,869 files readable, 10 matches

[29702] doi:10.1038/s41598-024-55125-2 [paper, repository]

Prefrontal theta-gamma transcranial alternating current stimulation improves non-declarative visuomotor learning in older adults.

Journal: Scientific reports

Authors' code: ludi94/ASRT_tACS (CC-BY-NC-4.0), Zenodo 7124730 (other-open), vekteo/asrt_jspsych (MIT)

Status: code verified, 105 files readable, 2 matches

[29703] doi:10.1038/s41598-024-55315-y [paper, data]

Analysis of the effect of the scorpion toxin AaH-II on action potential generation in the axon initial segment.

Journal: Scientific reports

Status: data only, 1 dataset cited

[29704] doi:10.1038/s41598-024-55350-9 [paper, data]

Knocking out the LRRK2 gene increases sensitivity to wavelength information in rats.

Journal: Scientific reports

Status: data only, 1 dataset cited

[29705] doi:10.1038/s41598-024-55495-7 [paper, data]

The topology of interpersonal neural network in weak social ties.

Journal: Scientific reports

Status: data only, 1 dataset cited

[29706] doi:10.1038/s41598-024-55572-x [paper]

Perception of temporal synchrony not a prerequisite for multisensory integration.

Journal: Scientific reports

Status: code on request

[29707] doi:10.1093/braincomms/fcae073 [paper]

Associations between vascular health, brain stiffness and global cognitive function.

Journal: Brain communications

Status: code on request

[29708] doi:10.1111/cpr.13627 [paper, data]

Functional analysis and transcriptome profile of meninges and skin fibroblasts from human-aged donors.

Journal: Cell proliferation

Status: data only, 1 dataset cited

[29709] doi:10.1186/s12987-024-00525-9 [paper, repository]

Deep learning segmentation of the choroid plexus from structural magnetic resonance imaging (MRI): validation and normative ranges across the adult lifespan.

Journal: Fluids and barriers of the CNS

Authors' code: hettk/chp_seg (no license)

Status: empty repository, 1 file readable

[29710] doi:10.1371/journal.pbio.3002411 [paper, repository]

ReptiLearn: An automated home cage system for behavioral experiments in reptiles without human intervention.

Journal: PLoS biology

Authors' code: EvolutionaryNeuralCodingLab/reptiLearn (GPL-3.0), Zenodo 10546737 (CC-BY-4.0)

Status: code verified, 264 files readable, 22 matches

[29711] doi:10.1371/journal.pcbi.1011774 [paper, repository]

DeepD3, an open framework for automated quantification of dendritic spines.

Journal: PLoS computational biology

Authors' code: ankilab/DeepD3 (Apache-2.0)

Status: code verified, 21 files readable, 5 matches

[29712] doi:10.1371/journal.pone.0299006 [paper, repository]

PrestoCell: A persistence-based clustering approach for rapid and robust segmentation of cellular morphology in three-dimensional data.

Journal: PloS one

Authors' code: Zenodo 10237501 (CC-BY-4.0)

Status: code verified, 3 files readable, 1 match

[29713] doi:10.1371/journal.pone.0299075 [paper, repository]

Whole genome case-control study of central nervous system toxicity due to antimicrobial drugs.

Journal: PloS one

Authors' code: JoelAAs/WGS_pipeline (no license), JoelAAs/WGS_testing (MIT), J35P312/FindSV (no license)

Status: code verified, 60 files readable, 1 match

[29714] doi:10.3390/brainsci14030240 [paper, repository]

Construction and Analysis of a New Resting-State Whole-Brain Network Model.

Journal: Brain sciences

Authors' code: BrainModes/The-Hybrid-Virtual-Brain (GPL-3.0)

Status: code verified, 13 files readable, 5 matches

[29715] doi:10.3390/brainsci14030244 [paper, data]

Oxygen-Glucose Deprivation Increases NR4A1 Expression and Promotes Its Extranuclear Translocation in Mouse Astrocytes.

Journal: Brain sciences

Status: data only, 1 dataset cited

[29716] doi:10.3390/ijms25052838 [paper, data]

Mowat-Wilson Syndrome: Case Report and Review of <i>ZEB2</i> Gene Variant Types, Protein Defects and Molecular Interactions.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[29717] doi:10.3390/neurosci5010004 [paper, data]

Novel ML-Based Algorithm for Detecting Seizures from Single-Channel EEG.

Journal: NeuroSci

Status: data only, 1 dataset cited

[29718] doi:10.7554/elife.84141 [paper, repository]

Endotaxis: A neuromorphic algorithm for mapping, goal-learning, navigation, and patrolling.

Journal: eLife

Authors' code: markusmeister/Endotaxis-2023 (no license)

Status: code verified, 5 files readable, 5 matches

[29719] doi:10.7717/peerj-cs.1867 [paper, repository]

Advancing brain tumor detection: harnessing the Swin Transformer's power for accurate classification and performance analysis.

Journal: PeerJ. Computer science

Authors' code: iamshaf/swin-trans (no license), Zenodo 10413239 (CC-BY-4.0)

Status: code verified, 6 files readable, 9 matches

Wednesday, 28 February 2024 (37 papers)

[29720] doi:10.1016/j.isci.2024.109222 [paper, data]

Doppler detection triggers instantaneous escape behavior in scanning bats.

Journal: iScience

Status: code on request, 1 dataset cited

[29721] doi:10.1016/j.isci.2024.109338 [paper]

ECoG activity distribution patterns detects global cortical responses following weak tactile inputs.

Journal: iScience

Status: code on request

[29722] doi:10.1016/j.isci.2024.109344 [paper, repository]

HIV-2 mediated effects on target and bystander cells induce plasma proteome remodeling.

Journal: iScience

Authors' code: NBISweden (no license)

Status: code verified

[29723] doi:10.1016/j.isci.2024.109346 [paper, repository]

Inflammatory, metabolic, and sex-dependent gene-regulatory dynamics of microglia and macrophages in neonatal hippocampus after hypoxia-ischemia.

Journal: iScience

Authors' code: alexdobin/STAR (MIT), danielramskold/S3_species-specific_sequencing (no license)

Status: code verified, 338 files readable, 1 match

[29724] doi:10.1016/j.isci.2024.109354 [paper]

Cell non-autonomous control of autophagy and metabolism by glial cells.

Journal: iScience

Status: code on request

[29725] doi:10.1016/j.jacep.2024.01.003 [paper, data]

Cardiac-Specific Deletion of Scn8a Mitigates Dravet Syndrome-Associated Sudden Death in Adults.

Journal: JACC. Clinical electrophysiology

Status: data only, 14 datasets cited

[29726] doi:10.1016/j.nicl.2024.103583 [paper, repository]

Transient resting-state salience-limbic co-activation patterns in functional neurological disorders.

Journal: NeuroImage. Clinical

Authors' code: FND-Research+Group/myPLS_SL (no license)

Status: dead link

[29727] doi:10.1038/s41420-024-01873-z [paper, data]

CREB5 promotes the proliferation and self-renewal ability of glioma stem cells.

Journal: Cell death discovery

Status: data only, 2 datasets cited

[29728] doi:10.1038/s41467-024-46150-w [paper, repository]

Data leakage inflates prediction performance in connectome-based machine learning models.

Journal: Nature communications

Authors' code: mattrosenblatt7/leakage_neuroimaging (no license), Zenodo 10570213 (CC-BY-4.0)

Status: code verified, 12 files readable, 5 matches

[29729] doi:10.1038/s41467-024-46234-7 [paper, repository]

Dendritic mGluR2 and perisomatic Kv3 signaling regulate dendritic computation of mouse starburst amacrine cells.

Journal: Nature communications

Authors' code: ww-uchicago/NC-manuscript-2023 (GPL-3.0)

Status: code verified, 84 files readable, 3 matches

[29730] doi:10.1038/s41586-024-07095-8 [paper, repository]

On the genetic basis of tail-loss evolution in humans and apes.

Journal: Nature

Authors' code: boxialaboratory/Tail-Loss-Primates (no license)

Status: code verified, 7 files readable, 5 matches

[29731] doi:10.1038/s41586-024-07130-8 [paper, data]

Compartmentalized ocular lymphatic system mediates eye-brain immunity.

Journal: Nature

Status: data only, 1 dataset cited

[29732] doi:10.1038/s41586-024-07132-6 [paper, repository]

Multisensory gamma stimulation promotes glymphatic clearance of amyloid.

Journal: Nature

Authors' code: Zenodo 10476268 (CC-BY-4.0), Zenodo 10480275 (CC-BY-4.0)

Status: code verified, 3 files readable, 3 matches

[29733] doi:10.1038/s41586-024-07138-0 [paper, data]

Crym-positive striatal astrocytes gate perseverative behaviour.

Journal: Nature

Status: data only, 1 dataset cited

[29734] doi:10.1038/s42003-024-05925-z [paper, data]

Generation of human iPSC-derived phrenic-like motor neurons to model respiratory motor neuron degeneration in ALS.

Journal: Communications biology

Status: data only, 1 dataset cited

[29735] doi:10.1038/s44271-024-00063-y [paper, repository]

Limited generalizability of multivariate brain-based dimensions of child psychiatric symptoms.

Journal: Communications psychology

Authors' code: EstellaHsu/Brain_dimensions_ABCD_GenR (no license), Zenodo 10513071 (CC-BY-4.0)

Status: code verified, 24 files readable, 15 matches

[29736] doi:10.1073/pnas.2313540121 [paper, repository]

Tom20 gates PINK1 activity and mediates its tethering of the TOM and TIM23 translocases upon mitochondrial stress.

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

Authors' code: Zenodo 3738269 (CC-BY-4.0), Zenodo 3738323 (CC-BY-4.0)

Status: empty repository

[29737] doi:10.1088/1361-6560/ad2638 [paper, data]

An adaptive h-refinement method for the boundary element fast multipole method for quasi-static electromagnetic modeling.

Journal: Physics in medicine and biology

Status: data only, 1 dataset cited

[29738] doi:10.1093/braincomms/fcae062 [paper, data]

Serum myostatin as a candidate disease severity and progression biomarker of spinal muscular atrophy.

Journal: Brain communications

Status: data only, 1 dataset cited

[29739] doi:10.1098/rsos.231036 [paper, repository]

Human arm redundancy: a new approach for the inverse kinematics problem.

Journal: Royal Society open science

Authors' code: compsens.uni-tuebingen.de/compsens/index.php (no license), doi:10.6084/m9.figshare.c.7075591 (no license)

Status: code found, still to be checked

[29740] doi:10.1101/2024.02.26.582043 [paper, data]

Emo-FilM: A multimodal dataset for affective neuroscience using naturalistic stimuli

Journal: bioRxiv (preprint)

Status: data only, 2 datasets cited

[29741] doi:10.1117/1.jbo.29.2.025004 [paper]

Retrieval of chromophore concentration changes in a digital human head model using analytical mean partial pathlengths of photons.

Journal: Journal of biomedical optics

Status: code on request

[29742] doi:10.1126/sciadv.adk9185 [paper, data]

Single-cell herpes simplex virus type 1 infection of neurons using drop-based microfluidics reveals heterogeneous replication kinetics.

Journal: Science advances

Status: data only, 1 dataset cited

[29743] doi:10.1152/jn.00450.2023 [paper, repository]

Coherent categorical information triggers integration-related alpha dynamics.

Journal: Journal of neurophysiology

Authors' code: OSF phmda (no license)

Status: code verified, 4 files readable, 2 matches

[29744] doi:10.1162/imag_a_00099 [paper, repository]

BNPower: a power calculation tool for data-driven network analysis for whole-brain connectome data.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: bichuan0419/brain_connectome_power_tool (GPL-3.0)

Status: code verified, 55 files readable, 5 matches

[29745] doi:10.1177/00302228241236982 [paper, repository]

Beyond Death: Exploring Cultural Perceptions in Cadaveric Organ Donation.

Journal: Omega

Authors' code: Zenodo 8310065 (CC-BY-4.0)

Status: empty repository

[29746] doi:10.1242/bio.060278 [paper, data]

A Drosophila model of mitochondrial disease phenotypic heterogeneity.

Journal: Biology open

Status: data only, 1 dataset cited

[29747] doi:10.1371/journal.pcbi.1011935 [paper, repository]

STGIC: A graph and image convolution-based method for spatial transcriptomic clustering.

Journal: PLoS computational biology

Authors' code: zhangyouwei5/STGIC-master (no license)

Status: code verified, 22 files readable, 7 matches

[29748] doi:10.1371/journal.pone.0298762 [paper, repository]

Epileptic seizure suppression: A computational approach for identification and control using real data.

Journal: PloS one

Authors' code: jafbrogin/identification-control-epileptiform-activity (no license)

Status: code verified, 7 files readable, 1 match

[29749] doi:10.18632/aging.205609 [paper, repository]

Genome-wide transcriptome profiling and development of age prediction models in the human brain.

Journal: Aging

Authors' code: feimae/PrefrontalCortextAgingModel (no license)

Status: code verified, 2 files readable, 3 matches

[29750] doi:10.26508/lsa.202402622 [paper, data]

Lipotype acquisition during neural development is not recapitulated in stem cell-derived neurons.

Journal: Life science alliance

Status: code on request, 2 datasets cited

[29751] doi:10.3389/fpsyg.2023.1260262 [paper, repository]

Song and dance: a memetic angle on the evolution of musicality and music via case studies of a musemeplex in Saint-Saëns and ABBA.

Journal: Frontiers in psychology

Authors' code: youtube.com/watch (no license)

Status: code verified

[29752] doi:10.3390/e26030213 [paper, repository]

Information Geometry Theoretic Measures for Characterizing Neural Information Processing from Simulated EEG Signals.

Journal: Entropy (Basel, Switzerland)

Authors' code: jia-chenhua (no license), jia-chen.hua (no license)

Status: code verified

[29753] doi:10.3390/jcdd11030080 [paper, repository]

Impact of Intracranial Volume and Brain Volume on the Prognostic Value of Computed Tomography Perfusion Core Volume in Acute Ischemic Stroke.

Journal: Journal of cardiovascular development and disease

Authors' code: WCHN/CTseg (GPL-3.0)

Status: code verified, 44 files readable, 2 matches

[29754] doi:10.3390/s24051548 [paper, data]

Auditory Cue Effects on Gait-Phase-Dependent Electroencephalogram (EEG) Modulations during Overground and Treadmill Walking.

Journal: Sensors (Basel, Switzerland)

Status: data only, 1 dataset cited

[29755] doi:10.3758/s13414-024-02866-x [paper, data]

Involvement of the superior colliculi in crossmodal correspondences.

Journal: Attention, perception & psychophysics

Status: data only, 1 dataset cited

[29756] doi:10.7554/elife.90325 [paper, repository]

Temporal transcriptomic dynamics in developing macaque neocortex.

Journal: eLife

Authors' code: cheneylemon/developing-macaque-neocortex (no license)

Status: dead link

Tuesday, 27 February 2024 (29 papers)

[29757] doi:10.1002/hcs2.84 [paper]

Machine learning in neurological disorders: A multivariate LSTM and AdaBoost approach to Alzheimer's disease time series analysis.

Journal: Health care science

Status: code on request

[29758] doi:10.1007/s10278-024-01008-x [paper, repository]

Deep Learning Glioma Grading with the Tumor Microenvironment Analysis Protocol for Comprehensive Learning, Discovering, and Quantifying Microenvironmental Features.

Journal: Journal of imaging informatics in medicine

Authors' code: octpsmon/TME_analysis_protocol_n_glioma_grading (no license)

Status: code verified, 6 files readable, 3 matches

[29759] doi:10.1016/j.bpj.2024.02.025 [paper, repository]

SanPy: Software for the analysis and visualization of whole-cell current-clamp recordings.

Journal: Biophysical journal

Authors' code: cudmore/sanpy (GPL-3.0), Zenodo 7931648 (other-open)

Status: code verified, 223 files readable, 10 matches

[29760] doi:10.1016/j.celrep.2024.113844 [paper]

Neuron cilia restrain glial KCC-3 to a microdomain to regulate multisensory processing.

Journal: Cell reports

Status: code on request

[29761] doi:10.1016/j.celrep.2024.113867 [paper, data]

Loss of GTF2I promotes neuronal apoptosis and synaptic reduction in human cellular models of neurodevelopment.

Journal: Cell reports

Status: code on request, 1 dataset cited

[29762] doi:10.1016/j.dib.2024.110260 [paper, data]

A simultaneous EEG-fNIRS dataset of the visual cognitive motivation study in healthy adults.

Journal: Data in brief

Status: data only, 3 datasets cited

[29763] doi:10.1016/j.isci.2024.109342 [paper, data]

Identity and nature of neural stem cells in the adult human subventricular zone.

Journal: iScience

Status: code on request, 1 dataset cited

[29764] doi:10.1038/s41380-024-02453-4 [paper, data]

Fear memory regulation by the cAMP signaling pathway as an index of reexperiencing symptoms in posttraumatic stress disorder.

Journal: Molecular psychiatry

Status: data only, 1 dataset cited

[29765] doi:10.1038/s41467-024-45579-3 [paper, repository]

Bicarbonate signalling via G protein-coupled receptor regulates ischaemia-reperfusion injury.

Journal: Nature communications

Authors' code: figshare 24431842 (GPL 2.0+)

Status: code verified, 1 file readable

[29766] doi:10.1038/s41467-024-45768-0 [paper, repository]

In-vivo integration of soft neural probes through high-resolution printing of liquid electronics on the cranium.

Journal: Nature communications

Authors' code: codeocean:1696883 (no license)

Status: code found, still to be checked

[29767] doi:10.1038/s41467-024-45908-6 [paper, repository]

Importin 13-dependent axon diameter growth regulates conduction speeds along myelinated CNS axons.

Journal: Nature communications

Authors' code: jasonjearly/axon_caliber (no license), skotuke/mauthner_analysis (no license), Zenodo 10570004 (CC-BY-4.0), Zenodo 10479177 (CC-BY-4.0)

Status: code verified, 10 files readable, 2 matches

[29768] doi:10.1038/s41467-024-45943-3 [paper, repository]

Comparative connectomics of dauer reveals developmental plasticity.

Journal: Nature communications

Authors' code: jabae/Yim-Choe-Bae-et_al-2024 (GPL-3.0), jabae/Cnapse (MIT), Zenodo 10516067 (CC-BY-4.0), Zenodo 10516075 (CC-BY-4.0)

Status: code verified, 24 files readable, 3 matches

[29769] doi:10.1038/s41467-024-46002-7 [paper, repository]

Multi-night cortico-basal recordings reveal mechanisms of NREM slow-wave suppression and spontaneous awakenings in Parkinson's disease.

Journal: Nature communications

Authors' code: MDFahimAnjum (no license)

Status: code verified

[29770] doi:10.1038/s41467-024-46066-5 [paper, data]

Single-pixel p-graded-n junction spectrometers.

Journal: Nature communications

Status: data only, 1 dataset cited

[29771] doi:10.1038/s41588-024-01664-3 [paper, repository]

BANKSY unifies cell typing and tissue domain segmentation for scalable spatial omics data analysis.

Journal: Nature genetics

Authors' code: haotianteng/FICT-SAMPLE (no license), ma-compbio/spicemix (MIT), jianhuupenn/spagcn (MIT), rubd/giotto (MIT), prabhakarlab/Banksy (MIT), jleechung/banksy-zenodo (no license), prabhakarlab/Banksy_py (GPL-3.0), Zenodo 10258795 (CC-BY-4.0)

Status: code verified, 165 files readable, 27 matches

[29772] doi:10.1038/s41597-024-03058-w [paper, repository]

Harmonized diffusion MRI data and white matter measures from the Adolescent Brain Cognitive Development Study.

Journal: Scientific data

Authors' code: pnlbwh/CNN-Diffusion-MRIBrain-Segmentation (other), pnlbwh/multi-shell-dMRIharmonization (other), pnlbwh/dMRIharmonization (other), pnlbwh/ukftractography (other), SlicerDMRI/whitematteranalysis (other), Zenodo 2584275 (CC-BY-4.0)

Status: code verified, 347 files readable, 13 matches

[29773] doi:10.1038/s41598-024-54727-0 [paper, repository]

SlumberNet: deep learning classification of sleep stages using residual neural networks.

Journal: Scientific reports

Authors' code: Zenodo 7899654 (CC-BY-4.0)

Status: code verified, 3 files readable, 14 matches

[29774] doi:10.1093/nargab/lqae021 [paper, repository]

Detecting anomalous proteins using deep representations.

Journal: NAR genomics and bioinformatics

Authors' code: Tomer-Michael/prada (no license), facebookresearch/esm (MIT)

Status: code verified, 122 files readable, 4 matches

[29775] doi:10.1111/acel.14135 [paper, data]

Epigenome-wide analysis of frailty: Results from two European twin cohorts.

Journal: Aging cell

Status: data only, 1 dataset cited

[29776] doi:10.1111/pcn.13652 [paper, repository]

Associations of conservatism and jumping to conclusions biases with aberrant salience and default mode network.

Journal: Psychiatry and clinical neurosciences

Authors' code: tkEzaki/energy-landscape-analysis (MIT)

Status: code verified, 23 files readable, 1 match

[29777] doi:10.1117/1.jbo.29.2.026501 [paper]

Phase contrast reflectance confocal brain imaging at 1650 nm.

Journal: Journal of biomedical optics

Status: code on request

[29778] doi:10.1186/s12915-024-01845-w [paper, repository]

Primary cilia promote the differentiation of human neurons through the WNT signaling pathway.

Journal: BMC biology

Authors' code: my0916/STRT2 (MIT)

Status: code verified, 9 files readable

[29779] doi:10.1186/s40478-024-01740-z [paper]

Decoding of the surfaceome and endocytome in primary glioblastoma cells identifies potential target antigens in the hypoxic tumor niche.

Journal: Acta neuropathologica communications

Status: data only

[29780] doi:10.1242/dmm.050323 [paper, repository]

PTCH1-mutant human cerebellar organoids exhibit altered neural development and recapitulate early medulloblastoma tumorigenesis.

Journal: Disease models & mechanisms

Authors' code: mxvssn (no license)

Status: code verified

[29781] doi:10.1523/eneuro.0437-23.2024 [paper, repository]

The Neural Correlates of Individual Differences in Reinforcement Learning during Pain Avoidance and Reward Seeking.

Journal: eNeuro

Authors' code: tml44/RL_models_PLGT (no license)

Status: code verified, 1 file readable

[29782] doi:10.3389/fnmol.2024.1368905 [paper, data]

Non-severe thermal burn injuries induce long-lasting downregulation of gene expression in cortical excitatory neurons and microglia.

Journal: Frontiers in molecular neuroscience

Status: data only, 1 dataset cited

[29783] doi:10.3390/nano14050429 [paper, data]

Polystyrene Nano- and Microplastic Particles Induce an Inflammatory Gene Expression Profile in Rat Neural Stem Cell-Derived Astrocytes In Vitro.

Journal: Nanomaterials (Basel, Switzerland)

Status: data only, 1 dataset cited

[29784] doi:10.7554/elife.86823 [paper, data]

Plasticity of gene expression in the nervous system by exposure to environmental odorants that inhibit HDACs.

Journal: eLife

Status: data only, 1 dataset cited

[29785] doi:10.7717/peerj-cs.1862 [paper, repository]

A novel approach to recognition of Alzheimer's and Parkinson's diseases: random subspace ensemble classifier based on deep hybrid features with a super-resolution image.

Journal: PeerJ. Computer science

Authors' code: supp:PMC10909220/peerj-cs-10-1862-s001.m (no license)

Status: code verified, 1 file readable

Monday, 26 February 2024 (29 papers, 7 on this page)

[29786] doi:10.1002/jcv2.12228 [paper, repository]

Bifactor models of psychopathology using multi-informant and multi-instrument dimensional measures in the ABCD study.

Journal: JCPP advances

Authors' code: gracejacobs/ABCD_factor_analysis (no license)

Status: code verified, 11 files readable, 5 matches

[29787] doi:10.1007/s00285-024-02047-2 [paper]

A biased random walk approach for modeling the collective chemotaxis of neural crest cells.

Journal: Journal of mathematical biology

Status: code on request

[29788] doi:10.1016/j.xpro.2024.102911 [paper]

Probing cerebellar circuit dysfunction in rodent models of spinocerebellar ataxia by means of in vivo two-photon calcium imaging.

Journal: STAR protocols

Status: code on request

[29789] doi:10.1021/acschemneuro.3c00740 [paper, data]

Beyond CSF and Neuroimaging Assessment: Evaluating Plasma miR-145-5p as a Potential Biomarker for Mild Cognitive Impairment and Alzheimer's Disease.

Journal: ACS chemical neuroscience

Status: data only, 1 dataset cited

[29790] doi:10.1038/s41421-024-00656-1 [paper, repository]

Single-cell multi-omics analysis of lineage development and spatial organization in the human fetal cerebellum.

Journal: Cell discovery

Authors' code: NeuroXplorer-XuLab/Multi-omics-human-cerebellum (no license), BGIResearch/SAW (GPL-3.0)

Status: code verified, 20 files readable, 7 matches

[29791] doi:10.1038/s41467-024-45998-2 [paper, data]

Engineering self-deliverable ribonucleoproteins for genome editing in the brain.

Journal: Nature communications

Status: data only, 2 datasets cited

[29792] doi:10.1038/s41531-024-00647-9 [paper, repository]

Exploiting macro- and micro-structural brain changes for improved Parkinson's disease classification from MRI data.

Journal: NPJ Parkinson's disease

Authors' code: miltoncamachocamacho/PD-SFCNN (no license)

Status: code verified, 5 files readable, 3 matches

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