Every paper, by date: page 141

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 141 of 200: 20 December 2023 to 12 December 2023.

Wednesday, 20 December 2023 (30 papers, 29 on this page)

[31361] doi:10.1016/j.bpsgos.2023.100285 [paper, repository]

Intracortical Myelin in Youths at Risk for Depression.

Journal: Biological psychiatry global open science

Authors' code: GitDro/YouthReliability (MIT)

Status: code verified, 9 files readable, 5 matches

[31362] doi:10.1038/s41380-023-02362-y [paper, data]

Disrupted extracellular matrix and cell cycle genes in autism-associated Shank3 deficiency are targeted by lithium.

Journal: Molecular psychiatry

Status: data only, 1 dataset cited

[31363] doi:10.1038/s41398-023-02700-2 [paper, repository]

Abnormal patterns of sleep and waking behaviors are accompanied by neocortical oscillation disturbances in an Ank3 mouse model of epilepsy-bipolar disorder comorbidity.

Journal: Translational psychiatry

Authors' code: jevillacres/DLC-Code (no license)

Status: dead link

[31364] doi:10.1038/s41467-023-42910-2 [paper, repository]

A direction-selective cortico-brainstem pathway adaptively modulates innate behaviors.

Journal: Nature communications

Authors' code: liulabutm/Codes-of-corticofugal-paper (no license)

Status: code verified, 1 file readable

[31365] doi:10.1038/s41467-023-43944-2 [paper]

Full hardware implementation of neuromorphic visual system based on multimodal optoelectronic resistive memory arrays for versatile image processing.

Journal: Nature communications

Status: code on request

[31366] doi:10.1038/s41467-023-43973-x [paper, repository]

Mechanical control of neural plate folding by apical domain alteration.

Journal: Nature communications

Authors' code: kaszalab/xenopus-protein-localization (MIT)

Status: code verified, 11 files readable, 3 matches

[31367] doi:10.1038/s41467-023-44035-y [paper, repository]

Open access repository-scale propagated nearest neighbor suspect spectral library for untargeted metabolomics.

Journal: Nature communications

Authors' code: bittremieux/gnps_suspect_library (BSD-3-Clause), Zenodo 6459282 (other-open)

Status: code verified, 20 files readable, 7 matches

[31368] doi:10.1038/s41467-023-44120-2 [paper, repository]

USP7/Maged1-mediated H2A monoubiquitination in the paraventricular thalamus: an epigenetic mechanism involved in cocaine use disorder.

Journal: Nature communications

Authors' code: Zenodo 10015098 (CC-BY-4.0), leonardobeccari/h2aub_cov_analysis (no license)

Status: code verified, 4 files readable, 3 matches

[31369] doi:10.1038/s41467-023-44319-3 [paper, data]

ANKS1A regulates LDL receptor-related protein 1 (LRP1)-mediated cerebrovascular clearance in brain endothelial cells.

Journal: Nature communications

Status: data only, 1 dataset cited

[31370] doi:10.1038/s41586-023-06845-4 [paper, repository]

RNA-mediated symmetry breaking enables singular olfactory receptor choice.

Journal: Nature

Authors' code: brianbeliveau/OligoMiner (MIT), arielpourmorady/Pourmorady_etal (no license)

Status: code verified, 40 files readable, 9 matches

[31371] doi:10.1038/s41586-023-06864-1 [paper, repository]

Minute-scale oscillatory sequences in medial entorhinal cortex.

Journal: Nature

Authors' code: kavli-ntnu/wheel_tracker (MIT), soledadgcogno/Ultraslow-oscillatory-sequences (MIT)

Status: code verified, 124 files readable, 15 matches

[31372] doi:10.1038/s41591-023-02673-1 [paper, repository]

Multiomic spatial landscape of innate immune cells at human central nervous system borders.

Journal: Nature medicine

Authors' code: linnarsson-lab/developing-human-brain (BSD-2-Clause), brain-immunity.de (no license)

Status: code verified, 7 files readable, 1 match

[31373] doi:10.1038/s41598-023-49250-7 [paper, repository]

Neural effects of TMS trains on the human prefrontal cortex.

Journal: Scientific reports

Authors' code: chriscline/AARATEPPipeline (MIT)

Status: code verified, 257 files readable, 2 matches

[31374] doi:10.1038/s41598-023-49346-0 [paper, data]

Orchestration of saccadic eye-movements by brain rhythms in macaque Frontal Eye Field.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31375] doi:10.1038/s41598-023-49935-z [paper, repository]

Brain multi-contrast, multi-atlas segmentation of diffusion tensor imaging and ensemble learning automatically diagnose late-life depression.

Journal: Scientific reports

Authors' code: exmath20005/DTI_ML_LLD_paper (no license)

Status: code verified, 4 files readable, 3 matches

[31376] doi:10.1038/s41598-023-50073-9 [paper, data]

Distinctive approach in brain tumor detection and feature extraction using biologically inspired DWT method and SVM.

Journal: Scientific reports

Status: code on request, 1 dataset cited

[31377] doi:10.1038/s44271-023-00049-2 [paper, repository]

Replication of population-level differences in auditory-motor synchronization ability in a Norwegian-speaking population.

Journal: Communications psychology

Authors' code: OSF dwrz7 (no license), app.gorilla.sc/openmaterials/290032 (no license), Zenodo 6142988 (other-open), fassaneo/speechsynchrony (no license)

Status: code verified, 22 files readable

[31378] doi:10.1091/mbc.e23-07-0289 [paper, repository]

NAGPKin: Nucleation-and-growth parameters from the kinetics of protein phase separation.

Journal: Molecular biology of the cell

Authors' code: pmartins2106/NAGpkin (no license)

Status: code verified, 4 files readable, 1 match

[31379] doi:10.1093/braincomms/fcad350 [paper, data]

Effects of dopaminergic treatment on inhibitory control differ across Hoehn and Yahr stages of Parkinson's disease.

Journal: Brain communications

Status: data only, 1 dataset cited

[31380] doi:10.1093/nsr/nwad318 [paper, repository]

Modular-integrative modeling: a new framework for building brain models that blend biological realism and functional performance.

Journal: National science review

Authors' code: ccnmaastricht/SSU (MIT)

Status: code verified, 21 files readable, 2 matches

[31381] doi:10.1371/journal.pcbi.1011720 [paper, repository]

How Merkel cells transduce mechanical stimuli: A biophysical model of Merkel cells.

Journal: PLoS computational biology

Authors' code: supp:PMC10732429/pcbi.1011720.s002.zip (no license)

Status: code verified, 32 files readable, 6 matches

[31382] doi:10.1371/journal.pcbi.1011727 [paper, repository]

A dynamic attractor network model of memory formation, reinforcement and forgetting.

Journal: PLoS computational biology

Authors' code: MartaBoscaglia/DynamicAttractorNetworkModel_2023 (no license)

Status: code verified, 2 files readable, 2 matches

[31383] doi:10.1371/journal.pone.0296028 [paper, data]

Dexamethasone induces sleep disturbance in a dose-dependent manner in mice.

Journal: PloS one

Status: data only, 1 dataset cited

[31384] doi:10.14336/ad.2023.1213 [paper, data]

NeuroD1 Regulated Endothelial Gene Expression to Modulate Transduction of AAV-PHP.eB and Recovery Progress after Ischemic Stroke.

Journal: Aging and disease

Status: data only, 1 dataset cited

[31385] doi:10.3389/fgene.2023.1290949 [paper, data]

Identification of two novel and one rare mutation in <i>DYRK1A</i> and prenatal diagnoses in three Chinese families with intellectual Disability-7.

Journal: Frontiers in genetics

Status: data only, 1 dataset cited

[31386] doi:10.3390/biomedicines12010015 [paper, repository]

Genes Associated with Altered Brain Structure and Function in Obstructive Sleep Apnea.

Journal: Biomedicines

Authors' code: netneurolab/abagen (BSD-3-Clause)

Status: code verified, 55 files readable, 2 matches

[31387] doi:10.3390/genes15010014 [paper, data]

Novel Homozygous FA2H Variant Causing the Full Spectrum of Fatty Acid Hydroxylase-Associated Neurodegeneration (SPG35).

Journal: Genes

Status: data only, 1 dataset cited

[31388] doi:10.3390/ijms25010072 [paper, data]

Switching On/Off Amyloid Plaque Formation in Transgenic Animal Models of Alzheimer's Disease.

Journal: International journal of molecular sciences

Status: data only, 9 datasets cited

[31389] doi:10.7554/elife.86190 [paper, repository]

Transcranial focused ultrasound to human rIFG improves response inhibition through modulation of the P300 onset latency.

Journal: eLife

Authors' code: JustFineNeuro/tFUS_Inhibition_Elife (GPL-3.0)

Status: code verified, 8 files readable, 2 matches

Tuesday, 19 December 2023 (23 papers)

[31390] doi:10.1002/advs.202302940 [paper]

Human Pluripotent Stem Cells Derived Endothelial Cells Repair Choroidal Ischemia.

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

Status: data only

[31391] doi:10.1007/s11481-023-10094-7 [paper, data]

Peripheral MC1R Activation Modulates Immune Responses and is Neuroprotective in a Mouse Model of Parkinson's Disease.

Journal: Journal of neuroimmune pharmacology : the official journal of the Society on NeuroImmune Pharmacology

Status: data only, 1 dataset cited

[31392] doi:10.1016/j.celrep.2023.113595 [paper]

Synaptic plasticity via receptor tyrosine kinase/G-protein-coupled receptor crosstalk.

Journal: Cell reports

Status: code on request

[31393] doi:10.1016/j.heliyon.2023.e23866 [paper, data]

Brain tumor diagnosis from MRI based on Mobilenetv2 optimized by contracted fox optimization algorithm.

Journal: Heliyon

Status: data only, 1 dataset cited

[31394] doi:10.1038/s41467-023-43970-0 [paper, repository]

Optimized design and in vivo application of optogenetically functionalized Drosophila dopamine receptors.

Journal: Nature communications

Authors' code: ribeiro-lab/optoPAD-software (GPL-3.0)

Status: empty repository, 2 files readable

[31395] doi:10.1038/s41467-023-44033-0 [paper, data]

NEMO reshapes the α-Synuclein aggregate interface and acts as an autophagy adapter by co-condensation with p62.

Journal: Nature communications

Status: data only, 1 dataset cited

[31396] doi:10.1038/s41526-023-00332-w [paper]

Effectiveness of caffeine and blue-enriched light on cognitive performance and electroencephalography correlates of alertness in a spaceflight robotics simulation.

Journal: NPJ microgravity

Status: code on request

[31397] doi:10.1038/s41598-023-48706-0 [paper, data]

Effects of web-based mindfulness training on psychological outcomes, attention, and neuroplasticity.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31398] doi:10.1038/s44319-023-00024-2 [paper, repository]

Multiomics analysis identifies novel facilitators of human dopaminergic neuron differentiation.

Journal: EMBO reports

Authors' code: gitlab.lcsb.uni.lu/borja.gomezramos/gomezramos_et_al_2023 (no license)

Status: dead link

[31399] doi:10.1073/pnas.2303985120 [paper, repository]

Increased cortical inhibition following brief motor memory reactivation supports reconsolidation and overnight offline learning gains.

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

Authors' code: weizmann.ac.il/chembiophys/assaf_tal (no license)

Status: code verified

[31400] doi:10.1073/pnas.2308565120 [paper, data]

A dicer-related helicase opposes the age-related pathology from SKN-1 activation in ASI neurons.

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

Status: data only, 1 dataset cited

[31401] doi:10.1073/pnas.2311995120 [paper, data]

Synapses without tension fail to fire in an in vitro network of hippocampal neurons.

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

Status: data only, 1 dataset cited

[31402] doi:10.1101/lm.053893.123 [paper, repository]

State-dependent memory retrieval: insights from neural dynamics and behavioral perspectives.

Journal: Learning & memory (Cold Spring Harbor, N.Y.)

Authors' code: ShanghaitechGuanjisongLab/state-dependent-learning (no license)

Status: code verified, 16 files readable, 1 match

[31403] doi:10.1117/1.nph.11.1.015001 [paper, repository]

Altered functional connectivity after pilocarpine-induced seizures revealed by intrinsic optical signals imaging in awake mice.

Journal: Neurophotonics

Authors' code: figshare 23788164 (CC-BY-4.0)

Status: code verified, 9 files readable, 4 matches

[31404] doi:10.1155/2023/5057778 [paper, data]

Single-Cell Analyses Reveal Necroptosis's Potential Role in Neuron Degeneration and Show Enhanced Neuron-Immune Cell Interaction in Parkinson's Disease Progression.

Journal: Parkinson's disease

Status: data only, 1 dataset cited

[31405] doi:10.1159/000535499 [paper, data]

Efficacy of Levetiracetam as Add-On Therapy in the Treatment of Seizures in Neonates.

Journal: Neonatology

Status: data only, 1 dataset cited

[31406] doi:10.1172/jci174138 [paper, data]

KCTD1/KCTD15 complexes control ectodermal and neural crest cell functions, and their impairment causes aplasia cutis.

Journal: The Journal of clinical investigation

Status: data only, 1 dataset cited

[31407] doi:10.1186/s13024-023-00688-3 [paper, repository]

Advanced structural brain aging in preclinical autosomal dominant Alzheimer disease.

Journal: Molecular neurodegeneration

Authors' code: peterrmillar/DIANBrainAge (no license)

Status: code verified, 1 file readable, 1 match

[31408] doi:10.2196/50660 [paper, repository]

Application of a Low-Cost mHealth Solution for the Remote Monitoring of Patients With Epilepsy: Algorithm Development and Validation.

Journal: JMIR neurotechnology

Authors' code: Zenodo 3595429 (CC-BY-4.0), Zenodo 3592415 (other-open), raghu17s/sezect (MIT)

Status: code verified, 26 files readable, 1 match

[31409] doi:10.3389/fneur.2023.1294702 [paper, repository]

Not a general, symptom-unspecific, transdiagnostic marker for functional symptoms: sensorimotor processing of head control is intact in chronic pain.

Journal: Frontiers in neurology

Authors' code: OSF smchp (no license)

Status: code verified, 42 files readable, 5 matches

[31410] doi:10.3390/jimaging10010001 [paper, repository]

Segmentation of Substantia Nigra in Brain Parenchyma Sonographic Images Using Deep Learning.

Journal: Journal of imaging

Authors' code: giansalvo/preprocess (MIT), giansalvo/segmentation (MIT)

Status: code verified, 23 files readable, 6 matches

[31411] doi:10.3390/pharmaceutics16010003 [paper, repository]

Update and Application of a Deep Learning Model for the Prediction of Interactions between Drugs Used by Patients with Multiple Sclerosis.

Journal: Pharmaceutics

Authors' code: kaistsystemsbiology/deepddi (CC-BY-NC-ND-4.0)

Status: code verified, 7 files readable, 1 match

[31412] doi:10.7554/elife.88551 [paper, repository]

Myomatrix arrays for high-definition muscle recording.

Journal: eLife

Authors' code: JonathanAMichaels/PixelProcessingPipeline (GPL-3.0)

Status: code verified, 111 files readable, 5 matches

Monday, 18 December 2023 (42 papers)

[31413] doi:10.1002/2211-5463.13731 [paper, repository]

Comparative transcriptomics of the garden dormouse hypothalamus during hibernation.

Journal: FEBS open bio

Authors' code: FelixKrueger/TrimGalore (GPL-3.0), sourceforge.net/prepare-transcript-to-gene-map (no license)

Status: code verified, 31 files readable

[31414] doi:10.1007/s12551-023-01174-2 [paper, data]

Integrating single-cell transcriptomics with cellular phenotypes: cell morphology, Ca&lt;sup&gt;2+&lt;/sup&gt; imaging and electrophysiology.

Journal: Biophysical reviews

Status: data only, 1 dataset cited

[31415] doi:10.1016/j.dib.2023.109981 [paper, data]

Loosely controlled experimental EEG datasets for higher-order cognitions in design and creativity tasks.

Journal: Data in brief

Status: data only, 11 datasets cited

[31416] doi:10.1016/j.heliyon.2023.e23948 [paper, repository]

An auditory brain-computer interface to detect changes in sound pressure level for automatic volume control.

Journal: Heliyon

Authors' code: nambulab-nagaokaut/spl_control_eeg_public (GPL-3.0)

Status: code verified, 5 files readable, 1 match

[31417] doi:10.1016/j.isci.2023.108745 [paper]

Alzheimer's-specific brain amyloid interactome: Neural-network analysis of intra-aggregate crosslinking identifies novel drug targets.

Journal: iScience

Status: code on request

[31418] doi:10.1016/j.nicl.2023.103554 [paper, repository]

Brain activation during an emotional task in participants with PTSD and borderline and/or cluster C personality disorders.

Journal: NeuroImage. Clinical

Authors' code: OSF 9842q (no license)

Status: empty repository

[31419] doi:10.1016/j.xgen.2023.100467 [paper, repository]

Young duplicate genes show developmental stage- and cell type-specific expression and function in Caenorhabditis elegans.

Journal: Cell genomics

Authors' code: Fuqiang-Ma/Cel_dup_development (no license), Zenodo 10104147 (CC-BY-4.0)

Status: code verified, 40 files readable, 8 matches

[31420] doi:10.1038/s41467-023-43450-5 [paper, repository]

Respiration modulates sleep oscillations and memory reactivation in humans.

Journal: Nature communications

Authors' code: OSF d6yhb (no license)

Status: code verified, 16 files readable, 5 matches

[31421] doi:10.1038/s41467-023-44019-y [paper, data]

Hydrophobically gated memristive nanopores for neuromorphic applications.

Journal: Nature communications

Status: data only, 2 datasets cited

[31422] doi:10.1038/s41467-023-44087-0 [paper, repository]

Personalized functional brain network topography is associated with individual differences in youth cognition.

Journal: Nature communications

Authors' code: hmlicas/Collaborative_Brain_Decomposition (no license), PennLINC/keller-networks (no license), spin-test/spin-test (MIT), Zenodo 10048383 (CC-BY-4.0)

Status: code verified, 576 files readable, 10 matches

[31423] doi:10.1038/s41467-023-44206-x [paper, repository]

Pathway centric analysis for single-cell RNA-seq and spatial transcriptomics data with GSDensity.

Journal: Nature communications

Authors' code: qingnanl/GSDensity_manuscript_code (no license), qingnanl/gsdensity (no license), Zenodo 10162753 (CC-BY-4.0)

Status: code verified, 39 files readable, 23 matches

[31424] doi:10.1038/s41467-023-44215-w [paper, data]

Mutant GGGGCC RNA prevents YY1 from binding to Fuzzy promoter which stimulates Wnt/β-catenin pathway in C9ALS/FTD.

Journal: Nature communications

Status: data only, 1 dataset cited

[31425] doi:10.1038/s41522-023-00469-2 [paper, data]

Bacteroides is increased in an autism cohort and induces autism-relevant behavioral changes in mice in a sex-dependent manner.

Journal: NPJ biofilms and microbiomes

Status: data only, 1 dataset cited

[31426] doi:10.1038/s41526-023-00341-9 [paper, repository]

Behavior of glioblastoma brain tumor stem cells following a suborbital rocket flight: reaching the "edge" of outer space.

Journal: NPJ microgravity

Authors' code: cesarga0011/npj_Brain-Tumor-Stem-Cells-Following-a-Suborbital-Rocket-Flight (GPL-3.0)

Status: empty repository, 2 files readable

[31427] doi:10.1038/s41531-023-00616-8 [paper, repository]

Impaired neuron differentiation in GBA-associated Parkinson's disease is linked to cell cycle defects in organoids.

Journal: NPJ Parkinson's disease

Authors' code: gitlab.lcsb.uni.lu/dvb/rosety_2022 (Apache-2.0)

Status: code verified, 207 files readable, 8 matches

[31428] doi:10.1038/s41562-023-01737-z [paper, repository]

Geometry of visuospatial working memory information in miniature gaze patterns.

Journal: Nature human behaviour

Authors' code: gin.g-node.org/lindedomingo/mpib_memoreye (no license)

Status: code verified

[31429] doi:10.1038/s41598-023-49568-2 [paper, data]

Accessible and reliable neurometric testing in humans using a smartphone platform.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31430] doi:10.1038/s42003-023-05638-9 [paper, repository]

Time-dependent homeostatic mechanisms underlie brain-derived neurotrophic factor action on neural circuitry.

Journal: Communications biology

Authors' code: seas.upenn.edu/~molneuro/software.html (no license), modeldb:2015421 (no license), katemon/MEAanalysis_ONeill2023 (MIT), ShoutikM/GCandSynchronyAnalysisCode_ONeill_etal_NatCommunBiol_2023 (MIT), Zenodo 10189419 (CC-BY-4.0), Zenodo 10162717 (CC-BY-4.0)

Status: code verified, 104 files readable, 7 matches

[31431] doi:10.1038/s43856-023-00381-y [paper, data]

Concurrent gliomas in patients with multiple sclerosis.

Journal: Communications medicine

Status: data only, 1 dataset cited

[31432] doi:10.1073/pnas.2314596120 [paper, data]

Examining the role of dopamine in methylphenidate's effects on resting brain function.

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

Status: data only, 1 dataset cited

[31433] doi:10.1080/19490976.2023.2292224 [paper, data]

Opioid-induced dysbiosis of maternal gut microbiota during gestation alters offspring gut microbiota and pain sensitivity.

Journal: Gut microbes

Status: data only, 1 dataset cited

[31434] doi:10.1098/rstb.2022.0420 [paper, repository]

Cognitive and sensory expectations independently shape musical expectancy and pleasure.

Journal: Philosophical transactions of the Royal Society of London. Series B, Biological sciences

Authors' code: IPEM/IPEMToolbox (GPL-2.0), mtpearce/idyom (GPL-3.0), OSF 5fk2q (no license), doi:10.6084/m9.figshare.c.6922081 (no license)

Status: code verified, 148 files readable, 2 matches

[31435] doi:10.1098/rstb.2022.0426 [paper, repository]

Perceptual oddities: assessing the relationship between film editing and prediction processes.

Journal: Philosophical transactions of the Royal Society of London. Series B, Biological sciences

Authors' code: OSF 98d3p (no license), doi:10.6084/m9.figshare.c.6916910 (no license)

Status: code verified, 9 files readable, 4 matches

[31436] doi:10.1162/imag_a_00040 [paper, repository]

Harmonizing and aligning M/EEG datasets with covariance-based techniques to enhance predictive regression modeling.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: apmellot/harmonizing_aligning_meeg (no license), Zenodo 8059038 (other-open), pyriemann/pyriemann (BSD-3-Clause)

Status: code verified, 247 files readable, 12 matches

[31437] doi:10.1162/imag_a_00047 [paper, data]

The neural dynamics of loss aversion.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

[31438] doi:10.1162/imag_a_00048 [paper, repository]

Incidental visual processing of spatiotemporal cues in communicative interactions: An fMRI investigation.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF nh5w4 (no license)

Status: code verified, 3 files readable, 2 matches

[31439] doi:10.1162/imag_a_00049 [paper, repository]

Efficient PCA denoising of spatially correlated redundant MRI data.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: RafaelNH/PCAdenoising (no license)

Status: code verified, 16 files readable, 6 matches

[31440] doi:10.1162/imag_a_00050 [paper, data]

White matter tract microstructure, macrostructure, and associated cortical gray matter morphology across the lifespan.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

[31441] doi:10.1186/s13024-023-00692-7 [paper, data]

Amyloid-β specific regulatory T cells attenuate Alzheimer's disease pathobiology in APP/PS1 mice.

Journal: Molecular neurodegeneration

Status: data only, 8 datasets cited

[31442] doi:10.1186/s13287-023-03612-0 [paper]

HLA-based banking of induced pluripotent stem cells in Saudi Arabia.

Journal: Stem cell research & therapy

Status: data only

[31443] doi:10.1371/journal.pone.0295140 [paper, repository]

Normalization in mouse primary visual cortex.

Journal: PloS one

Authors' code: doi:10.12751/g-node.y6g8wz (no license)

Status: code verified

[31444] doi:10.1523/eneuro.0096-23.2023 [paper, repository]

Meso-Py: Dual Brain Cortical Calcium Imaging in Mice during Head-Fixed Social Stimulus Presentation.

Journal: eNeuro

Authors' code: ubcbraincircuits/dual-mouse (no license)

Status: code verified, 331 files readable, 11 matches

[31445] doi:10.30773/pi.2023.0052 [paper, repository]

A Case-Control Clinical Trial on a Deep Learning-Based Classification System for Diagnosis of Amyloid-Positive Alzheimer's Disease.

Journal: Psychiatry investigation

Authors' code: cadene/pretrained-models.pytorch (BSD-3-Clause)

Status: code verified, 37 files readable

[31446] doi:10.3389/fninf.2023.1306277 [paper, repository]

Evaluation of an English language phoneme-based imagined speech brain computer interface with low-cost electroencephalography.

Journal: Frontiers in neuroinformatics

Authors' code: javeharron/ghostTalkerAlpha (no license)

Status: code verified, 34 files readable, 1 match

[31447] doi:10.3389/fnmol.2023.1299314 [paper, data]

Immune response of BV-2 microglial cells is impacted by peroxisomal beta-oxidation.

Journal: Frontiers in molecular neuroscience

Status: data only, 1 dataset cited

[31448] doi:10.3389/fphys.2023.1174525 [paper, data]

A novel approach for sports injury risk prediction: based on time-series image encoding and deep learning.

Journal: Frontiers in physiology

Status: data only, 1 dataset cited

[31449] doi:10.3389/fpsyg.2023.1104410 [paper, data]

Neuromodulation of choice-induced preference changes: the tDCS study of cognitive dissonance.

Journal: Frontiers in psychology

Status: data only, 1 dataset cited

[31450] doi:10.3390/cells12242860 [paper, repository]

Single-Cell Transcriptomics and In Vitro Lineage Tracing Reveals Differential Susceptibility of Human iPSC-Derived Midbrain Dopaminergic Neurons in a Cellular Model of Parkinson's Disease.

Journal: Cells

Authors' code: jmonzon87/LMX1A_iPSC_DA (MIT)

Status: code verified, 7 files readable, 3 matches

[31451] doi:10.7554/elife.84926 [paper, repository]

Functional and pharmacological analyses of visual habituation learning in larval zebrafish.

Journal: eLife

Authors' code: haesemeyer/MultiTracker (MIT), owenrandlett/lamire_2022 (MIT), nbviewer.org/github/owenrandlett (no license)

Status: code verified, 3 files readable

[31452] doi:10.7554/elife.87445 [paper, repository]

Opposing, spatially-determined epigenetic forces impose restrictions on stochastic olfactory receptor choice.

Journal: eLife

Authors' code: tanlongzhi/dip-c (no license), lisabash/Bashkirova_Zonal_OR_2023 (MIT)

Status: code verified, 180 files readable, 17 matches

[31453] doi:10.7554/elife.88051 [paper, repository]

Age-associated changes in lineage composition of the enteric nervous system regulate gut health and disease.

Journal: eLife

Authors' code: jaredslosberg/6month_ENS (no license), Zenodo 10278287 (CC-BY-4.0)

Status: code verified, 112 files readable, 24 matches

[31454] doi:10.7554/elife.89129 [paper, data]

Mouthparts of the bumblebee (&lt;i&gt;Bombus terrestris&lt;/i&gt;) exhibit poor acuity for the detection of pesticides in nectar.

Journal: eLife

Status: data only, 1 dataset cited

Sunday, 17 December 2023 (1 paper)

[31455] doi:10.1007/s10571-023-01438-1 [paper, data]

Mutation in the TRKB Cholesterol Recognition Site that blocks Antidepressant Binding does not Influence the Basal or BDNF-Stimulated Activation of TRKB.

Journal: Cellular and molecular neurobiology

Status: data only, 2 datasets cited

Saturday, 16 December 2023 (10 papers)

[31456] doi:10.1002/advs.202305939 [paper, repository]

Restoring the Function of Thalamocortical Circuit Through Correcting Thalamic Kv3.2 Channelopathy Normalizes Fear Extinction Impairments in a PTSD Mouse Model.

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

Authors' code: GUO-neuroLAB/Code_available (no license)

Status: code verified, 10 files readable, 2 matches

[31457] doi:10.1016/j.isci.2023.108761 [paper]

Connecting the dots in the zona incerta: A study of neural assemblies and motifs of inter-area coordination in mice.

Journal: iScience

Status: code on request

[31458] doi:10.1016/j.nbd.2023.106386 [paper]

ALDH5A1-deficient iPSC-derived excitatory and inhibitory neurons display cell type specific alterations.

Journal: Neurobiology of disease

Status: code on request

[31459] doi:10.1038/s41467-023-44192-0 [paper, repository]

Mitochondrial malfunction and atrophy of astrocytes in the aged human cerebral cortex.

Journal: Nature communications

Authors' code: abrazhe/pyraman (no license), abrazhe/image-funcut (no license), Zenodo 10151748 (CC-BY-4.0), Zenodo 10151752 (CC-BY-4.0)

Status: code verified, 134 files readable, 2 matches

[31460] doi:10.1038/s41537-023-00422-4 [paper, repository]

Transcriptional signatures of the whole-brain voxel-wise resting-state functional network centrality alterations in schizophrenia.

Journal: Schizophrenia (Heidelberg, Germany)

Authors' code: murraylab/brainsmash (GPL-3.0), benfulcher/GeneSetEnrichmentAnalysis (GPL-3.0)

Status: code verified, 50 files readable, 4 matches

[31461] doi:10.1038/s41539-023-00209-3 [paper]

Seeking the neural representation of statistical properties in print during implicit processing of visual words.

Journal: NPJ science of learning

Status: code on request

[31462] doi:10.1038/s41598-023-49440-3 [paper, repository]

Mass spectrometry in cerebrospinal fluid uncovers association of glycolysis biomarkers with Alzheimer's disease in a large clinical sample.

Journal: Scientific reports

Authors' code: vdemichev/DiaNN (other)

Status: code verified, 441 files readable, 2 matches

[31463] doi:10.1186/s13195-023-01369-5 [paper, repository]

White matter integrity is associated with cognition and amyloid burden in older adult Koreans along the Alzheimer's disease continuum.

Journal: Alzheimer's research & therapy

Authors' code: IUSCA/IUSM-connectivity-pipeline (no license)

Status: code verified, 322 files readable, 7 matches

[31464] doi:10.3390/pharmaceutics15122788 [paper]

An In Vitro Assessment Method for Chemotherapy-Induced Peripheral Neurotoxicity Caused by Anti-Cancer Drugs Based on Electrical Measurement of Impedance Value and Spontaneous Activity.

Journal: Pharmaceutics

Status: code on request

[31465] doi:10.3390/s23249871 [paper, data]

Using Explainable Artificial Intelligence to Obtain Efficient Seizure-Detection Models Based on Electroencephalography Signals.

Journal: Sensors (Basel, Switzerland)

Status: data only, 2 datasets cited

Friday, 15 December 2023 (21 papers)

[31466] doi:10.1007/s00285-023-02027-y [paper, repository]

Global stability and parameter analysis reinforce therapeutic targets of PD-L1-PD-1 and MDSCs for glioblastoma.

Journal: Journal of mathematical biology

Authors' code: stepien-lab/glioma-Tcell-MDSC (MIT)

Status: code verified, 8 files readable, 4 matches

[31467] doi:10.1016/j.devcel.2023.11.022 [paper]

Mechanical regulation of substrate adhesion and de-adhesion drives a cell-contractile wave during Drosophila tissue morphogenesis.

Journal: Developmental cell

Status: code on request

[31468] doi:10.1016/j.dib.2023.109968 [paper, data]

Lifespan trajectories of risk preference, impulsivity, and self-control: A dataset containing self-report, informant-report, behavioral, hormone and functional neuroimaging measures from a cross-sectional human sample.

Journal: Data in brief

Status: data only, 1 dataset cited

[31469] doi:10.1016/j.heliyon.2023.e23739 [paper, data]

ERRα regulates synaptic transmission through reactive oxygen species in hippocampal neurons.

Journal: Heliyon

Status: data only, 1 dataset cited

[31470] doi:10.1016/j.nicl.2023.103551 [paper, repository]

Predicting cognitive decline: Which is more useful, baseline amyloid levels or longitudinal change?

Journal: NeuroImage. Clinical

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

Status: code verified, 277 files readable, 1 match

[31471] doi:10.1038/s41467-023-43572-w [paper, data]

A power law describes the magnitude of adaptation in neural populations of primary visual cortex.

Journal: Nature communications

Status: data only, 1 dataset cited

[31472] doi:10.1038/s41467-023-43602-7 [paper, data]

Essential transcription factors for induced neuron differentiation.

Journal: Nature communications

Status: data only, 2 datasets cited

[31473] doi:10.1038/s41598-023-49847-y [paper, repository]

Temporal encoding in deep reinforcement learning agents.

Journal: Scientific reports

Authors' code: linclab/deeprl-timecells (MIT)

Status: code verified, 33 files readable, 10 matches

[31474] doi:10.1073/pnas.2306767120 [paper, data]

Tau filaments from amyotrophic lateral sclerosis/parkinsonism-dementia complex adopt the CTE fold.

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

Status: data only, 14 datasets cited

[31475] doi:10.1097/j.pain.0000000000003116 [paper, repository]

Assessing spontaneous sensory neuron activity using in vivo calcium imaging.

Journal: Pain

Authors' code: sonialouise/ts_class (no license)

Status: code verified, 8 files readable

[31476] doi:10.1117/1.jbo.28.12.126005 [paper]

Comparison of diffuse correlation spectroscopy analytical models for measuring cerebral blood flow in adults.

Journal: Journal of biomedical optics

Status: code on request

[31477] doi:10.1186/s12964-023-01390-z [paper, data]

Neuronal-specific TNFAIP1 ablation attenuates postoperative cognitive dysfunction via targeting SNAP25 for K48-linked ubiquitination.

Journal: Cell communication and signaling : CCS

Status: data only, 1 dataset cited

[31478] doi:10.1186/s12974-023-02988-3 [paper, data]

Inhaled nitric oxide suppresses neuroinflammation in experimental ischemic stroke.

Journal: Journal of neuroinflammation

Status: data only, 1 dataset cited

[31479] doi:10.1186/s13046-023-02927-3 [paper, data]

AMPK-HIF-1α signaling enhances glucose-derived de novo serine biosynthesis to promote glioblastoma growth.

Journal: Journal of experimental & clinical cancer research : CR

Status: data only, 1 dataset cited

[31480] doi:10.1371/journal.pone.0295240 [paper, data]

Tonal and syllabic encoding in overt Cantonese Chinese speech production: An ERP study.

Journal: PloS one

Status: data only, 1 dataset cited

[31481] doi:10.3389/fnagi.2023.1290681 [paper, data]

The DNA repair enzyme, aprataxin, plays a role in innate immune signaling.

Journal: Frontiers in aging neuroscience

Status: data only, 1 dataset cited

[31482] doi:10.3389/fnimg.2023.1324107 [paper, data]

Mapping internal brainstem structures using T1 and T2 weighted 3T images.

Journal: Frontiers in neuroimaging

Status: data only, 1 dataset cited

[31483] doi:10.3389/fnins.2023.1303242 [paper, repository]

TSPNet: a time-spatial parallel network for classification of EEG-based multiclass upper limb motor imagery BCI.

Journal: Frontiers in neuroscience

Authors' code: Special4519/TSPNet (no license), aojeda/headModel (BSD-2-Clause)

Status: code verified, 155 files readable

[31484] doi:10.55730/1300-0152.2672 [paper, repository]

StemnesScoRe: an R package to estimate the stemness of glioma cancer cells at single-cell resolution.

Journal: Turkish journal of biology = Turk biyoloji dergisi

Authors' code: Necla/StemnesScoRe (MIT)

Status: code verified, 5 files readable, 4 matches

[31485] doi:10.7554/elife.90912 [paper, data]

Action does not enhance but attenuates predicted touch.

Journal: eLife

Status: data only, 3 datasets cited

[31486] doi:10.7554/elife.91183 [paper, repository]

Serial attentional resource allocation during parallel feature value tracking.

Journal: eLife

Authors' code: OSF y3qst (no license)

Status: code verified, 5 files readable, 2 matches

Thursday, 14 December 2023 (32 papers)

[31487] doi:10.1002/hbm.26561 [paper, repository]

Discovering individual fingerprints in resting-state functional connectivity using deep neural networks.

Journal: Human brain mapping

Authors' code: bsplku/fingerprintFCdnn (no license)

Status: code verified, 4 files readable, 5 matches

[31488] doi:10.1016/j.ibneur.2023.12.002 [paper, repository]

Evaluating synthetic neuroimaging data augmentation for automatic brain tumour segmentation with a deep fully-convolutional network.

Journal: IBRO neuroscience reports

Authors' code: OSF yr56s (no license)

Status: code verified, 15 files readable, 6 matches

[31489] doi:10.1016/j.isci.2023.108734 [paper, repository]

Measuring neuronal avalanches to inform brain-computer interfaces.

Journal: iScience

Authors' code: mccorsi/NeuronalAvalanches4BCI (BSD-3-Clause)

Status: code verified, 31 files readable, 2 matches

[31490] doi:10.1016/j.isci.2023.108744 [paper]

Monitoring Alzheimer's disease via ultraweak photon emission.

Journal: iScience

Status: code on request

[31491] doi:10.1016/j.stemcr.2023.11.004 [paper]

Human retinal organoids with an OPA1 mutation are defective in retinal ganglion cell differentiation and function.

Journal: Stem cell reports

Status: code on request

[31492] doi:10.1021/acs.jproteome.3c00628 [paper, data]

Proteomic Changes in the Hippocampus after Repeated Explosive-Driven Blasts.

Journal: Journal of proteome research

Status: data only, 1 dataset cited

[31493] doi:10.1038/s41398-023-02681-2 [paper, data]

Resting-state EEG power differences in autism spectrum disorder: a systematic review and meta-analysis.

Journal: Translational psychiatry

Status: data only, 1 dataset cited

[31494] doi:10.1038/s41398-023-02690-1 [paper]

Psilocybin-induced default mode network hypoconnectivity is blunted in alcohol-dependent rats.

Journal: Translational psychiatry

Status: code on request

[31495] doi:10.1038/s41467-023-42969-x [paper, data]

CA3 hippocampal synaptic plasticity supports ripple physiology during memory consolidation.

Journal: Nature communications

Status: data only, 1 dataset cited

[31496] doi:10.1038/s41467-023-43712-2 [paper, repository]

Static and dynamic coding in distinct cell types during associative learning in the prefrontal cortex.

Journal: Nature communications

Authors' code: OSF bwnq9 (no license), sardid/waveformanalysis (no license), hhentschke/measures-of-effect-size-toolbox (BSD-2-Clause)

Status: code verified, 30 files readable, 3 matches

[31497] doi:10.1038/s41598-023-48180-8 [paper, data]

Temporal differences and commonalities between hand and tool neural processing.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31498] doi:10.1038/s41598-023-49208-9 [paper, repository]

Filtering property of myelinated internode can change neural information representability and might trigger a compensatory action during demyelination.

Journal: Scientific reports

Authors' code: dropbox.com/scl/fo (no license)

Status: code verified

[31499] doi:10.1038/s41598-023-49580-6 [paper, repository]

Patient-specific computational models of retinal prostheses.

Journal: Scientific reports

Authors' code: Kathleen-Kish/Retinal_Ganglion_Cell (no license)

Status: code verified, 10 files readable, 3 matches

[31500] doi:10.1073/pnas.2303641120 [paper, repository]

Neuromuscular basis of &lt;i&gt;Drosophila&lt;/i&gt; larval rolling escape behavior.

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

Authors' code: cooneypc4/larval_escape_manuscript (no license)

Status: code verified, 14 files readable

[31501] doi:10.1162/imag_a_00044 [paper, repository]

The cerebellum during provocation and aggressive behaviour: A 7 T fMRI study.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: JosePMarques/MP2RAGE-related-scripts (GPL-3.0)

Status: code verified, 39 files readable, 3 matches

[31502] doi:10.1162/nol_a_00119 [paper, data]

Neural Specialization for English and Arabic Print in Early Readers.

Journal: Neurobiology of language (Cambridge, Mass.)

Status: data only, 1 dataset cited

[31503] doi:10.1162/nol_a_00123 [paper, data]

Left-Hemisphere Cortical Language Regions Respond Equally to Observed Dialogue and Monologue.

Journal: Neurobiology of language (Cambridge, Mass.)

Status: data only, 2 datasets cited

[31504] doi:10.1162/nol_a_00125 [paper, repository]

Information-Restricted Neural Language Models Reveal Different Brain Regions' Sensitivity to Semantics, Syntax, and Context.

Journal: Neurobiology of language (Cambridge, Mass.)

Authors' code: nlp.stanford.edu/projects/glove (no license), AlexandrePsq/Information-Restricted-NLMs (Apache-2.0)

Status: code verified, 120 files readable, 8 matches

[31505] doi:10.1186/s12968-023-00989-y [paper, repository]

Cardiac structure discontinuities revealed by ex-vivo microstructural characterization. A focus on the basal inferoseptal left ventricle region.

Journal: Journal of cardiovascular magnetic resonance : official journal of the Society for Cardiovascular Magnetic Resonance

Authors' code: valeryozenne/cardiac-structure-database (no license)

Status: code verified, 21 files readable, 1 match

[31506] doi:10.1186/s13059-023-03123-4 [paper, repository]

Challenges and opportunities to computationally deconvolve heterogeneous tissue with varying cell sizes using single-cell RNA-sequencing datasets.

Journal: Genome biology

Authors' code: LieberInstitute/deconvo_review-paper (MIT), Zenodo 10179283 (CC-BY-4.0), metamaden/cellScaleFactors (MIT), Zenodo 10149934 (MIT), Zenodo 10085497 (CC-BY-4.0)

Status: code verified, 27 files readable, 2 matches

[31507] doi:10.1186/s13072-023-00517-3 [paper, data]

Folate deficiency reduced aberrant level of DOT1L-mediated histone H3K79 methylation causes disruptive SHH gene expression involved in neural tube defects.

Journal: Epigenetics & chromatin

Status: data only, 1 dataset cited

[31508] doi:10.1212/wnl.0000000000207946 [paper]

Structural and Functional Brain Network Connectivity at Different King's Stages in Patients With Amyotrophic Lateral Sclerosis.

Journal: Neurology

Status: code on request

[31509] doi:10.1371/journal.pone.0288889 [paper, data]

Temporal dynamics of pro-inflammatory cytokines and serum corticosterone following acute sleep fragmentation in male mice.

Journal: PloS one

Status: data only, 1 dataset cited

[31510] doi:10.1371/journal.pone.0295748 [paper, repository]

Accelerating language emergence by functional pressures.

Journal: PloS one

Authors' code: hwmk/FunPres (no license)

Status: code verified, 3 files readable

[31511] doi:10.18632/aging.205308 [paper, data]

Investigating the ID3/SLC22A4 as immune-related signatures in ischemic stroke.

Journal: Aging

Status: data only, 1 dataset cited

[31512] doi:10.3389/fnagi.2023.1306004 [paper, repository]

Human neural stem cells restore spatial memory in a transgenic Alzheimer's disease mouse model by an immunomodulating mechanism.

Journal: Frontiers in aging neuroscience

Authors' code: saezlab.github.io/progeny (no license)

Status: code verified

[31513] doi:10.3389/fncel.2023.1289966 [paper, data]

Genetic knockout of <i>NTRK2</i> by CRISPR/Cas9 decreases neurogenesis and favors glial progenitors during differentiation of neural progenitor stem cells.

Journal: Frontiers in cellular neuroscience

Status: data only, 1 dataset cited

[31514] doi:10.3389/fninf.2023.1265079 [paper, repository]

Factorized discriminant analysis for genetic signatures of neuronal phenotypes.

Journal: Frontiers in neuroinformatics

Authors' code: muqiao0626/FLDA-in-ComputBiol (no license)

Status: code verified, 3 files readable

[31515] doi:10.3389/fnins.2023.1264453 [paper, repository]

Cortical responses time-locked to continuous speech in the high-gamma band depend on selective attention.

Journal: Frontiers in neuroscience

Authors' code: vrishabcommuri/mathlang-highgamma (no license)

Status: code verified, 25 files readable, 7 matches

[31516] doi:10.3389/frai.2023.1293504 [paper]

Statistical inference for dependence networks in topological data analysis.

Journal: Frontiers in artificial intelligence

Status: code on request

[31517] doi:10.3390/ijms242417456 [paper, repository]

Asymmetries of Left and Right Adrenal Glands in Neural Innervation and Glucocorticoids Production.

Journal: International journal of molecular sciences

Authors' code: tanghaibao/GOatools (BSD-2-Clause)

Status: code verified, 136 files readable, 2 matches

[31518] doi:10.7554/elife.69413 [paper]

Neural tube-associated boundary caps are a major source of mural cells in the skin.

Journal: eLife

Status: data only

Wednesday, 13 December 2023 (48 papers)

[31519] doi:10.1002/advs.202303929 [paper, repository]

Schrödinger's Red Beyond 65,000 Pixel-Per-Inch by Multipolar Interaction in Freeform Meta-Atom through Efficient Neural Optimizer.

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

Authors' code: bayesian-optimization/BayesianOptimization (MIT)

Status: code verified, 38 files readable

[31520] doi:10.1002/advs.202306576 [paper, data]

Serum Bile Acids Improve Prediction of Alzheimer's Progression in a Sex-Dependent Manner.

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

Status: data only, 1 dataset cited

[31521] doi:10.1002/alz.13567 [paper, repository]

Cognitively defined Alzheimer's dementia subgroups have distinct atrophy patterns.

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

Authors' code: adni.loni.usc.edu (no license)

Status: code verified

[31522] doi:10.1002/cam4.6752 [paper]

Identification of FXYD6 as the novel biomarker for glioma based on differential expression and DNA methylation.

Journal: Cancer medicine

Status: data only

[31523] doi:10.1002/hbm.26536 [paper, repository]

Functional network dynamics revealed by EEG microstates reflect cognitive decline in amyotrophic lateral sclerosis.

Journal: Human brain mapping

Authors' code: atpoulsen/Microstate-EEGlab-toolbox (no license), Frederic-vW/eeg_microstates (MIT)

Status: code verified, 74 files readable, 8 matches

[31524] doi:10.1002/hbm.26542 [paper, repository]

Classification of MDD using a Transformer classifier with large-scale multisite resting-state fMRI data.

Journal: Human brain mapping

Authors' code: zhouyyyy99/zhou (no license)

Status: empty repository, 1 file readable

[31525] doi:10.1007/s11571-023-10038-0 [paper, repository]

Coincidence detection and integration behavior in spiking neural networks.

Journal: Cognitive neurodynamics

Authors' code: andistoll/coincidence_detection_and_integration_behavior_in_SNNs (MIT), rgerum/tfspiking (no license)

Status: code verified, 38 files readable

[31526] doi:10.1016/j.patter.2023.100896 [paper, repository]

DSM: Deep sequential model for complete neuronal morphology representation and feature extraction.

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

Authors' code: Zenodo 8186904 (CC-BY-4.0), BlueBrain/TMD (LGPL-3.0)

Status: code verified, 64 files readable

[31527] doi:10.1038/s41398-023-02677-y [paper]

Molecular mapping of a core transcriptional signature of microglia-specific genes in schizophrenia.

Journal: Translational psychiatry

Status: data only

[31528] doi:10.1038/s41419-023-06353-3 [paper, data]

Chlorpromazine affects glioblastoma bioenergetics by interfering with pyruvate kinase M2.

Journal: Cell death & disease

Status: data only, 2 datasets cited

[31529] doi:10.1038/s41467-023-44013-4 [paper, data]

Homo- and hetero-dimeric subunit interactions set affinity and efficacy in metabotropic glutamate receptors.

Journal: Nature communications

Status: data only, 1 dataset cited

[31530] doi:10.1038/s41467-023-44017-0 [paper, repository]

GNTD: reconstructing spatial transcriptomes with graph-guided neural tensor decomposition informed by spatial and functional relations.

Journal: Nature communications

Authors' code: kuanglab/GNTD (MIT), Zenodo 10063263 (CC-BY-4.0)

Status: code verified, 12 files readable, 9 matches

[31531] doi:10.1038/s41586-023-06638-9 [paper, repository]

Evolution of neuronal cell classes and types in the vertebrate retina.

Journal: Nature

Authors' code: Zenodo 8067826 (other-open), shekharlab/RetinaEvolution (no license), muqiao0626/FLDA (no license), markusmeister/Gene-Geometry (MIT)

Status: code verified, 68 files readable, 6 matches

[31532] doi:10.1038/s41586-023-06805-y [paper, repository]

Single-cell DNA methylome and 3D multi-omic atlas of the adult mouse brain.

Journal: Nature

Authors' code: lhqing/wmb2023 (MIT), lhqing.github.io/allcools (no license), zhoujt1994/scHiCluster (MIT)

Status: code verified, 42 files readable, 2 matches

[31533] doi:10.1038/s41586-023-06808-9 [paper, repository]

Molecularly defined and spatially resolved cell atlas of the whole mouse brain.

Journal: Nature

Authors' code: ZhuangLab/MERlin (MIT), alleninstitute/abc_atlas_access (BSD-2-Clause), ZhuangLab/whole_mouse_brain_MERFISH_atlas_scripts_2023 (no license), ZhuangLab (no license), Zenodo 3758540 (other-open), Zenodo 10050573 (CC-BY-4.0)

Status: code verified, 220 files readable, 29 matches

[31534] doi:10.1038/s41586-023-06812-z [paper, repository]

A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain.

Journal: Nature

Authors' code: alleninstitute.github.io/abc_atlas_access (no license), AllenInstitute/scrattch.mapping (no license), AllenInstitute/scrattch.bigcat (no license), LTLA/BiocNeighbors (no license), alleninstitute/abc_atlas_access (BSD-2-Clause)

Status: code verified, 129 files readable, 21 matches

[31535] doi:10.1038/s41586-023-06817-8 [paper, repository]

A transcriptomic taxonomy of mouse brain-wide spinal projecting neurons.

Journal: Nature

Authors' code: aertslab/pyscenic (GPL-3.0), ZhigangHeLab/SPN_atlas (no license), AllenInstitute/scrattch.bigcat (no license), AllenInstitute/scrattch.mapping (no license)

Status: code verified, 100 files readable, 8 matches

[31536] doi:10.1038/s41586-023-06818-7 [paper, repository]

The molecular cytoarchitecture of the adult mouse brain.

Journal: Nature

Authors' code: MacoskoLab/slideseq-tools (no license), twardlab/emlddmm (Apache-2.0), MacoskoLab/brain-atlas (no license)

Status: code verified, 89 files readable, 8 matches

[31537] doi:10.1038/s41586-023-06819-6 [paper, repository]

Conserved and divergent gene regulatory programs of the mammalian neocortex.

Journal: Nature

Authors' code: ejarmand/comparative_epigenomic_motor_cortex (no license)

Status: code verified, 95 files readable, 17 matches

[31538] doi:10.1038/s41586-023-06823-w [paper, repository]

Brain-wide correspondence of neuronal epigenomics and distant projections.

Journal: Nature

Authors' code: zhoujt1994/EpiRetroSeq2023 (MIT)

Status: code verified, 11 files readable, 6 matches

[31539] doi:10.1038/s41586-023-06824-9 [paper, repository]

Single-cell analysis of chromatin accessibility in the adult mouse brain.

Journal: Nature

Authors' code: beyondpie/CEMBA_wmb_snATAC (MIT)

Status: code verified, 176 files readable, 23 matches

[31540] doi:10.1038/s41586-023-06837-4 [paper, repository]

Slide-tags enables single-nucleus barcoding for multimodal spatial genomics.

Journal: Nature

Authors' code: broadchenf/Slide-tags (no license), Zenodo 2571615 (other-open), broadchenf/slideseq (no license)

Status: code verified, 757 files readable, 6 matches

[31541] doi:10.1038/s41586-023-06839-2 [paper, repository]

Large-scale single-neuron speech sound encoding across the depth of human cortex.

Journal: Nature

Authors' code: ChangLabUcsf/LeonardGwilliams2023 (no license)

Status: empty repository, 1 file readable

[31542] doi:10.1038/s41586-023-06941-5 [paper, repository]

Dynamic behaviour restructuring mediates dopamine-dependent credit assignment.

Journal: Nature

Authors' code: Zenodo 13249956 (CC-BY-4.0)

Status: empty repository

[31543] doi:10.1038/s41598-023-49294-9 [paper, data]

Human iPSC-derived microglia carrying the LRRK2-G2019S mutation show a Parkinson's disease related transcriptional profile and function.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31544] doi:10.1098/rsbl.2023.0476 [paper, repository]

Quantifying visual acuity in <i>Heliconius</i> butterflies.

Journal: Biology letters

Authors' code: doi:10.5061/dryad.2z34tmpsk (no license), doi:10.6084/m9.figshare.c.6961099 (no license)

Status: code verified

[31545] doi:10.1098/rsob.230327 [paper, repository]

LIM-HD transcription factors control axial patterning and specify distinct neuronal and intestinal cell identities in planarians.

Journal: Open biology

Authors' code: doi:10.6084/m9.figshare.c.6935886 (no license)

Status: code found, still to be checked

[31546] doi:10.1098/rspb.2023.1839 [paper, repository]

Functional plasticity of the swim bladder as an acoustic organ for communication in a vocal fish.

Journal: Proceedings. Biological sciences

Authors' code: doi:10.5061/dryad.ffbg79d1t (no license), LoranzieRogers/SwimBladderFunctionalPlasticity (no license), doi:10.6084/m9.figshare.c.6957251 (no license)

Status: code verified, 16 files readable, 7 matches

[31547] doi:10.1101/2023.12.12.571283 [paper, data]

Single-nucleotide-resolution genomic maps of <i>O</i> ⁶ -methylguanine from the glioblastoma drug temozolomide

Journal: bioRxiv (preprint)

Status: data only, 4 datasets cited

[31548] doi:10.1126/sciadv.adh8685 [paper, data]

The neuronal implementation of representational geometry in primate prefrontal cortex.

Journal: Science advances

Status: data only, 1 dataset cited

[31549] doi:10.1126/sciadv.adi7632 [paper, repository]

An energy costly architecture of neuromodulators for human brain evolution and cognition.

Journal: Science advances

Authors' code: Zenodo 10084430 (CC-BY-4.0), NeuroenergeticsLab/energetic_costs (no license)

Status: code verified, 8 files readable, 14 matches

[31550] doi:10.1126/sciadv.adj1205 [paper, data]

Parkinson's VPS35[D620N] mutation induces LRRK2-mediated lysosomal association of RILPL1 and TMEM55B.

Journal: Science advances

Status: data only, 4 datasets cited

[31551] doi:10.1162/imag_a_00038 [paper, data]

Cross-cultural differences in visual object and background processing in the infant brain.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: code on request, 1 dataset cited

[31552] doi:10.1186/s12916-023-03208-8 [paper, data]

Functional connectivity of cognition-related brain networks in adults with fetal alcohol syndrome.

Journal: BMC medicine

Status: code on request, 3 datasets cited

[31553] doi:10.1186/s13071-023-06023-5 [paper, data]

Lentinan has a beneficial effect on cognitive deficits induced by chronic Toxoplasma gondii infection in mice.

Journal: Parasites & vectors

Status: data only, 1 dataset cited

[31554] doi:10.1186/s40478-023-01693-9 [paper]

ApoER2-Dab1 disruption as the origin of pTau-associated neurodegeneration in sporadic Alzheimer's disease.

Journal: Acta neuropathologica communications

Status: code on request

[31555] doi:10.1371/journal.pbio.3002366 [paper, repository]

Many but not all deep neural network audio models capture brain responses and exhibit correspondence between model stages and brain regions.

Journal: PLoS biology

Authors' code: gretatuckute/auditory_brain_dnn (MIT), mozilla/DeepSpeech (MPL-2.0), Alexander-H-Liu/NPC (MIT), audio-captioning/dcase-2020-baseline (other), harritaylor/torchvggish (Apache-2.0), bshall/ZeroSpeech (no license), facebookresearch/fairseq (MIT), jenellefeather/chcochleagram (MIT)

Status: code verified, 2,476 files readable, 31 matches

[31556] doi:10.1371/journal.pcbi.1010557 [paper, repository]

Time-resolved dynamic computational modeling of human EEG recordings reveals gradients of generative mechanisms for the MMN response.

Journal: PLoS computational biology

Authors' code: OSF dxj5p (no license)

Status: code verified, 5 files readable, 11 matches

[31557] doi:10.1371/journal.pcbi.1011674 [paper, repository]

From dawn till dusk: Time-adaptive bayesian optimization for neurostimulation.

Journal: PLoS computational biology

Authors' code: process.innovation.ox.ac.uk/software (no license)

Status: code verified

[31558] doi:10.1371/journal.pdig.0000191 [paper, repository]

Classification of hyper-scale multimodal imaging datasets.

Journal: PLOS digital health

Authors' code: cdmacfadyen/classify-modality (MIT)

Status: code verified, 28 files readable, 5 matches

[31559] doi:10.1371/journal.pone.0293394 [paper, data]

Distinct age-related brain activity patterns in the prefrontal cortex when increasing cognitive load: A functional near-infrared spectroscopy study.

Journal: PloS one

Status: data only, 1 dataset cited

[31560] doi:10.1523/jneurosci.0089-23.2023 [paper, repository]

Reward Modulates Visual Responses in the Superficial Superior Colliculus of Mice.

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

Authors' code: liadJB/Baruchin-et-al-2023 (CC0-1.0)

Status: code verified, 15 files readable, 2 matches

[31561] doi:10.3389/fimmu.2023.1234869 [paper]

Cladribine and ocrelizumab induce differential miRNA profiles in peripheral blood mononucleated cells from relapsing-remitting multiple sclerosis patients.

Journal: Frontiers in immunology

Status: data only

[31562] doi:10.3389/fncel.2023.1278847 [paper, data]

Stress-induced translation of KCNB1 contributes to the enhanced synaptic transmission of the lateral habenula.

Journal: Frontiers in cellular neuroscience

Status: data only, 1 dataset cited

[31563] doi:10.3389/fnins.2023.1303648 [paper, data]

Improved motor imagery classification using adaptive spatial filters based on particle swarm optimization algorithm.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[31564] doi:10.3390/biomedicines11123304 [paper, data]

Deep Learning-Based Prediction of Alzheimer's Disease Using Microarray Gene Expression Data.

Journal: Biomedicines

Status: data only, 1 dataset cited

[31565] doi:10.3390/life13122336 [paper, repository]

Long-Term Phellodendri Cortex Supplementation in the Tiger Grouper (<i>Epinephelus fuscoguttatus</i>): Dual Effects on Intestinal Health Revealed by Transcriptome Analysis.

Journal: Life (Basel, Switzerland)

Authors' code: OpenGene/fastp (MIT), trinityrnaseq/trinityrnaseq (BSD-3-Clause)

Status: code verified, 550 files readable

[31566] doi:10.3390/medicina59122155 [paper, data]

Quantitative Electroencephalography Markers for an Accurate Diagnosis of Frontotemporal Dementia: A Spectral Power Ratio Approach.

Journal: Medicina (Kaunas, Lithuania)

Status: data only, 1 dataset cited

Tuesday, 12 December 2023 (22 papers, 18 on this page)

[31567] doi:10.1002/mdc3.13927 [paper, data]

Dominant VPS16 Pathogenic Variants: Not Only Isolated Dystonia.

Journal: Movement disorders clinical practice

Status: data only, 2 datasets cited

[31568] doi:10.1007/s12035-023-03812-y [paper, data]

Pathological Deficit of Cystatin B Impairs Synaptic Plasticity in EPM1 Human Cerebral Organoids.

Journal: Molecular neurobiology

Status: data only, 2 datasets cited

[31569] doi:10.1016/j.celrep.2023.113538 [paper]

MeCP2 represses the activity of topoisomerase IIβ in long neuronal genes.

Journal: Cell reports

Status: code on request

[31570] doi:10.1016/j.dcn.2023.101330 [paper, repository]

It takes a village: A multi-brain approach to studying multigenerational family communication.

Journal: Developmental cognitive neuroscience

Authors' code: ppsp-team/Hyper-Aging (BSD-3-Clause)

Status: code verified, 3 files readable

[31571] doi:10.1016/j.isci.2023.108676 [paper, data]

Growth-suppressor microRNAs mediate synaptic overgrowth and behavioral deficits in Fragile X mental retardation protein deficiency.

Journal: iScience

Status: data only, 1 dataset cited

[31572] doi:10.1016/j.redox.2023.102992 [paper, data]

Superoxide dismutase 2 deficiency is associated with enhanced central chemoreception in mice: Implications for breathing regulation.

Journal: Redox biology

Status: data only, 1 dataset cited

[31573] doi:10.1038/s41467-023-43966-w [paper, repository]

A deep unrolled neural network for real-time MRI-guided brain intervention.

Journal: Nature communications

Authors' code: Zenodo 10054900 (CC-BY-4.0), aaronfeng369/lsfp-net (no license)

Status: code verified, 12 files readable, 3 matches

[31574] doi:10.1038/s41586-023-06905-9 [paper, repository]

Targeted design of synthetic enhancers for selected tissues in the Drosophila embryo.

Journal: Nature

Authors' code: avantishri/shap (MIT), bernardo-de-almeida/DeepSTARR_embryo (no license)

Status: code verified, 63 files readable, 10 matches

[31575] doi:10.1038/s41586-023-06936-2 [paper, repository]

Cell-type-directed design of synthetic enhancers.

Journal: Nature

Authors' code: Zenodo 10184648 (no license)

Status: code verified

[31576] doi:10.1038/s41598-023-48628-x [paper, data]

Learning exceptions to category rules varies across the menstrual cycle.

Journal: Scientific reports

Status: data only, 1 dataset cited

[31577] doi:10.1038/s42003-023-05647-8 [paper, repository]

Longitudinal development of the human white matter structural connectome and its association with brain transcriptomic and cellular architecture.

Journal: Communications biology

Authors' code: BMHLab/AHBAprocessing (no license), FelixFengCN/WM-connectome-development (no license), Zenodo 10212534 (CC-BY-4.0)

Status: code verified, 394 files readable, 3 matches

[31578] doi:10.1088/1741-2552/ad038d [paper, repository]

Unsupervised learning of stationary and switching dynamical system models from Poisson observations.

Journal: Journal of neural engineering

Authors' code: ShanechiLab/sPCF-EM (other)

Status: code verified, 53 files readable, 9 matches

[31579] doi:10.1186/s13195-023-01362-y [paper]

Proof-of-concept recall-by-genotype study of extremely low and high Alzheimer's polygenic risk reveals autobiographical deficits and cingulate cortex correlates.

Journal: Alzheimer's research & therapy

Status: code on request

[31580] doi:10.1523/eneuro.0237-23.2023 [paper, repository]

Modeling Synaptic Integration of Bursty and β Oscillatory Inputs in Ventromedial Motor Thalamic Neurons in Normal and Parkinsonian States.

Journal: eNeuro

Authors' code: FrancescoCavarretta/BGMT (no license), BlueBrain/eFEL (GPL-3.0)

Status: code verified, 249 files readable, 8 matches

[31581] doi:10.3389/fendo.2023.1258313 [paper, data]

Identification of novel genes including <i>NAV2</i> associated with isolated tall stature.

Journal: Frontiers in endocrinology

Status: data only, 8 datasets cited

[31582] doi:10.3389/fimmu.2023.1305644 [paper, data]

Unlocking molecular mechanisms and identifying druggable targets in matched-paired brain metastasis of breast and lung cancers.

Journal: Frontiers in immunology

Status: data only, 1 dataset cited

[31583] doi:10.3389/fnins.2023.1281098 [paper, repository]

<i>msemalign</i>: a pipeline for serial section multibeam scanning electron microscopy volume alignment.

Journal: Frontiers in neuroscience

Authors' code: mpinb/msemalign (GPL-3.0), mpinb/rcc-xcorr (GPL-3.0)

Status: code verified, 60 files readable, 26 matches

[31584] doi:10.3389/fphar.2023.1294579 [paper, data]

Long-acting dolutegravir formulations prevent neurodevelopmental impairments in a mouse model.

Journal: Frontiers in pharmacology

Status: data only, 1 dataset cited

Also: by category, author, journal, institution, tool or dataset; the search; the DOI lookup for any paper read, with or without a page.