Every paper, by date: page 142

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 142 of 200: 12 December 2023 to 1 December 2023.

Tuesday, 12 December 2023 (22 papers, 4 on this page)

[31585] doi:10.3389/fphys.2023.1227952 [paper, data]

Automatic epileptic seizure detection based on persistent homology.

Journal: Frontiers in physiology

Status: data only, 2 datasets cited

[31586] doi:10.3390/cells12242824 [paper, data]

Microglial Senescence and Activation in Healthy Aging and Alzheimer's Disease: Systematic Review and Neuropathological Scoring.

Journal: Cells

Status: data only, 1 dataset cited

[31587] doi:10.7554/elife.86552 [paper, repository]

A reservoir of timescales emerges in recurrent circuits with heterogeneous neural assemblies.

Journal: eLife

Authors' code: nistrate/multipletimescalesrnn (no license)

Status: code verified, 7 files readable, 3 matches

[31588] doi:10.7554/elife.88236 [paper, repository]

How hibernation in frogs drives brain and reproductive evolution in opposite directions.

Journal: eLife

Authors' code: figshare 21078052 (CC-BY-4.0)

Status: code verified, 1 file readable, 7 matches

Monday, 11 December 2023 (25 papers)

[31589] doi:10.1016/j.crmeth.2023.100671 [paper, repository]

Opto-electronic feedback control of membrane potential for real-time control of action potentials.

Journal: Cell reports methods

Authors' code: Zenodo 10116142 (GPL-3.0)

Status: code verified

[31590] doi:10.1016/j.neuron.2023.11.013 [paper, repository]

Cortical somatostatin long-range projection neurons and interneurons exhibit divergent developmental trajectories.

Journal: Neuron

Authors' code: Zenodo 10069719 (CC-BY-4.0)

Status: code verified, 27 files readable, 11 matches

[31591] doi:10.1016/j.xcrm.2023.101308 [paper, repository]

Microcircuit failure in STXBP1 encephalopathy leads to hyperexcitability.

Journal: Cell reports. Medicine

Authors' code: modeldb:2014828 (no license), sdalumlarsen/STXBP1 (no license)

Status: code verified, 2 files readable, 1 match

[31592] doi:10.1016/j.xpro.2023.102775 [paper]

Protocol for measuring protein synthesis in specific cell types in the mouse brain using in vivo non-canonical amino acid tagging.

Journal: STAR protocols

Status: code on request

[31593] doi:10.1021/acs.analchem.3c02724 [paper, data]

Toward Omics-Scale Quantitative Mass Spectrometry Imaging of Lipids in Brain Tissue Using a Multiclass Internal Standard Mixture.

Journal: Analytical chemistry

Status: data only, 2 datasets cited

[31594] doi:10.1038/s41467-023-43783-1 [paper, repository]

Puckered and JNK signaling in pioneer neurons coordinates the motor activity of the Drosophila embryo.

Journal: Nature communications

Authors' code: TimSaundersLab (no license)

Status: code verified

[31595] doi:10.1038/s41467-023-43971-z [paper, repository]

Evidence for increased parallel information transmission in human brain networks compared to macaques and male mice.

Journal: Nature communications

Authors' code: agriffa/BrainComm_mammalian_evolution (Apache-2.0)

Status: code verified, 180 files readable, 12 matches

[31596] doi:10.1038/s41551-023-01106-1 [paper, repository]

Dynamical flexible inference of nonlinear latent factors and structures in neural population activity.

Journal: Nature biomedical engineering

Authors' code: earcher/vilds (no license), ShanechiLab/torchDFINE (other)

Status: code verified, 21 files readable, 12 matches

[31597] doi:10.1038/s41551-023-01117-y [paper, repository]

Macroscopic resting-state brain dynamics are best described by linear models.

Journal: Nature biomedical engineering

Authors' code: enozari/rest-system-id (no license)

Status: code verified, 45 files readable, 22 matches

[31598] doi:10.1038/s41598-023-49364-y [paper, repository]

Machine learning identifies phenotypic profile alterations of human dopaminergic neurons exposed to bisphenols and perfluoroalkyls.

Journal: Scientific reports

Authors' code: ksilink/notebooks (no license)

Status: code verified, 37 files readable, 7 matches

[31599] doi:10.1038/s41598-023-49458-7 [paper, repository]

Graph theory analysis reveals an assortative pain network vulnerable to attacks.

Journal: Scientific reports

Authors' code: chenchong446337/pain_netwrok (no license)

Status: code verified, 2 files readable, 5 matches

[31600] doi:10.1038/s43588-023-00568-2 [paper, repository]

Spatial redundancy transformer for self-supervised fluorescence image denoising.

Journal: Nature computational science

Authors' code: cabooster/SRDTrans (GPL-3.0), Zenodo 10023889 (CC-BY-4.0)

Status: code verified, 32 files readable, 2 matches

[31601] doi:10.1073/pnas.2307632120 [paper, data]

The <i>Drosophila</i> NPY-like system protects against chronic stress-induced learning deficit by preventing the disruption of autophagic flux.

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

Status: data only, 1 dataset cited

[31602] doi:10.1073/pnas.2308305120 [paper, data]

The neuropeptide drosulfakinin enhances choosiness and protects males from the aging effects of social perception.

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

Status: data only, 1 dataset cited

[31603] doi:10.1073/pnas.2313999120 [paper, data]

A Na pump with reduced stoichiometry is up-regulated by brine shrimp in extreme salinities.

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

Status: data only, 4 datasets cited

[31604] doi:10.1128/msphere.00379-23 [paper, repository]

Microbiota-mediated effects of Parkinson's disease medications on Parkinsonian non-motor symptoms in male transgenic mice.

Journal: mSphere

Authors' code: ebi.ac.uk/ena/browser (no license)

Status: code verified

[31605] doi:10.1186/s13073-023-01257-5 [paper, data]

Acute ischemia induces spatially and transcriptionally distinct microglial subclusters.

Journal: Genome medicine

Status: data only, 5 datasets cited

[31606] doi:10.1242/dmm.049861 [paper, data]

Neurofibromin 1 mutations impair the function of human induced pluripotent stem cell-derived microglia.

Journal: Disease models & mechanisms

Status: data only, 1 dataset cited

[31607] doi:10.12688/f1000research.131838.3 [paper, data]

The dosage of thiopental as pharmacological cerebral protection during non-shunt carotid endarterectomy: A retrospective study.

Journal: F1000Research

Status: data only, 1 dataset cited

[31608] doi:10.1371/journal.pbio.3002427 [paper, data]

Protein nanobarcodes enable single-step multiplexed fluorescence imaging.

Journal: PLoS biology

Status: data only, 1 dataset cited

[31609] doi:10.1371/journal.pbio.3002432 [paper, repository]

Increased sugar valuation contributes to the evolutionary shift in egg-laying behavior of the fruit pest Drosophila suzukii.

Journal: PLoS biology

Authors' code: supp:PMC10735178/pbio.3002432.s013.py (no license)

Status: code verified, 1 file readable

[31610] doi:10.1371/journal.pcbi.1011713 [paper, repository]

How well do rudimentary plasticity rules predict adult visual object learning?

Journal: PLoS computational biology

Authors' code: himjl/hobj (MIT), mlee3142/hobj (MIT)

Status: code verified, 76 files readable

[31611] doi:10.1371/journal.pone.0295709 [paper, data]

Post-stress changes in the gut microbiome composition in rats with different levels of nervous system excitability.

Journal: PloS one

Status: data only, 1 dataset cited

[31612] doi:10.3389/fnins.2023.1322967 [paper, repository]

Dynamic functional connectivity analysis with temporal convolutional network for attention deficit/hyperactivity disorder identification.

Journal: Frontiers in neuroscience

Authors' code: fchollet/keras (Apache-2.0)

Status: code verified, 996 files readable, 7 matches

[31613] doi:10.7554/elife.90027 [paper, repository]

Assessing drug safety by identifying the axis of arrhythmia in cardiomyocyte electrophysiology.

Journal: eLife

Authors' code: Zenodo 7796721 (GPL-3.0), Zenodo 7070703 (bsd-2-clause-netbsd), Zenodo 5625923 (bsd-2-clause-netbsd), Zenodo 7796720 (GPL-3.0)

Status: code verified, 239 files readable, 2 matches

Sunday, 10 December 2023 (5 papers)

[31614] doi:10.1016/j.brs.2023.12.001 [paper, repository]

Measuring the accuracy of ICA-based artifact removal from TMS-evoked potentials.

Journal: Brain stimulation

Authors' code: jmetsoma/ICA-accuracy-variability (no license)

Status: code verified, 10 files readable, 4 matches

[31615] doi:10.1016/j.dib.2023.109933 [paper, data]

EEG dataset for energy data visualizations.

Journal: Data in brief

Status: data only, 3 datasets cited

[31616] doi:10.1016/j.neuroimage.2023.120494 [paper]

Accuracy of TrUE-Net in comparison to established white matter hyperintensity segmentation methods: An independent validation study.

Journal: NeuroImage

Status: code on request

[31617] doi:10.1159/000535362 [paper, data]

Oxytocin Receptor-Expressing Neurons in the Medial Preoptic Area Are Essential for Lactation, whereas Those in the Lateral Septum Are Not Critical for Maternal Behavior.

Journal: Neuroendocrinology

Status: data only, 2 datasets cited

[31618] doi:10.1186/s13287-023-03580-5 [paper, repository]

Identifying secreted biomarkers of dopaminergic ventral midbrain progenitor cells.

Journal: Stem cell research & therapy

Authors' code: Nesvilab/FragPipe (other)

Status: code verified, 445 files readable, 8 matches

Saturday, 9 December 2023 (11 papers)

[31619] doi:10.1007/s00429-023-02729-5 [paper, repository]

Ventral and dorsal aspects of the inferior frontal-occipital fasciculus support verbal semantic access and visually-guided behavioural control.

Journal: Brain structure & function

Authors' code: TirsoRJGonzalez/GoNoGo_IFOF (no license), OSF gxah6 (no license)

Status: code verified, 3 files readable

[31620] doi:10.1007/s00429-023-02732-w [paper, repository]

Twelve weeks of physical exercise breaks with coordinative exercises at the workplace increase the sulcal depth and decrease gray matter volume in brain structures related to visuomotor processes.

Journal: Brain structure & function

Authors' code: Zenodo 3524401 (other-open)

Status: code verified, 7 files readable

[31621] doi:10.1016/j.dib.2023.109896 [paper, data]

Neurophysiological and biosignal data for investigating occupational mental fatigue: MEFAR dataset.

Journal: Data in brief

Status: data only, 2 datasets cited

[31622] doi:10.1016/j.isci.2023.108703 [paper]

YTHDF3 modulates the Cbln1 level by recruiting BTG2 and is implicated in the impaired cognition of prenatal hypoxia offspring.

Journal: iScience

Status: code on request

[31623] doi:10.1016/j.isci.2023.108706 [paper, data]

Sirt6 regulates the proliferation of neural precursor cells and cortical neurogenesis in mice.

Journal: iScience

Status: code on request, 2 datasets cited

[31624] doi:10.1016/j.nicl.2023.103550 [paper, repository]

Cerebral blood flow and white matter alterations in adults with phenylketonuria.

Journal: NeuroImage. Clinical

Authors' code: kayjann/LOFT-CBF (GPL-3.0)

Status: code verified, 8 files readable, 1 match

[31625] doi:10.1038/s41467-023-43939-z [paper, repository]

The role of experience in prioritizing hippocampal replay.

Journal: Nature communications

Authors' code: Zenodo 10085294 (CC-BY-4.0), dbendor/nat_com_huelin_gorriz_et_al (CC0-1.0)

Status: code verified, 604 files readable, 23 matches

[31626] doi:10.1038/s41467-023-44031-2 [paper, repository]

Harnessing PROTAC technology to combat stress hormone receptor activation.

Journal: Nature communications

Authors' code: ETHZ-INS/MG_A549 (no license), ETHZ-INS/Glucorticoid-protacs (no license), Zenodo 10062726 (CC-BY-4.0), Zenodo 10062719 (CC-BY-4.0)

Status: code verified, 52 files readable, 3 matches

[31627] doi:10.1038/s41597-023-02806-8 [paper, repository]

The BrainLat project, a multimodal neuroimaging dataset of neurodegeneration from underrepresented backgrounds.

Journal: Scientific data

Authors' code: Zenodo 20100528 (CC-BY-4.0), Zenodo 21210680 (CC-BY-4.0), Zenodo 19855980 (CC-BY-4.0), Zenodo 19855981 (CC-BY-4.0)

Status: code verified, 243 files readable

[31628] doi:10.1159/000535748 [paper, data]

Alterations in Serum miR-126-3p Levels over Time: A Marker of Pituitary Insufficiency following Head Trauma.

Journal: Neuroendocrinology

Status: data only, 1 dataset cited

[31629] doi:10.1186/s40001-023-01550-4 [paper]

Differentiation between cerebral alveolar echinococcosis and brain metastases with radiomics combined machine learning approach.

Journal: European journal of medical research

Status: code on request

Friday, 8 December 2023 (29 papers)

[31630] doi:10.1007/s10964-023-01907-2 [paper, repository]

The Association Between Adverse Childhood Experiences (ACEs), Bullying Victimization, and Internalizing and Externalizing Problems Among Early Adolescents: Examining Cumulative and Interactive Associations.

Journal: Journal of youth and adolescence

Authors' code: OSF 862hu (no license)

Status: code verified, 1 file readable

[31631] doi:10.1016/j.celrep.2023.113521 [paper, repository]

Ketogenic diet therapy for pediatric epilepsy is associated with alterations in the human gut microbiome that confer seizure resistance in mice.

Journal: Cell reports

Authors' code: smha118/keto_diet_pediatric_epilepsy (no license), Zenodo 10059754 (CC-BY-4.0), biocore/deblur (BSD-3-Clause), timflutre/trimmomatic (no license), biobakery/biobakery (other), biobakery/humann (MIT), biobakery/MetaPhlAn (MIT), ChiLiubio/file2meco (GPL-3.0)

Status: code verified, 283 files readable, 3 matches

[31632] doi:10.1038/s41467-023-43831-w [paper, data]

Mental search of concepts is supported by egocentric vector representations and restructured grid maps.

Journal: Nature communications

Status: data only, 1 dataset cited

[31633] doi:10.1038/s41467-023-43887-8 [paper, data]

Structural plasticity for neuromorphic networks with electropolymerized dendritic PEDOT connections.

Journal: Nature communications

Status: code on request, 1 dataset cited

[31634] doi:10.1038/s41467-023-43915-7 [paper, repository]

STalign: Alignment of spatial transcriptomics data using diffeomorphic metric mapping.

Journal: Nature communications

Authors' code: JEFworks-Lab/STalign (GPL-3.0), Zenodo 10161694 (CC-BY-4.0)

Status: code verified, 26 files readable, 5 matches

[31635] doi:10.1038/s41467-023-43920-w [paper, repository]

Norepinephrine regulates calcium signals and fate of oligodendrocyte precursor cells in the mouse cerebral cortex.

Journal: Nature communications

Authors' code: ars.els-cdn.com/content/image (no license)

Status: code verified

[31636] doi:10.1038/s41467-023-43996-4 [paper, repository]

Contractile ring mechanosensation and its anillin-dependent tuning during early embryogenesis.

Journal: Nature communications

Authors' code: sugi01/unilateralcytokinesis (BSD-3-Clause)

Status: code verified, 4 files readable, 2 matches

[31637] doi:10.1038/s41539-023-00201-x [paper, data]

Arithmetic skills are associated with left fronto-temporal gray matter volume in 536 children and adolescents.

Journal: NPJ science of learning

Status: data only, 5 datasets cited

[31638] doi:10.1038/s41591-023-02644-6 [paper, data]

Injury-specific factors in the cerebrospinal fluid regulate astrocyte plasticity in the human brain.

Journal: Nature medicine

Status: data only, 1 dataset cited

[31639] doi:10.1038/s41598-023-48183-5 [paper, data]

A realistic computational model for the formation of a Place Cell.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31640] doi:10.1038/s41598-023-48789-9 [paper, data]

Handwriting identification and verification using artificial intelligence-assisted textural features.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31641] doi:10.1038/s42003-023-05611-6 [paper, repository]

Cortical time-course of evidence accumulation during semantic processing.

Journal: Communications biology

Authors' code: Zenodo 10076376 (CC-BY-4.0), wmvanvliet/mne-rsa (BSD-3-Clause), aaltoimaginglanguage/ghazaryan2023 (no license)

Status: code verified, 119 files readable, 11 matches

[31642] doi:10.1038/s42003-023-05630-3 [paper, repository]

Transcranial photobiomodulation improves insulin therapy in diabetic microglial reactivity and the brain drainage system.

Journal: Communications biology

Authors' code: HUST-LAB/microglia-MLV-analysis (no license)

Status: code verified, 1 file readable, 1 match

[31643] doi:10.1126/sciadv.adj4884 [paper, repository]

In vivo protein turnover rates in varying oxygen tensions nominate MYBBP1A as a mediator of the hyperoxia response.

Journal: Science advances

Authors' code: Zenodo 10041932 (CC-BY-4.0), kchen96/silam (no license)

Status: code verified, 12 files readable, 1 match

[31644] doi:10.1162/imag_a_00035 [paper, repository]

Synchrony in auditory 40-Hz gamma oscillations increases in older age and correlates with hearing abilities and cortical GABA levels.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: canlab/MediationToolbox (no license)

Status: code verified, 202 files readable

[31645] doi:10.1162/imag_a_00039 [paper]

Cardiovascular effects on high-resolution 3D multi-shot diffusion MRI of the rhesus macaque brain.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request

[31646] doi:10.1162/imag_a_00046 [paper, repository]

Evaluating functional brain organization in individuals and identifying contributions to network overlap.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: JanineBijsterbosch/Individual_PROFUMO (no license)

Status: code verified, 18 files readable

[31647] doi:10.1186/s10194-023-01691-1 [paper]

Compromised trigemino-coerulean coupling in migraine sensitization can be prevented by blocking beta-receptors in the locus coeruleus.

Journal: The journal of headache and pain

Status: code on request

[31648] doi:10.1186/s12888-023-05433-0 [paper, data]

Causal associations between COVID-19 and childhood mental disorders.

Journal: BMC psychiatry

Status: data only, 1 dataset cited

[31649] doi:10.1186/s41747-023-00390-5 [paper]

Improved postprocessing of dynamic glucose-enhanced CEST MRI for imaging brain metastases at 3 T.

Journal: European radiology experimental

Status: code on request

[31650] doi:10.1242/jeb.246423 [paper, data]

Multiple axes of visual system diversity in Ithomiini, an ecologically diverse tribe of mimetic butterflies.

Journal: The Journal of experimental biology

Status: data only, 2 datasets cited

[31651] doi:10.1371/journal.pcbi.1011692 [paper, repository]

The neurocognitive role of working memory load when Pavlovian motivational control affects instrumental learning.

Journal: PLoS computational biology

Authors' code: CCS-Lab/project_WMDM_public (no license)

Status: code verified, 30 files readable, 4 matches

[31652] doi:10.1371/journal.pone.0295428 [paper, repository]

Improved brain community structure detection by two-step weighted modularity maximization.

Journal: PloS one

Authors' code: GenLouvain/GenLouvain (BSD-2-Clause)

Status: code verified, 46 files readable, 2 matches

[31653] doi:10.1371/journal.pone.0295621 [paper, repository]

A multi-view convolutional neural network method combining attention mechanism for diagnosing autism spectrum disorder.

Journal: PloS one

Authors' code: Mingzhi-W/MAACNN (no license)

Status: dead link

[31654] doi:10.3389/fncir.2023.1272925 [paper, repository]

The flow of axonal information among hippocampal sub-regions 2: patterned stimulation sharpens routing of information transmission.

Journal: Frontiers in neural circuits

Authors' code: Brewer-Neurolab/Lassers-2023-Axon-Flow (MIT)

Status: code verified, 127 files readable, 5 matches

[31655] doi:10.3389/fpsyt.2023.1280326 [paper, repository]

Selectively predicting the onset of ADHD, oppositional defiant disorder, and conduct disorder in early adolescence with high accuracy.

Journal: Frontiers in psychiatry

Authors' code: delacylab/integrated_evolutionary_learning (Apache-2.0)

Status: code verified, 26 files readable, 9 matches

[31656] doi:10.3390/genes14122189 [paper, repository]

Transcriptome Profiling after Early Spinal Cord Injury in the Axolotl and Its Comparison with Rodent Animal Models through RNA-Seq Data Analysis.

Journal: Genes

Authors' code: JCGO221/Axolotl_SCI_Comparatives (no license)

Status: empty repository

[31657] doi:10.3390/jcm12247561 [paper, repository]

The Related Factors and Effect of Electrode Displacement on Motor Outcome of Subthalamic Nuclei Deep Brain Stimulation in Parkinson's Disease.

Journal: Journal of clinical medicine

Authors' code: enigma.ini.usc.edu (no license)

Status: code verified

[31658] doi:10.7717/peerj-cs.1723 [paper, repository]

Survival and grade of the glioma prediction using transfer learning.

Journal: PeerJ. Computer science

Authors' code: svalbr00/tfg (no license)

Status: code verified, 8 files readable, 1 match

Thursday, 7 December 2023 (29 papers)

[31659] doi:10.1016/j.dib.2023.109915 [paper, data]

Clinically acquired new challenging dataset for brain SOL segmentation: AJBDS-2023.

Journal: Data in brief

Status: data only, 2 datasets cited

[31660] doi:10.1016/j.isci.2023.108649 [paper, data]

The right face at the wrong place: How motor intentions can override outcome monitoring.

Journal: iScience

Status: code on request, 1 dataset cited

[31661] doi:10.1016/j.isci.2023.108670 [paper]

Inhibition of 7α,26-dihydroxycholesterol biosynthesis promotes midbrain dopaminergic neuron development.

Journal: iScience

Status: code on request

[31662] doi:10.1016/j.isci.2023.108671 [paper]

Cross-species comparative hippocampal transcriptomics in Alzheimer's disease.

Journal: iScience

Status: code on request

[31663] doi:10.1016/j.isci.2023.108679 [paper]

Pre- and postsynaptic nanostructures increase in size and complexity after induction of long-term potentiation.

Journal: iScience

Status: code on request

[31664] doi:10.1016/j.isci.2023.108688 [paper]

Chromatin target of protein arginine methyltransferases alleviates cerebral ischemia/reperfusion-induced injury by regulating RNA alternative splicing.

Journal: iScience

Status: code on request

[31665] doi:10.1016/j.media.2023.103058 [paper, repository]

Acquisition-invariant brain MRI segmentation with informative uncertainties.

Journal: Medical image analysis

Authors' code: BBillot/SynthSeg (Apache-2.0), pedrob37/Phys_Seg (Apache-2.0)

Status: code verified, 59 files readable, 10 matches

[31666] doi:10.1021/acs.molpharmaceut.3c00880 [paper, repository]

A Comprehensive Study on Nanoparticle Drug Delivery to the Brain: Application of Machine Learning Techniques.

Journal: Molecular pharmaceutics

Authors' code: Introvertuoso/BrainTargeting (no license)

Status: code verified, 8 files readable, 5 matches

[31667] doi:10.1038/s41467-023-43620-5 [paper, repository]

Holistic bursting cells store long-term memory in auditory cortex.

Journal: Nature communications

Authors' code: hbcell/Code (no license)

Status: code verified, 44 files readable

[31668] doi:10.1038/s41467-023-43820-z [paper, data]

SEMA6A drives GnRH neuron-dependent puberty onset by tuning median eminence vascular permeability.

Journal: Nature communications

Status: data only, 5 datasets cited

[31669] doi:10.1038/s41467-023-43841-8 [paper, repository]

TAD evolutionary and functional characterization reveals diversity in mammalian TAD boundary properties and function.

Journal: Nature communications

Authors' code: carbonelab/lastz-pipeline (MIT), carbonelab/axtToSyn (MIT), carbonelab/hicpileup (MIT), carbonelab/hic_workflow (MIT)

Status: code verified, 12 files readable, 2 matches

[31670] doi:10.1038/s41591-023-02653-5 [paper, repository]

Multi-ancestry study of the genetics of problematic alcohol use in over 1 million individuals.

Journal: Nature medicine

Authors' code: gabraham/flashpca (GPL-3.0), odelaneau.github.io/shapeit4 (no license), weizhouUMICH/SAIGE (LGPL-3.0), genetics-statistics/GEMMA (GPL-3.0), bulik/ldsc (GPL-3.0), immunogenomics/cov-ldsc (other), brielin/Popcorn (no license), nlapier2/MsCAVIAR (AGPL-3.0), hakyimlab/MetaXcan (MIT), thewonlab/H-MAGMA (no license), bogdanlab/focus (GPL-3.0), getian107/PRScsx (MIT), PheWAS/PheWAS (no license)

Status: code verified, 2,385 files readable, 8 matches

[31671] doi:10.1038/s41598-023-47316-0 [paper, data]

Complexity and 1/f slope jointly reflect brain states.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31672] doi:10.1038/s41598-023-48646-9 [paper, repository]

Downregulated NPAS4 in multiple brain regions is associated with major depressive disorder.

Journal: Scientific reports

Authors' code: CompGenomeLab/mdd-analysis (no license)

Status: empty repository, 1 file readable

[31673] doi:10.1038/s41598-023-48857-0 [paper, repository]

Experience sampling reveals the role that covert goal states play in task-relevant behavior.

Journal: Scientific reports

Authors' code: willstrawson/StateSpace (no license), vcs.ynic.york.ac.uk/hw1012/go_nogo_experience_sampling (no license), Bronte-Mckeown/mDES_States (no license)

Status: code verified, 43 files readable, 5 matches

[31674] doi:10.1038/s41598-023-49031-2 [paper, data]

Fully automated deep learning models with smartphone applicability for prediction of pain using the Feline Grimace Scale.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31675] doi:10.1073/pnas.2312484120 [paper, repository]

Neural functional theory for inhomogeneous fluids: Fundamentals and applications.

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

Authors' code: Zenodo 8380003 (MIT), Zenodo 8380004 (MIT), sfalmo/NeuralDFT (MIT)

Status: code verified, 5 files readable, 4 matches

[31676] doi:10.1093/braincomms/fcad331 [paper]

Establishing mRNA and microRNA interactions driving disease heterogeneity in amyotrophic lateral sclerosis patient survival.

Journal: Brain communications

Status: data only

[31677] doi:10.1186/s12866-023-03089-0 [paper, data]

Gut dysbacteriosis induces expression differences in the adult head transcriptome of Spodoptera frugiperda in a sex-specific manner.

Journal: BMC microbiology

Status: data only, 1 dataset cited

[31678] doi:10.1186/s12880-023-01160-w [paper, repository]

MedFusionGAN: multimodal medical image fusion using an unsupervised deep generative adversarial network.

Journal: BMC medical imaging

Authors' code: bitzhouzq/Hybrid-MSD-Fusion (no license), jiayi-ma/GTF (no license), tkd1088/multi-exposure-image-fusion (no license), bitname/Multi-focus-image-fusion-GFDF (MIT), budaoxiaowanzi/image-fusion (no license), cindydeng1991/TPAMI-CU-Net (no license), Linfeng-Tang/SwinFusion (no license)

Status: code verified, 400 files readable, 1 match

[31679] doi:10.1186/s40035-023-00389-3 [paper, repository]

Novel data-driven subtypes and stages of brain atrophy in the ALS-FTD spectrum.

Journal: Translational neurodegeneration

Authors' code: ucl-pond/pySuStaIn (MIT)

Status: code verified, 19 files readable, 4 matches

[31680] doi:10.1371/journal.pcbi.1011606 [paper, repository]

Motoneuron-driven computational muscle modelling with motor unit resolution and subject-specific musculoskeletal anatomy.

Journal: PLoS computational biology

Authors' code: ArnaultCAILLET/MN-driven-Neuromuscular-Model-with-motor-unit-resolution (no license), ArnaultCAILLET/Caillet-et-al-2022-PLOS_Comput_Biol (no license)

Status: code verified, 61 files readable, 19 matches

[31681] doi:10.1371/journal.pone.0295413 [paper, data]

Transcranial magnetic stimulation combined with endogenous human hippocampal and motor cortical activity enhances memory.

Journal: PloS one

Status: data only, 1 dataset cited

[31682] doi:10.1371/journal.ppat.1011844 [paper, data]

Deep analysis of CD4 T cells in the rhesus CNS during SIV infection.

Journal: PLoS pathogens

Status: data only, 1 dataset cited

[31683] doi:10.21037/tcr-23-1123 [paper, data]

A model for predicting clinical prognosis based on brain metastasis-related genes in patients with breast cancer.

Journal: Translational cancer research

Status: data only, 1 dataset cited

[31684] doi:10.3389/fncel.2023.1281932 [paper, repository]

Different responses of mice and rats hippocampus CA1 pyramidal neurons to <i>in vitro</i> and <i>in vivo</i>-like inputs.

Journal: Frontiers in cellular neuroscience

Authors' code: modeldb:2014816 (no license)

Status: code verified

[31685] doi:10.3389/fnhum.2023.1112415 [paper, repository]

Sharp detection of oscillation packets in rich time-frequency representations of neural signals.

Journal: Frontiers in human neuroscience

Authors' code: TransylvanianInstituteOfNeuroscience/OscillationDetection (no license)

Status: code verified, 16 files readable, 2 matches

[31686] doi:10.3389/fnins.2023.1287584 [paper, data]

Adolescent social housing protects against adult emotional and cognitive deficits and alters the PFC and NAc transcriptome in male and female C57BL/6J mice.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[31687] doi:10.7554/elife.89682 [paper, repository]

Postsynaptic mitochondria are positioned to support functional diversity of dendritic spines.

Journal: eLife

Authors' code: Zenodo 10278270 (CC-BY-4.0)

Status: empty repository

Wednesday, 6 December 2023 (33 papers)

[31688] doi:10.1002/jcv2.12210 [paper, data]

Interplay of early negative life events, development of orbitofrontal cortical thickness and depression in young adulthood.

Journal: JCPP advances

Status: data only, 2 datasets cited

[31689] doi:10.1016/j.celrep.2023.113532 [paper, repository]

Cortical circuitry mediating interareal touch signal amplification.

Journal: Cell reports

Authors' code: peronlab (no license)

Status: code verified

[31690] doi:10.1016/j.celrep.2023.113544 [paper, data]

A mitochondrial inside-out iron-calcium signal reveals drug targets for Parkinson's disease.

Journal: Cell reports

Status: code on request, 1 dataset cited

[31691] doi:10.1038/s41398-023-02662-5 [paper, data]

Integrative analysis of long noncoding RNAs dysregulation and synapse-associated ceRNA regulatory axes in autism.

Journal: Translational psychiatry

Status: data only, 1 dataset cited

[31692] doi:10.1038/s41551-023-01155-6 [paper, repository]

Multifocal fluorescence video-rate imaging of centimetre-wide arbitrarily shaped brain surfaces at micrometric resolution.

Journal: Nature biomedical engineering

Authors' code: Crazyonxh/SMART-microscopy (no license), Zenodo 10034030 (CC-BY-4.0), Zenodo 10033824 (CC-BY-4.0)

Status: code verified, 6 files readable, 1 match

[31693] doi:10.1038/s41586-023-06801-2 [paper, data]

TAF15 amyloid filaments in frontotemporal lobar degeneration.

Journal: Nature

Status: data only, 2 datasets cited

[31694] doi:10.1038/s41586-023-06802-1 [paper, repository]

Organ aging signatures in the plasma proteome track health and disease.

Journal: Nature

Authors' code: james-cole/brainageR (LGPL-3.0), hamiltonoh/organage (MIT), Zenodo 22957158 (MIT), Zenodo 22957159 (MIT)

Status: code verified, 115 files readable, 2 matches

[31695] doi:10.1038/s41598-023-47835-w [paper, repository]

Social groups and polarization of aesthetic values from symmetry and complexity.

Journal: Scientific reports

Authors' code: gitlab.pavlovia.org/haleemer/ct6 (no license)

Status: dead link

[31696] doi:10.1038/s41598-023-48132-2 [paper, data]

Individual differences in rhythm perception modulate music-related motor learning: a neurobehavioral training study with children.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31697] doi:10.1038/s41598-023-48649-6 [paper, repository]

AI-assisted quantification of hypothalamic atrophy in amyotrophic lateral sclerosis by convolutional neural network-based automatic segmentation.

Journal: Scientific reports

Authors' code: vernikouskaya/hypothalamus_segmentation (MIT)

Status: code verified, 11 files readable, 3 matches

[31698] doi:10.1073/pnas.2307884120 [paper, data]

Hippocampal contributions to novel spatial learning are both age-related and age-invariant.

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

Status: data only, 1 dataset cited

[31699] doi:10.1080/17470919.2023.2284999 [paper, repository]

Desensitized gamers? Violent video game exposure and empathy for pain in adolescents - an ERP study.

Journal: Social neuroscience

Authors' code: OSF eack9 (no license)

Status: code verified, 1 file readable

[31700] doi:10.1098/rsob.230253 [paper, repository]

Serum amyloid P component accumulates and persists in neurones following traumatic brain injury.

Journal: Open biology

Authors' code: doi:10.6084/m9.figshare.c.6935483 (no license)

Status: code found, still to be checked

[31701] doi:10.1098/rsos.231450 [paper, repository]

Transcriptomic signatures associated with underlying rapid changes in the early phase brain of bi-directional sex change in <i>Trimma okinawae</i>.

Journal: Royal Society open science

Authors' code: doi:10.5061/dryad.vdncjsz0r (no license), doi:10.6084/m9.figshare.c.6957171 (no license)

Status: code verified

[31702] doi:10.1101/2023.12.05.570285 [paper, data]

Beta and theta oscillations track effort and previous reward in human basal ganglia and prefrontal cortex during decision making

Journal: bioRxiv (preprint)

Status: data only, 1 dataset cited

[31703] doi:10.1126/sciadv.adh9620 [paper, data]

A neuronal coping mechanism linking stress-induced anxiety to motivation for reward.

Journal: Science advances

Status: data only, 1 dataset cited

[31704] doi:10.1186/s12864-023-09674-x [paper]

Predictive value of CCL2 in the prognosis and immunotherapy response of glioblastoma multiforme.

Journal: BMC genomics

Status: data only

[31705] doi:10.1186/s12864-023-09842-z [paper, data]

Integrative analysis of TBI data reveals Lgmn as a key player in immune cell-mediated ferroptosis.

Journal: BMC genomics

Status: data only, 1 dataset cited

[31706] doi:10.1186/s12866-023-03103-5 [paper, data]

Multi-omics analyses of gut microbiota via 16S rRNA gene sequencing, LC-MS/MS and diffusion tension imaging reveal aberrant microbiota-gut-brain axis in very low or extremely low birth weight infants with white matter injury.

Journal: BMC microbiology

Status: data only, 1 dataset cited

[31707] doi:10.1186/s40001-023-01360-8 [paper, data]

SNAP25 is a potential target for early stage Alzheimer's disease and Parkinson's disease.

Journal: European journal of medical research

Status: data only, 1 dataset cited

[31708] doi:10.1371/journal.pcbi.1011645 [paper, repository]

Major depressive disorder and bistability in an HPA-CNS toggle switch.

Journal: PLoS computational biology

Authors' code: benron20/MDD-and-bistability-in-the-HPA-stress-axis (no license), supp:PMC10699645/pcbi.1011645.s001.py (no license), supp:PMC10699645/pcbi.1011645.s002.py (no license), supp:PMC10699645/pcbi.1011645.s003.py (no license), supp:PMC10699645/pcbi.1011645.s004.py (no license), supp:PMC10699645/pcbi.1011645.s005.py (no license), supp:PMC10699645/pcbi.1011645.s006.ipynb (no license), supp:PMC10699645/pcbi.1011645.s007.py (no license), supp:PMC10699645/pcbi.1011645.s008.py (no license), supp:PMC10699645/pcbi.1011645.s009.py (no license), supp:PMC10699645/pcbi.1011645.s010.py (no license), supp:PMC10699645/pcbi.1011645.s011.py (no license), supp:PMC10699645/pcbi.1011645.s012.py (no license)

Status: code verified, 27 files readable

[31709] doi:10.1523/jneurosci.0709-23.2023 [paper, repository]

Prospection of Potential Actions during Visual Working Memory Starts Early, Is Flexible, and Predicts Behavior.

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

Authors' code: rosenasrawi/SequentialEncoding (no license), rosenasrawi/SequentialEncoding-analysis (no license)

Status: code verified, 57 files readable, 7 matches

[31710] doi:10.1523/jneurosci.0886-23.2023 [paper, repository]

Bursting with Potential: How Sensorimotor Beta Bursts Develop from Infancy to Adulthood.

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

Authors' code: danclab/dev_beta_claw (GPL-3.0), danclab/burst_detection (no license)

Status: code verified, 45 files readable, 15 matches

[31711] doi:10.3389/fcimb.2023.1321855 [paper, data]

Salivary signatures of oral-brain communication in sleep bruxers.

Journal: Frontiers in cellular and infection microbiology

Status: data only, 1 dataset cited

[31712] doi:10.3389/fnagi.2023.1293164 [paper, data]

A tau fragment links depressive-like behaviors and cognitive declines in Alzheimer's disease mouse models through attenuating mitochondrial function.

Journal: Frontiers in aging neuroscience

Status: data only, 1 dataset cited

[31713] doi:10.3389/fnhum.2023.1228808 [paper, repository]

The role of the left ventral occipitotemporal cortex in speech processing-The influence of visual deprivation.

Journal: Frontiers in human neuroscience

Authors' code: OSF kzjw2 (no license)

Status: code verified, 6 files readable

[31714] doi:10.3389/fninf.2023.1297874 [paper, data]

Few-shot EEG sleep staging based on transductive prototype optimization network.

Journal: Frontiers in neuroinformatics

Status: data only, 1 dataset cited

[31715] doi:10.3389/fnins.2023.1252850 [paper, repository]

Characterization of dynamic patterns of human fetal to neonatal brain asymmetry with deformation-based morphometry.

Journal: Frontiers in neuroscience

Authors' code: CST333/fet2neo_asymmetry (no license)

Status: code verified, 10 files readable, 1 match

[31716] doi:10.3390/brainsci13121677 [paper, data]

Reduced Age-Related Gray Matter Loss in the Orbitofrontal Cortex in Long-Term Meditators.

Journal: Brain sciences

Status: data only, 1 dataset cited

[31717] doi:10.3390/jimaging9120271 [paper, repository]

Brain Age Prediction Using 2D Projections Based on Higher-Order Statistical Moments and Eigenslices from 3D Magnetic Resonance Imaging Volumes.

Journal: Journal of imaging

Authors' code: emojjon/eigen-moments-brain-age (no license)

Status: empty repository

[31718] doi:10.3390/s23249646 [paper, data]

Bioinspired Photoreceptors with Neural Network for Recognition and Classification of Sign Language Gesture.

Journal: Sensors (Basel, Switzerland)

Status: data only, 1 dataset cited

[31719] doi:10.7554/elife.86740 [paper, repository]

Adaptive biasing of action-selective cortical build-up activity by stimulus history.

Journal: eLife

Authors' code: donnerlab/2023_brauna_adaptive_biasing_of_action-selective_cortical_build-up_activity_by_stimulus_history (GPL-2.0), mackelab/serial_decision (no license)

Status: code verified, 147 files readable, 21 matches

[31720] doi:10.7554/elife.91627 [paper, repository]

Modeling apical and basal tree contribution to orientation selectivity in a mouse primary visual cortex layer 2/3 pyramidal cell.

Journal: eLife

Authors' code: kepetousakis/petousakis_etal_2023 (GPL-3.0), modeldb:267501 (no license)

Status: code verified, 24 files readable, 4 matches

Tuesday, 5 December 2023 (25 papers)

[31721] doi:10.1007/s00259-023-06530-8 [paper]

Florbetapir PET-assessed demyelination is associated with faster tau accumulation in an APOE ε4-dependent manner.

Journal: European journal of nuclear medicine and molecular imaging

Status: code on request

[31722] doi:10.1016/j.csbj.2023.12.004 [paper, repository]

DeepNeuropePred: A robust and universal tool to predict cleavage sites from neuropeptide precursors by protein language model.

Journal: Computational and structural biotechnology journal

Authors' code: isyslab-hust/DeepNeuropePred (MIT), facebookresearch/esm (MIT), pallets/flask (BSD-3-Clause), celery/celery (BSD-3-Clause)

Status: code verified, 642 files readable, 1 match

[31723] doi:10.1016/j.omtn.2023.102085 [paper, data]

Recommendations for detection, validation, and evaluation of RNA editing events in cardiovascular and neurological/neurodegenerative diseases.

Journal: Molecular therapy. Nucleic acids

Status: data only, 6 datasets cited

[31724] doi:10.1016/j.redox.2023.102982 [paper, data]

IL-10 protects against OPC ferroptosis by regulating lipid reactive oxygen species levels post stroke.

Journal: Redox biology

Status: data only, 1 dataset cited

[31725] doi:10.1038/s41380-023-02335-1 [paper, repository]

Sleep spindle architecture associated with distinct clinical phenotypes in older adults at risk for dementia.

Journal: Molecular psychiatry

Authors' code: OSF 3gqb9 (no license)

Status: code verified, 1 file readable, 5 matches

[31726] doi:10.1038/s41380-023-02336-0 [paper, repository]

Oxytocin activity in the paraventricular and supramammillary nuclei of the hypothalamus is essential for social recognition memory in rats.

Journal: Molecular psychiatry

Authors' code: shainetser/TrackRodent (no license)

Status: code verified, 1 file readable

[31727] doi:10.1038/s41467-023-43471-0 [paper, data]

Enhanced production of mesencephalic dopaminergic neurons from lineage-restricted human undifferentiated stem cells.

Journal: Nature communications

Status: data only, 1 dataset cited

[31728] doi:10.1038/s41467-023-43606-3 [paper, data]

A monoacylglycerol lipase inhibitor showing therapeutic efficacy in mice without central side effects or dependence.

Journal: Nature communications

Status: data only, 1 dataset cited

[31729] doi:10.1038/s41467-023-43747-5 [paper, repository]

Neural substrates of parallel devaluation-sensitive and devaluation-insensitive Pavlovian learning in humans.

Journal: Nature communications

Authors' code: evapool/PavlovianPredictions (no license), Zenodo 10004873 (CC-BY-4.0)

Status: code verified, 14 files readable, 3 matches

[31730] doi:10.1038/s41467-023-43834-7 [paper, data]

Phox2b-expressing neurons contribute to breathing problems in Kcnq2 loss- and gain-of-function encephalopathy models.

Journal: Nature communications

Status: data only, 1 dataset cited

[31731] doi:10.1038/s41592-023-02080-x [paper, repository]

In vitro modeling of the human dopaminergic system using spatially arranged ventral midbrain-striatum-cortex assembloids.

Journal: Nature methods

Authors' code: bardylab/miscos_org_ephys (GPL-2.0)

Status: code verified, 46 files readable, 6 matches

[31732] doi:10.1093/braincomms/fcad332 [paper, repository]

The sequence of regional structural disconnectivity due to multiple sclerosis lesions.

Journal: Brain communications

Authors' code: EuroPOND/pyebm (GPL-3.0)

Status: code verified, 19 files readable, 1 match

[31733] doi:10.1117/1.jbo.29.5.052914 [paper]

Evaluating backscattering polarized light imaging microstructural mapping capabilities through neural tissue and analogous phantom imaging.

Journal: Journal of biomedical optics

Status: code on request

[31734] doi:10.1155/2023/3819587 [paper, repository]

Segmentation of Dynamic Total-Body [¹⁸F]-FDG PET Images Using Unsupervised Clustering.

Journal: International journal of biomedical imaging

Authors' code: rklen/Dynamic_FDG_PET_clustering (GPL-3.0)

Status: code verified, 4 files readable, 2 matches

[31735] doi:10.1159/000535241 [paper, data]

Electroencephalographic Abnormalities in a Patient Suffering from Long-Term Neuropsychological Complications following SARS-CoV-2 Infection.

Journal: Case reports in neurology

Status: data only, 1 dataset cited

[31736] doi:10.1162/imag_a_00041 [paper, repository]

BASIL: A toolbox for perfusion quantification using arterial spin labelling.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: physimals (no license), physimals/oxford_asl (Apache-2.0)

Status: code verified, 26 files readable, 8 matches

[31737] doi:10.1186/s12987-023-00491-8 [paper, repository]

SCO-spondin knockout mice exhibit small brain ventricles and mild spine deformation.

Journal: Fluids and barriers of the CNS

Authors' code: teamnbc/MouSpine (GPL-3.0), teamnbc/MouSpineR (no license)

Status: code verified, 18 files readable, 2 matches

[31738] doi:10.1186/s13195-023-01349-9 [paper, repository]

Whole-brain modeling of the differential influences of amyloid-beta and tau in Alzheimer's disease.

Journal: Alzheimer's research & therapy

Authors' code: dagush/wholebrain (no license)

Status: code verified, 159 files readable, 20 matches

[31739] doi:10.1186/s40708-023-00212-9 [paper, repository]

Behavioural relevance of redundant and synergistic stimulus information between functionally connected neurons in mouse auditory cortex.

Journal: Brain informatics

Authors' code: Zenodo 850362 (GPL-2.0), epiasini/subpid (GPL-3.0)

Status: code verified, 14 files readable, 2 matches

[31740] doi:10.3389/fnbeh.2023.1288616 [paper, data]

Patterns of attentional bias in antenatal depression: an eye-tracking study.

Journal: Frontiers in behavioral neuroscience

Status: data only, 1 dataset cited

[31741] doi:10.3389/fnmol.2023.1304224 [paper, data]

Construction and validation of a risk model based on the key SNARE proteins to predict the prognosis and immune microenvironment of gliomas.

Journal: Frontiers in molecular neuroscience

Status: data only, 1 dataset cited

[31742] doi:10.3389/fpsyt.2023.1253727 [paper, data]

A feasibility study of goal-directed network-based real-time fMRI neurofeedback for anhedonic depression.

Journal: Frontiers in psychiatry

Status: data only, 2 datasets cited

[31743] doi:10.3390/biomedicines11123223 [paper, data]

Classification of First-Episode Psychosis with EEG Signals: ciSSA and Machine Learning Approach.

Journal: Biomedicines

Status: data only, 4 datasets cited

[31744] doi:10.3390/brainsci13121675 [paper, data]

Prefrontal and Motor Planning Cortical Activity during Stepping Tasks Is Related to Task Complexity but Not Concern about Falling in Older People: A fNIRS Study.

Journal: Brain sciences

Status: data only, 1 dataset cited

[31745] doi:10.3390/diagnostics13243604 [paper, repository]

Deep Learning-Based Extraction of Biomarkers for the Prediction of the Functional Outcome of Ischemic Stroke Patients.

Journal: Diagnostics (Basel, Switzerland)

Authors' code: GravO8/CT-preprocess (MIT), GravO8/mrs-dl (no license)

Status: code verified, 62 files readable, 9 matches

Monday, 4 December 2023 (23 papers)

[31746] doi:10.1016/j.crmeth.2023.100653 [paper]

Brain-wide circuit-specific targeting of astrocytes.

Journal: Cell reports methods

Status: code on request

[31747] doi:10.1016/j.gim.2023.101035 [paper, data]

Clinical variants paired with phenotype: A rich resource for brain gene curation.

Journal: Genetics in medicine : official journal of the American College of Medical Genetics

Status: data only, 1 dataset cited

[31748] doi:10.1016/j.xgen.2023.100454 [paper, repository]

Single-cell methylation analysis of brain tissue prioritizes mutations that alter transcription.

Journal: Cell genomics

Authors' code: FelixKrueger/Bismark (GPL-3.0), satijalab/seurat (other), satijalab/sctransform (GPL-3.0), jonathanflint2/CodeForMethylationPaper (no license), figshare 23632044 (CC-BY-4.0), Zenodo 10051912 (CC-BY-4.0)

Status: code verified, 463 files readable, 7 matches

[31749] doi:10.1038/s41467-023-43088-3 [paper, repository]

Isochronic development of cortical synapses in primates and mice.

Journal: Nature communications

Authors' code: google/neuroglancer (Apache-2.0), Hanyu-Li/klab_utils (no license), mmbios.pitt.edu/aligntk-home (no license), knorwood0/MNRVA (GPL-3.0), Hanyu-Li/em_mask (MIT)

Status: code verified, 1,017 files readable, 1 match

[31750] doi:10.1038/s41467-023-43146-w [paper, repository]

Longitudinal development of category representations in ventral temporal cortex predicts word and face recognition.

Journal: Nature communications

Authors' code: vistalab/vistasoft (no license), mezera/mrQ (MIT), VPNL/distributedVTCDevelopment (no license), Zenodo 8366779 (other-open), vistalab (no license), VPNL/fLoc (no license)

Status: code verified, 2,198 files readable, 5 matches

[31751] doi:10.1038/s41467-023-43728-8 [paper, data]

JUN upregulation drives aberrant transposable element mobilization, associated innate immune response, and impaired neurogenesis in Alzheimer's disease.

Journal: Nature communications

Status: data only, 1 dataset cited

[31752] doi:10.1038/s41467-023-43741-x [paper, repository]

Blazed oblique plane microscopy reveals scale-invariant inference of brain-wide population activity.

Journal: Nature communications

Authors' code: danionella/hoffmann_et_al_2023 (MIT)

Status: code verified, 13 files readable, 3 matches

[31753] doi:10.1038/s41559-023-02253-z [paper, repository]

The evolution of human altriciality and brain development in comparative context.

Journal: Nature ecology & evolution

Authors' code: figshare 22242724 (CC-BY-4.0), JeroenSmaers/evomap (MIT)

Status: code verified, 23 files readable, 15 matches

[31754] doi:10.1038/s41597-023-02752-5 [paper, repository]

Introducing MEG-MASC a high-quality magneto-encephalography dataset for evaluating natural speech processing.

Journal: Scientific data

Authors' code: kingjr/meg-masc (BSD-3-Clause)

Status: code verified, 4 files readable, 3 matches

[31755] doi:10.1038/s41597-023-02789-6 [paper, repository]

Unveiling Hypothalamic Molecular Signatures via Retrograde Viral Tracing and Single-Cell Transcriptomics.

Journal: Scientific data

Authors' code: figshare 21981251 (CC-BY-4.0), Junaid13913/PostnatalMouseHypothalamus_SingleCellTranscriptome (MIT)

Status: code verified, 4 files readable, 14 matches

[31756] doi:10.1038/s41598-023-41326-8 [paper, repository]

Signature methods for brain-computer interfaces.

Journal: Scientific reports

Authors' code: XiaoqiXu77/Signature_BCI (no license)

Status: code verified, 2 files readable, 2 matches

[31757] doi:10.1038/s41598-023-48439-0 [paper]

Cerebral microcirculatory pulse wave propagation and pulse wave amplitude mapping in retrospectively gated MRI.

Journal: Scientific reports

Status: code on request

[31758] doi:10.1159/000534772 [paper, data]

Report of a Novel Homozygous Intragenic <i>DCC</i> Duplication and a Review of Literature of Developmental Split-Brain Syndrome aka Horizontal Gaze Palsy with Progressive Scoliosis-2 with Impaired Intellectual Development Syndrome.

Journal: Molecular syndromology

Status: data only, 1 dataset cited

[31759] doi:10.1162/imag_a_00036 [paper, repository]

Directional sensitivity of cortical neurons towards TMS-induced electric fields.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: modeldb:241165 (no license)

Status: code verified

[31760] doi:10.1162/imag_a_00042 [paper, repository]

A resource for development and comparison of multimodal brain 3 T MRI harmonisation approaches.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: spmic-uon/on-harmony_ukbb_pipeline (other), SPMIC-UoN/3T_MRI_harmonisation (no license)

Status: code verified, 133 files readable, 15 matches

[31761] doi:10.1186/s12987-023-00494-5 [paper, repository]

A metabolomics study in aqueous humor discloses altered arginine metabolism in Parkinson's disease.

Journal: Fluids and barriers of the CNS

Authors' code: JoanSerranoMarin/PD (no license)

Status: code verified, 7 files readable

[31762] doi:10.1186/s13063-023-07680-8 [paper, repository]

High-density transcranial direct current stimulation to improve upper limb motor function following stroke: study protocol for a double-blind randomized clinical trial targeting prefrontal and/or cerebellar cognitive contributions to voluntary motion.

Journal: Trials

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

Status: code verified

[31763] doi:10.1371/journal.pbio.3002384 [paper, data]

Neurons in the primary visual cortex of freely moving rats encode both sensory and non-sensory task variables.

Journal: PLoS biology

Status: data only, 2 datasets cited

[31764] doi:10.3389/fendo.2023.1221043 [paper, data]

Exploring potential genes and mechanisms linking erectile dysfunction and depression.

Journal: Frontiers in endocrinology

Status: data only, 1 dataset cited

[31765] doi:10.3389/fneur.2023.1264322 [paper, repository]

The involvement of brain regions associated with lower KPS and shorter survival time predicts a poor prognosis in glioma.

Journal: Frontiers in neurology

Authors' code: neurostuff/NiMARE (MIT)

Status: code verified, 185 files readable, 2 matches

[31766] doi:10.3892/etm.2023.12336 [paper, data]

Acute lymphoblastic leukemia with central nervous system <i>Aspergillus</i> infection: A case report and literature review.

Journal: Experimental and therapeutic medicine

Status: data only, 1 dataset cited

[31767] doi:10.7554/elife.88172 [paper, repository]

Network-level changes in the brain underlie fear memory strength.

Journal: eLife

Authors' code: johaubrich/Networks (MIT)

Status: empty repository, 2 files readable

[31768] doi:10.7554/elife.89366 [paper, data]

Zona incerta distributes a broad movement signal that modulates behavior.

Journal: eLife

Status: data only, 1 dataset cited

Sunday, 3 December 2023 (4 papers)

[31769] doi:10.1038/s41598-023-48764-4 [paper, repository]

High frequency oscillations in relation to interictal spikes in predicting postsurgical seizure freedom.

Journal: Scientific reports

Authors' code: HFO-detect (no license)

Status: code verified

[31770] doi:10.3390/bioengineering10121388 [paper, data]

Brain Active Areas Associated with a Mental Arithmetic Task: An eLORETA Study.

Journal: Bioengineering (Basel, Switzerland)

Status: data only, 1 dataset cited

[31771] doi:10.3390/diagnostics13233592 [paper, data]

Exploring Huntington's Disease Diagnosis via Artificial Intelligence Models: A Comprehensive Review.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 1 dataset cited

[31772] doi:10.3390/s23239588 [paper, data]

Classification of Targets and Distractors in an Audiovisual Attention Task Based on Electroencephalography.

Journal: Sensors (Basel, Switzerland)

Status: data only, 3 datasets cited

Saturday, 2 December 2023 (7 papers)

[31773] doi:10.1002/hipo.23589 [paper, repository]

A configural context signal simultaneously but separably drives positioning and orientation of hippocampal place fields.

Journal: Hippocampus

Authors' code: figshare 24042108 (CC-BY-4.0)

Status: code verified

[31774] doi:10.1007/s11695-023-06957-w [paper, data]

Bilateral Subdiaphragmatic Vagal Nerve Stimulation Using a Novel Waveform Decreases Body Weight, Food Consumption, Adiposity, and Activity in Obesity-Prone Rats.

Journal: Obesity surgery

Status: data only, 1 dataset cited

[31775] doi:10.1016/j.cpt.2023.11.006 [paper]

Intraoperative glioblastoma surgery-current challenges and clinical trials: An update.

Journal: Cancer pathogenesis and therapy

Status: code on request

[31776] doi:10.1016/j.isci.2023.108617 [paper, data]

TRPC4 deletion elicits behavioral defects in sociability by dysregulating expression of microRNA-138-2.

Journal: iScience

Status: code on request, 1 dataset cited

[31777] doi:10.1016/j.xpro.2023.102760 [paper, repository]

Protocol to image and analyze hippocampal network dynamics in non-anesthetized mouse pups.

Journal: STAR protocols

Authors' code: cossartlab/motion-correction (no license), Zenodo 10041302 (CC-BY-4.0), Zenodo 10041434 (CC-BY-4.0)

Status: code verified, 3 files readable

[31778] doi:10.1038/s41398-023-02661-6 [paper, repository]

Extreme deviations from the normative model reveal cortical heterogeneity and associations with negative symptom severity in first-episode psychosis from the OPTiMiSE and GAP studies.

Journal: Translational psychiatry

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

Status: code verified, 126 files readable

[31779] doi:10.1038/s41598-023-48656-7 [paper, repository]

Processing of the same narrative stimuli elicits common functional connectivity dynamics between individuals.

Journal: Scientific reports

Authors' code: OSF ewuyk (no license)

Status: code verified, 2 files readable

Friday, 1 December 2023 (56 papers, 29 on this page)

[31780] doi:10.1001/jamanetworkopen.2023.49659 [paper, repository]

Brain Health After COVID-19, Pneumonia, Myocardial Infarction, or Critical Illness.

Journal: JAMA network open

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

Status: code verified

[31781] doi:10.1016/j.cell.2023.11.028 [paper, data]

LRRC37B is a human modifier of voltage-gated sodium channels and axon excitability in cortical neurons.

Journal: Cell

Status: code on request, 1 dataset cited

[31782] doi:10.1016/j.isci.2023.108603 [paper]

Hippocampal cognitive and relational map paradigms explored by multisensory encoding recording with wide-field calcium imaging.

Journal: iScience

Status: code on request

[31783] doi:10.1038/s12276-023-01123-9 [paper, data]

Spatiotemporal characterization of glial cell activation in an Alzheimer's disease model by spatially resolved transcriptomics.

Journal: Experimental & molecular medicine

Status: data only, 1 dataset cited

[31784] doi:10.1038/s41398-023-02674-1 [paper]

Preliminary evidence that ketamine alters anterior cingulate resting-state functional connectivity in depressed individuals.

Journal: Translational psychiatry

Status: code on request

[31785] doi:10.1038/s41467-023-43490-x [paper, repository]

Emergence of the cortical encoding of phonetic features in the first year of life.

Journal: Nature communications

Authors' code: cnspworkshop.net (no license), OSF mdnwg (no license), mickcrosse/mTRF-Toolbox (BSD-3-Clause), audition.ens.fr/adc/noisetools (no license)

Status: code verified, 82 files readable, 11 matches

[31786] doi:10.1038/s41467-023-43737-7 [paper, repository]

Opposing brain signatures of sleep in task-based and resting-state conditions.

Journal: Nature communications

Authors' code: KamitaniLab/bdpy (MIT), FelskyLab/sleep_depression_2023 (no license), Zenodo 10050660 (CC-BY-4.0)

Status: code verified, 177 files readable, 10 matches

[31787] doi:10.1038/s41597-023-02598-x [paper, repository]

A multi-omics dataset for the analysis of frontotemporal dementia genetic subtypes.

Journal: Scientific data

Authors' code: dznetubingen/cageseq-pipeline-mf (no license), figshare 23825595 (CC-BY-4.0), dznetubingen/rimod-ftd-dataset (no license)

Status: code verified, 23 files readable, 8 matches

[31788] doi:10.1038/s41598-023-48054-z [paper, repository]

Data-driven distillation and precision prognosis in traumatic brain injury with interpretable machine learning.

Journal: Scientific reports

Authors' code: BouchardLab/ML_4_prec_prognosis (no license), TRACK-TBI-Public (no license), lmcinnes/umap (BSD-3-Clause)

Status: code verified, 152 files readable, 17 matches

[31789] doi:10.1038/s41598-023-48343-7 [paper, repository]

An AI-based segmentation and analysis pipeline for high-field MR monitoring of cerebral organoids.

Journal: Scientific reports

Authors' code: deiluca/cerebral_organoid_quant_mri (MIT)

Status: code verified, 39 files readable, 4 matches

[31790] doi:10.1038/s41598-023-48438-1 [paper, repository]

Improving portable low-field MRI image quality through image-to-image translation using paired low- and high-field images.

Journal: Scientific reports

Authors' code: khtohidulislam/LoHiResGAN (no license)

Status: code verified, 2 files readable

[31791] doi:10.1080/07853890.2022.2148734 [paper, data]

An <i>in situ</i> and <i>in vitro</i> investigation of cytoplasmic TDP-43 inclusions reveals the absence of a clear amyloid signature.

Journal: Annals of medicine

Status: data only, 1 dataset cited

[31792] doi:10.1080/07853890.2023.2191003 [paper, data]

Early-life iron deficiency persistently disrupts affective behaviour in mice.

Journal: Annals of medicine

Status: data only, 1 dataset cited

[31793] doi:10.1080/07853890.2023.2227425 [paper, data]

Diagnosis for Chinese patients with light chain amyloidosis: a scoping review.

Journal: Annals of medicine

Status: data only, 1 dataset cited

[31794] doi:10.1080/10717544.2023.2241664 [paper, data]

Novel nano-carriers with N-formylmethionyl-leucyl-phenylalanine-modified liposomes improve effects of C16-angiopoietin 1 in acute animal model of multiple sclerosis.

Journal: Drug delivery

Status: data only, 1 dataset cited

[31795] doi:10.1080/15592294.2023.2181575 [paper, data]

Crosstalk between m6A mRNAs and m6A circRNAs and the time-specific biogenesis of m6A circRNAs after OGD/R in primary neurons.

Journal: Epigenetics

Status: data only, 1 dataset cited

[31796] doi:10.1080/15592294.2023.2192375 [paper, data]

Phenotypic and transcriptomic impact of expressing mammalian TET2 in the <i>Drosophila melanogaster</i> model.

Journal: Epigenetics

Status: data only, 1 dataset cited

[31797] doi:10.1080/15592294.2023.2195307 [paper, repository]

DNA methylome and transcriptome profiling reveal key electrophysiology and immune dysregulation in hypertrophic cardiomyopathy.

Journal: Epigenetics

Authors' code: usadellab/Trimmomatic (GPL-3.0)

Status: code verified, 152 files readable

[31798] doi:10.1080/15592294.2023.2196656 [paper, data]

An enriched maternal environment and stereotypies of sows differentially affect the neuro-epigenome of brain regions related to emotionality in their piglets.

Journal: Epigenetics

Status: data only, 1 dataset cited

[31799] doi:10.1080/15592294.2023.2207253 [paper, data]

DNA methylation at birth and fine motor ability in childhood: an epigenome-wide association study with replication.

Journal: Epigenetics

Status: data only, 1 dataset cited

[31800] doi:10.1080/15592294.2023.2229203 [paper, data]

Ribosomal DNA Copy Number Variation is Coupled with DNA Methylation Changes at the 45S rDNA Locus.

Journal: Epigenetics

Status: data only, 6 datasets cited

[31801] doi:10.1080/15592294.2023.2241008 [paper, data]

Histone deacetylase 3 regulates microglial function through histone deacetylation.

Journal: Epigenetics

Status: data only, 1 dataset cited

[31802] doi:10.1080/15592294.2023.2283657 [paper, data]

WGBS of embryonic gonads revealed that long non-coding RNAs in the MHM region might be involved in cell autonomous sex identity and female gonadal development in chickens.

Journal: Epigenetics

Status: data only, 1 dataset cited

[31803] doi:10.1080/19336896.2023.2193128 [paper, data]

Expression of the cellular prion protein by mast cells in the human carotid body.

Journal: Prion

Status: data only, 1 dataset cited

[31804] doi:10.1080/19336896.2023.2197809 [paper, data]

Cerebral cortex swelling in V180I genetic Creutzfeldt-Jakob disease: comparative imaging study between sporadic and V180I genetic Creutzfeldt-Jakob disease in the early stage.

Journal: Prion

Status: data only, 1 dataset cited

[31805] doi:10.1080/19490976.2023.2252764 [paper, repository]

<i>Akkermansia muciniphila</i> supplementation prevents cognitive impairment in sleep-deprived mice by modulating microglial engulfment of synapses.

Journal: Gut microbes

Authors' code: SegataLab/lefse (MIT)

Status: code verified, 18 files readable, 2 matches

[31806] doi:10.1080/19490976.2023.2254946 [paper]

Host miR-129-5p reverses effects of ginsenoside Rg1 on morphine reward possibly mediated by changes in <i>B. vulgatus</i> and serotonin metabolism in hippocampus.

Journal: Gut microbes

Status: data only

[31807] doi:10.1080/19490976.2023.2256045 [paper, repository]

Disruption of the microbiota-gut-brain axis is a defining characteristic of the α-Gal A (-/0) mouse model of Fabry disease.

Journal: Gut microbes

Authors' code: thomazbastiaanssen/Tjazi (GPL-3.0)

Status: code verified, 24 files readable, 2 matches

[31808] doi:10.1080/19585969.2023.2208586 [paper, repository]

Connectome-based prediction of craving in gambling disorder and cocaine use disorder.

Journal: Dialogues in clinical neuroscience

Authors' code: YaleMRRC/CPM (no license)

Status: code verified, 41 files readable, 2 matches

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