Every paper, by date: page 160

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 160 of 200: 14 June 2023 to 2 June 2023.

Wednesday, 14 June 2023 (33 papers, 3 on this page)

[35617] doi:10.3390/s23125574 [paper, repository]

Affective Neural Responses Sonified through Labeled Correlation Alignment.

Journal: Sensors (Basel, Switzerland)

Authors' code: FrankYesid/Music-EEG-Activity (Apache-2.0)

Status: code verified, 4 files readable, 1 match

[35618] doi:10.7554/elife.81467 [paper, data]

Male rodent perirhinal cortex, but not ventral hippocampus, inhibition induces approach bias under object-based approach-avoidance conflict.

Journal: eLife

Status: data only, 1 dataset cited

[35619] doi:10.7554/elife.86127 [paper, repository]

Low-level repressive histone marks fine-tune gene transcription in neural stem cells.

Journal: eLife

Authors' code: Cheng-Yu-Lee-Lab/Rajan-et-al-2023 (no license)

Status: code verified, 5 files readable, 15 matches

Tuesday, 13 June 2023 (29 papers)

[35620] doi:10.1007/s11357-023-00831-4 [paper, repository]

Prediction of cognitive performance differences in older age from multimodal neuroimaging data.

Journal: GeroScience

Authors' code: axifra/BrainAge_MRI-MEG (no license)

Status: code verified, 22 files readable, 5 matches

[35621] doi:10.1016/j.jare.2023.06.003 [paper, data]

HMGB1/STAT3/p65 axis drives microglial activation and autophagy exert a crucial role in chronic Stress-Induced major depressive disorder.

Journal: Journal of advanced research

Status: data only, 1 dataset cited

[35622] doi:10.1038/s41467-023-39058-4 [paper, repository]

Parieto-occipital ERP indicators of gut mechanosensation in humans.

Journal: Nature communications

Authors' code: obada-alzoubi/gut-brain-mechanosensation (MIT)

Status: code verified, 12 files readable, 8 matches

[35623] doi:10.1038/s41597-023-02286-w [paper, repository]

Bimodal electroencephalography-functional magnetic resonance imaging dataset for inner-speech recognition.

Journal: Scientific data

Authors' code: LTU-Machine-Learning/Inner_Speech_EEG_FMRI (GPL-3.0)

Status: code verified, 5 files readable, 2 matches

[35624] doi:10.1038/s41598-023-36638-8 [paper, repository]

Reference-based cell type matching of in situ image-based spatial transcriptomics data on primary visual cortex of mouse brain.

Journal: Scientific reports

Authors' code: JCVenterInstitute/FRmatch (MIT), AllenInstitute/scrattch.hicat (BSD-2-Clause), AllenInstitute/mfishtools (BSD-2-Clause), acycliq/pciSeq (MIT), broadinstitute/Tangram (BSD-3-Clause), kharchenkolab/Baysor (MIT), HiDiHlabs/ssam (AGPL-3.0), spacetx.github.io/results.html (no license)

Status: code verified, 317 files readable, 5 matches

[35625] doi:10.1038/s41598-023-36702-3 [paper, repository]

Tool-tissue force segmentation and pattern recognition for evaluating neurosurgical performance.

Journal: Scientific reports

Authors' code: smartforceps/ai_models (no license)

Status: code verified, 38 files readable, 7 matches

[35626] doi:10.1038/s42003-023-04803-4 [paper, repository]

From fossils to mind.

Journal: Communications biology

Authors' code: Zenodo 7454914 (CC-BY-4.0), Zenodo 7452329 (CC-BY-4.0)

Status: empty repository

[35627] doi:10.1038/s42003-023-04999-5 [paper, repository]

Social and asocial learning in zebrafish are encoded by a shared brain network that is differentially modulated by local activation.

Journal: Communications biology

Authors' code: nplresearch/social-asocial-learning (no license)

Status: code verified, 7 files readable

[35628] doi:10.1093/braincomms/fcad177 [paper, repository]

Markers of limbic system damage following SARS-CoV-2 infection.

Journal: Brain communications

Authors' code: Cionkito/PLS-COVID_emotions (GPL-3.0)

Status: code verified, 41 files readable, 1 match

[35629] doi:10.1093/pnasnexus/pgad145 [paper, repository]

Positive parenting moderates associations between childhood stress and corticolimbic structure.

Journal: PNAS nexus

Authors' code: isabellakahhale/CorticoLimbicParenting (no license)

Status: code verified, 3 files readable, 5 matches

[35630] doi:10.1093/pnasnexus/pgad199 [paper, repository]

Neural responses underlying extraordinary altruists' generosity for socially distant others.

Journal: PNAS nexus

Authors' code: OSF mk9cu (no license)

Status: code verified, 20 files readable, 7 matches

[35631] doi:10.1109/jtehm.2023.3285723 [paper, repository]

A Graph Convolutional Network Based on Univariate Neurodegeneration Biomarker for Alzheimer's Disease Diagnosis.

Journal: IEEE journal of translational engineering in health and medicine

Authors' code: Zongshuaiqu/UNB-GCN (no license)

Status: code verified, 2 files readable, 4 matches

[35632] doi:10.1111/cns.14311 [paper, repository]

Genes associated with spontaneous brain activity changes in clinically different patients with major depressive disorder: A transcription-neuroimaging association study.

Journal: CNS neuroscience & therapeutics

Authors' code: murraylab/brainsmash (GPL-3.0), BMHLab/AHBAprocessing (no license), benfulcher/GeneCategoryEnrichmentAnalysis (GPL-3.0)

Status: code verified, 436 files readable, 6 matches

[35633] doi:10.1162/nol_a_00104 [paper, data]

Asymetric Event-Related Potential Priming Effects Between English Letters and American Sign Language Fingerspelling Fonts.

Journal: Neurobiology of language (Cambridge, Mass.)

Status: data only, 1 dataset cited

[35634] doi:10.1162/nol_a_00106 [paper, repository]

Resting State Network Segregation Modulates Age-Related Differences in Language Production.

Journal: Neurobiology of language (Cambridge, Mass.)

Authors' code: OSF 3u9rw (no license)

Status: empty repository

[35635] doi:10.1177/09567976231177968 [paper, repository]

Visual Perception Is Highly Flexible and Context Dependent in Young Infants: A Case of Top-Down-Modulated Motion Perception.

Journal: Psychological science

Authors' code: OSF xn8g7 (no license)

Status: code verified, 17 files readable, 7 matches

[35636] doi:10.1186/s13041-023-01037-7 [paper, data]

Loosely synchronized activation of anterior cingulate cortical neurons for scratching response during histamine-induced itch.

Journal: Molecular brain

Status: data only, 1 dataset cited

[35637] doi:10.1371/journal.pone.0287174 [paper, data]

Membrane potential dynamics of excitatory and inhibitory neurons in mouse barrel cortex during active whisker sensing.

Journal: PloS one

Status: data only, 2 datasets cited

[35638] doi:10.3389/fcell.2023.1198148 [paper, data]

Developmental exposures to common environmental contaminants, DEHP and lead, alter adult brain and blood hydroxymethylation in mice.

Journal: Frontiers in cell and developmental biology

Status: data only, 1 dataset cited

[35639] doi:10.3389/fgene.2023.1193603 [paper, data]

Candidate gene association study suggests potential role of dopamine beta-hydroxylase in pain heterogeneity in sickle cell disease.

Journal: Frontiers in genetics

Status: data only, 1 dataset cited

[35640] doi:10.3389/fnins.2023.1165446 [paper, repository]

Quantitative susceptibility mapping using multi-channel convolutional neural networks with dipole-adaptive multi-frequency inputs.

Journal: Frontiers in neuroscience

Authors' code: SMU-BME-MRI-LIST/DIAM-CNN (MIT)

Status: code verified, 17 files readable, 2 matches

[35641] doi:10.3389/fnins.2023.1202258 [paper, repository]

Behavioral paradigm for the evaluation of stimulation-evoked somatosensory perception thresholds in rats.

Journal: Frontiers in neuroscience

Authors' code: Neuronal-Networks-and-Interfaces-Lab/Stimulation-Evoked_Perception_Behavioral_Software (MIT)

Status: code verified, 94 files readable, 8 matches

[35642] doi:10.3389/fphar.2023.1173596 [paper, repository]

Classifying migraine using PET compressive big data analytics of brain's <i>μ</i>-opioid and D2/D3 dopamine neurotransmission.

Journal: Frontiers in pharmacology

Authors' code: socr/cbda (LGPL-3.0), cran.r-project.org/web/packages (no license)

Status: code verified, 172 files readable, 1 match

[35643] doi:10.3389/fpsyg.2023.1161613 [paper, data]

Effects of handedness on brain oscillatory activity during imagery and execution of upper limb movements.

Journal: Frontiers in psychology

Status: data only, 1 dataset cited

[35644] doi:10.3390/brainsci13060946 [paper, repository]

Non-Specific Low Back Pain: An Inductive Exploratory Analysis through Factor Analysis and Deep Learning for Better Clustering.

Journal: Brain sciences

Authors' code: TSS-22/EMG-preprocessing-tools (GPL-3.0)

Status: code verified, 26 files readable, 3 matches

[35645] doi:10.3390/diagnostics13122050 [paper, data]

Dual Deep CNN for Tumor Brain Classification.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 1 dataset cited

[35646] doi:10.3390/nu15122731 [paper]

Bioinformatics Analysis of the Molecular Networks Associated with the Amelioration of Aberrant Gene Expression by a Tyr-Trp Dipeptide in Brains Treated with the Amyloid-β Peptide.

Journal: Nutrients

Status: data only

[35647] doi:10.3390/v15061363 [paper, data]

MRP8/14 Is a Molecular Signature Triggered by Dopamine in HIV Latent Myeloid Targets That Increases HIV Transcription and Distinguishes HIV+ Methamphetamine Users with Detectable CSF Viral Load and Brain Pathology.

Journal: Viruses

Status: data only, 1 dataset cited

[35648] doi:10.7554/elife.83856 [paper, repository]

Belly roll, a GPI-anchored Ly6 protein, regulates <i>Drosophila melanogaster</i> escape behaviors by modulating the excitability of nociceptive peptidergic interneurons.

Journal: eLife

Authors' code: TadaoUsui/0_Bero (MIT), dgrp2.gnets.ncsu.edu (no license)

Status: code verified, 37 files readable, 2 matches

Monday, 12 June 2023 (19 papers)

[35649] doi:10.1016/j.ajcnut.2023.06.008 [paper]

A combined DHA-rich fish oil and cocoa flavanols intervention does not improve cognition or brain structure in older adults with memory complaints: results from the CANN randomized, controlled parallel-design study.

Journal: The American journal of clinical nutrition

Status: code on request

[35650] doi:10.1016/j.celrep.2023.112628 [paper]

VIP interneuron impairment promotes in vivo circuit dysfunction and autism-related behaviors in Dravet syndrome.

Journal: Cell reports

Status: code on request

[35651] doi:10.1016/j.crmeth.2023.100498 [paper, repository]

hdWGCNA identifies co-expression networks in high-dimensional transcriptomics data.

Journal: Cell reports methods

Authors' code: satijalab/seurat-data (GPL-3.0), Zenodo 6835227 (other-open), Zenodo 7851151 (other-open), pachterlab/kallistobustools (MIT), swaruplab.bio.uci.edu/hdwgcna (no license), smorabit/hdWGCNA_paper (no license), smorabit/hdwgcna (other)

Status: code verified, 132 files readable, 40 matches

[35652] doi:10.1016/j.dcn.2023.101265 [paper, repository]

Individual differences in delay discounting are associated with dorsal prefrontal cortex connectivity in children, adolescents, and adults.

Journal: Developmental cognitive neuroscience

Authors' code: PennLINC/pncitc (no license)

Status: code verified, 10 files readable

[35653] doi:10.1016/j.ynstr.2023.100551 [paper, repository]

Impact of acute psychosocial stress on attentional control in humans. A study of evoked potentials and pupillary response.

Journal: Neurobiology of stress

Authors' code: ericcfields/fmut (BSD-3-Clause)

Status: code verified, 45 files readable

[35654] doi:10.1038/s41588-023-01417-8 [paper, repository]

Rare coding variants in CHRNB2 reduce the likelihood of smoking.

Journal: Nature genetics

Authors' code: rgcgithub/regenie (MIT), Zenodo 6789126 (CC-BY-4.0), Zenodo 7838822 (other-open)

Status: code verified, 1,297 files readable, 2 matches

[35655] doi:10.1073/pnas.2217008120 [paper, data]

Biological neurons act as generalization filters in reservoir computing.

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

Status: data only, 2 datasets cited

[35656] doi:10.1073/pnas.2300012120 [paper, data]

Leveraging single-cell RNA sequencing to unravel the impact of aging on stroke recovery mechanisms in mice.

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

Status: data only, 1 dataset cited

[35657] doi:10.1111/cns.14284 [paper, repository]

Functional connectomes of akinetic-rigid and tremor within drug-naïve Parkinson's disease.

Journal: CNS neuroscience & therapeutics

Authors' code: nitrc.org/projects/bioimagesuite (no license)

Status: code verified

[35658] doi:10.1186/s12967-023-04222-3 [paper, repository]

Assessment of brain cancer atlas maps with multimodal imaging features.

Journal: Journal of translational medicine

Authors' code: netneurolab/neuromaps (CC-BY-NC-SA-4.0)

Status: code verified, 50 files readable

[35659] doi:10.1186/s13578-023-01055-x [paper, data]

Ahnak is required to balance calcium ion homeostasis and smooth muscle development in the urinary system.

Journal: Cell & bioscience

Status: data only, 1 dataset cited

[35660] doi:10.1212/wnl.0000000000207473 [paper, repository]

Scoping Review on the Diagnosis, Prognosis, and Treatment of Pediatric Disorders of Consciousness.

Journal: Neurology

Authors' code: Zenodo 7997317 (CC-BY-4.0)

Status: code verified

[35661] doi:10.1523/eneuro.0072-23.2023 [paper, data]

Ocular following Eye Movements in Marmosets Follow Complex Motion Trajectories.

Journal: eNeuro

Status: data only, 1 dataset cited

[35662] doi:10.3389/fcell.2023.1175917 [paper]

Gene-nutrient interactions that impact magnesium homeostasis increase risk for neural tube defects in mice exposed to dolutegravir.

Journal: Frontiers in cell and developmental biology

Status: data only

[35663] doi:10.3389/fnins.2023.1148205 [paper, repository]

EEG and peripheral markers of viewer ratings: a study of short films.

Journal: Frontiers in neuroscience

Authors' code: avenator/EEG-FILMS (MIT)

Status: code verified, 12 files readable, 1 match

[35664] doi:10.3389/fpsyg.2023.1114464 [paper, repository]

Morphological transparency and markedness matter in heritage speaker gender processing: an EEG study.

Journal: Frontiers in psychology

Authors' code: OSF 57gac (no license)

Status: code verified, 1 file readable, 2 matches

[35665] doi:10.3390/cancers15123158 [paper]

Integrating Multi-Omics Analysis for Enhanced Diagnosis and Treatment of Glioblastoma: A Comprehensive Data-Driven Approach.

Journal: Cancers

Status: data only

[35666] doi:10.3390/cells12121610 [paper, repository]

Glutamate-Transporter Unbinding in Probabilistic Synaptic Environment Facilitates Activation of Distant NMDA Receptors.

Journal: Cells

Authors' code: leonidsavtchenko/astro (MIT)

Status: code verified, 240 files readable, 1 match

[35667] doi:10.3390/jcm12124005 [paper, repository]

External Validation and Retraining of DeepBleed: The First Open-Source 3D Deep Learning Network for the Segmentation of Spontaneous Intracerebral and Intraventricular Hemorrhage.

Journal: Journal of clinical medicine

Authors' code: Orangepepermint/retraindeepbleed (no license), Zenodo 7616199 (CC-BY-4.0)

Status: code verified

Saturday, 10 June 2023 (16 papers)

[35668] doi:10.1007/s00234-023-03174-1 [paper, repository]

Distinct hemodynamic and functional connectivity features of fatigue in clinically isolated syndrome and multiple sclerosis: accounting for the confounding effect of concurrent depression symptoms.

Journal: Neuroradiology

Authors' code: njsimos/sfcg_thresh_graph_metrics (no license), njsimos/tsa_icc (no license)

Status: code verified, 14 files readable, 4 matches

[35669] doi:10.1016/j.brs.2023.05.025 [paper, repository]

A novel whole-head RF coil design tailored for concurrent multichannel brain stimulation and imaging at 3T.

Journal: Brain stimulation

Authors' code: lunade/MATLAB_SNR_gfactors_tools (other), lunade/Scripts_BS_TMSMR_28Ch (other)

Status: code verified, 69 files readable, 2 matches

[35670] doi:10.1016/j.dcn.2023.101264 [paper, repository]

Developmental patterns and individual differences in responding to social feedback: A longitudinal fMRI study from childhood to adolescence.

Journal: Developmental cognitive neuroscience

Authors' code: OSF sc4k8 (no license)

Status: empty repository

[35671] doi:10.1016/j.nicl.2023.103449 [paper, repository]

Neuroimaging-based analysis of DBS outcomes in pediatric dystonia: Insights from the GEPESTIM registry.

Journal: NeuroImage. Clinical

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

Status: code verified, 2,000 files readable, 7 matches

[35672] doi:10.1038/s41467-023-39143-8 [paper]

Vertically integrated spiking cone photoreceptor arrays for color perception.

Journal: Nature communications

Status: code on request

[35673] doi:10.1038/s41467-023-39200-2 [paper, repository]

Splicing activates transcription from weak promoters upstream of alternative exons.

Journal: Nature communications

Authors' code: fiszbein-lab/emats-genes (no license), Zenodo 7942478 (other-open)

Status: code verified, 2 files readable

[35674] doi:10.1038/s41467-023-39247-1 [paper, repository]

Rare genetic variants impact muscle strength.

Journal: Nature communications

Authors' code: yunfenghuang618/HGS_exome_paper (MIT)

Status: code verified, 13 files readable, 10 matches

[35675] doi:10.1038/s42003-023-04989-7 [paper, repository]

Transposons contribute to the acquisition of cell type-specific cis-elements in the brain.

Journal: Communications biology

Authors' code: hmdlab/TE_analysis (no license)

Status: code verified, 29 files readable, 9 matches

[35676] doi:10.1038/s42003-023-05001-y [paper, repository]

Critical scaling of whole-brain resting-state dynamics.

Journal: Communications biology

Authors' code: adrianponce/Scaling-of-whole-brain-resting-state-dynamics (no license), Zenodo 7962109 (other-open)

Status: code verified, 6 files readable, 2 matches

[35677] doi:10.1161/jaha.122.028378 [paper, repository]

Sex-Specific Cerebral Blood Flow Alterations in Youth Operated for Congenital Heart Disease.

Journal: Journal of the American Heart Association

Authors' code: Zenodo 3986669 (other-open), exploreasl/exploreasl (no license)

Status: code verified, 2,000 files readable, 4 matches

[35678] doi:10.1186/s12967-023-04149-9 [paper, data]

Plasma proteome of Long-COVID patients indicates HIF-mediated vasculo-proliferative disease with impact on brain and heart function.

Journal: Journal of translational medicine

Status: data only, 1 dataset cited

[35679] doi:10.1186/s12974-023-02826-6 [paper]

Organotypic hippocampal culture model reveals differential responses to highly similar Zika virus isolates.

Journal: Journal of neuroinflammation

Status: data only

[35680] doi:10.1186/s13148-023-01514-9 [paper, data]

DNA methylation alterations at RE1-silencing transcription factor binding sites and their flanking regions in cancer.

Journal: Clinical epigenetics

Status: data only, 5 datasets cited

[35681] doi:10.3390/biom13060970 [paper, repository]

Unconventional Source of Neurotoxic Protein Aggregation from Organelle Off-Target Bax∆2 in Alzheimer's Disease.

Journal: Biomolecules

Authors' code: PombertLab/SSRG (MIT), annecarolm/publication_scripts (MIT)

Status: code verified, 18 files readable, 2 matches

[35682] doi:10.3390/biomimetics8020247 [paper, repository]

SNS-Toolbox: An Open Source Tool for Designing Synthetic Nervous Systems and Interfacing Them with Cyber-Physical Systems.

Journal: Biomimetics (Basel, Switzerland)

Authors' code: wnourse05/SNS-Toolbox (Apache-2.0)

Status: code verified, 196 files readable, 14 matches

[35683] doi:10.3390/ijms24129980 [paper, data]

REST Targets JAK-STAT and HIF-1 Signaling Pathways in Human Down Syndrome Brain and Neural Cells.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

Friday, 9 June 2023 (31 papers)

[35684] doi:10.1007/s00213-023-06394-8 [paper, repository]

Effect of LSD and music on the time-varying brain dynamics.

Journal: Psychopharmacology

Authors' code: igaadamska/LSD-music-brainstates (Apache-2.0)

Status: code verified, 20 files readable, 6 matches

[35685] doi:10.1016/j.celrep.2023.112574 [paper, repository]

Multiscale model of primary motor cortex circuits predicts in vivo cell-type-specific, behavioral state-dependent dynamics.

Journal: Cell reports

Authors' code: suny-downstate-medical-center/M1_NetPyNE_CellReports_2023 (no license), modeldb:260015 (no license), osb:60 (no license)

Status: code verified, 107 files readable, 34 matches

[35686] doi:10.1016/j.pacs.2023.100522 [paper, data]

Volumetric registration framework for multimodal functional magnetic resonance and optoacoustic tomography of the rodent brain.

Journal: Photoacoustics

Status: code on request, 2 datasets cited

[35687] doi:10.1016/j.xhgg.2023.100211 [paper, data]

Transcriptome-wide association study identifies novel candidate susceptibility genes for migraine.

Journal: HGG advances

Status: data only, 1 dataset cited

[35688] doi:10.1016/j.xpro.2023.102325 [paper, data]

Generation of human-induced pluripotent-stem-cell-derived cortical neurons for high-throughput imaging of neurite morphology and neuron maturation.

Journal: STAR protocols

Status: data only, 2 datasets cited

[35689] doi:10.1038/s41467-023-38923-6 [paper, repository]

Muscleblind-like proteins use modular domains to localize RNAs by riding kinesins and docking to membranes.

Journal: Nature communications

Authors' code: Zenodo 7865793 (CC-BY-4.0)

Status: empty repository

[35690] doi:10.1038/s41467-023-39040-0 [paper, data]

Variants in SART3 cause a spliceosomopathy characterised by failure of testis development and neuronal defects.

Journal: Nature communications

Status: data only, 2 datasets cited

[35691] doi:10.1038/s41467-023-39067-3 [paper, repository]

Intracranial electrophysiological and structural basis of BOLD functional connectivity in human brain white matter.

Journal: Nature communications

Authors' code: CuiLabCIBR/IEEGwmFC (no license)

Status: code verified, 55 files readable, 10 matches

[35692] doi:10.1038/s41467-023-39073-5 [paper, repository]

Distinct neural mechanisms construct classical versus extraclassical inhibitory surrounds in an inhibitory nucleus in the midbrain attention network.

Journal: Nature communications

Authors' code: Zenodo 7827183 (CC-BY-4.0)

Status: code verified, 50 files readable

[35693] doi:10.1038/s41467-023-39076-2 [paper, repository]

Waves traveling over a map of visual space can ignite short-term predictions of sensory input.

Journal: Nature communications

Authors' code: mullerlab/benignoEAwavecomp (no license), Zenodo 7863700 (other-open)

Status: code verified, 35 files readable

[35694] doi:10.1038/s41467-023-39088-y [paper, repository]

Substrate binding-induced conformational transitions in the omega-3 fatty acid transporter MFSD2A.

Journal: Nature communications

Authors' code: weinsteinlab/DNN (no license), weinsteinlab/NbIT (no license)

Status: code verified, 31 files readable, 3 matches

[35695] doi:10.1038/s41467-023-39131-y [paper, repository]

Language network lateralization is reflected throughout the macroscale functional organization of cortex.

Journal: Nature communications

Authors' code: loiclabache/Labache_2022_AO (no license), Zenodo 7869040 (other-open)

Status: code verified, 30 files readable, 4 matches

[35696] doi:10.1038/s41467-023-39218-6 [paper, data]

Cryo-EM structures of ClC-2 chloride channel reveal the blocking mechanism of its specific inhibitor AK-42.

Journal: Nature communications

Status: data only, 1 dataset cited

[35697] doi:10.1101/gr.277698.123 [paper, data]

Integration site-dependent HIV-1 promoter activity shapes host chromatin conformation.

Journal: Genome research

Status: data only, 1 dataset cited

[35698] doi:10.1126/sciadv.abq7595 [paper, repository]

Translational imaging of TSPO reveals pronounced innate inflammation in human and murine CD8 T cell-mediated limbic encephalitis.

Journal: Science advances

Authors' code: gitlab.utu.fi/vesoik/tpcclib (GPL-3.0)

Status: code verified, 1,277 files readable, 2 matches

[35699] doi:10.1126/sciadv.adf3525 [paper, data]

A CRE/DRE dual recombinase transgenic mouse reveals synaptic zinc-mediated thalamocortical neuromodulation.

Journal: Science advances

Status: data only, 1 dataset cited

[35700] doi:10.1126/sciadv.adg8558 [paper, data]

Transcriptional signatures of heroin intake and relapse throughout the brain reward circuitry in male mice.

Journal: Science advances

Status: data only, 1 dataset cited

[35701] doi:10.1140/epjc/s10052-023-11633-5 [paper, repository]

Lorentz group equivariant autoencoders.

Journal: The European physical journal. C, Particles and fields

Authors' code: ml4physicalsciences.github.io/2021 (no license), ml4physicalsciences.github.io/2020 (no license), Zenodo 7434838 (other-open), Zenodo 7067466 (other-open), Zenodo 7453769 (other-open), jet-net/jetnet (MIT), zichunhao/lgn-autoencoder (MIT), zichunhao/gnn-jet-autoencoder (MIT)

Status: code verified, 269 files readable, 16 matches

[35702] doi:10.1242/jeb.245244 [paper, data]

Divergence in cell cycle progression is associated with shifted phenology in a multivoltine moth: the European corn borer, Ostrinia nubilalis.

Journal: The Journal of experimental biology

Status: data only, 1 dataset cited

[35703] doi:10.1371/journal.pcbi.1011169 [paper, repository]

Mechanisms of human dynamic object recognition revealed by sequential deep neural networks.

Journal: PLoS computational biology

Authors' code: OSF c9gs8 (no license)

Status: code verified, 13 files readable, 5 matches

[35704] doi:10.1371/journal.pdig.0000116 [paper, repository]

Development of a dynamic prediction model for unplanned ICU admission and mortality in hospitalized patients.

Journal: PLOS digital health

Authors' code: daplaci/ClinicalDeteriorationNet (no license)

Status: code verified, 62 files readable, 5 matches

[35705] doi:10.1371/journal.pone.0285686 [paper, repository]

Contrast normalization affects response time-course of visual interneurons.

Journal: PloS one

Authors' code: nopirogova/paper_signal_time-course (no license)

Status: code verified, 3 files readable

[35706] doi:10.1523/eneuro.0196-22.2023 [paper, repository]

Long-Term Effects of Preterm Birth on Children's Brain Structure: An Analysis of the Adolescent Brain Cognitive Development (ABCD) Study.

Journal: eNeuro

Authors' code: brayneuroimaginglab/bnl_open (no license)

Status: code verified, 160 files readable

[35707] doi:10.3389/fnagi.2023.1101216 [paper]

Pooled analysis of frontal lobe transcriptomic data identifies key mitophagy gene changes in Alzheimer's disease brain.

Journal: Frontiers in aging neuroscience

Status: data only

[35708] doi:10.3389/fncom.2023.1198128 [paper, repository]

Optogenetic manipulation of inhibitory interneurons can be used to validate a model of spatiotemporal sequence learning.

Journal: Frontiers in computational neuroscience

Authors' code: gavorniklab.bu.edu/supplemental-materials.html (no license)

Status: code verified

[35709] doi:10.3389/fnins.2023.1164251 [paper, data]

Reduced levels of ALS gene <i>DCTN1</i> induce motor defects in <i>Drosophila</i>.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[35710] doi:10.3389/fnins.2023.1173699 [paper, data]

Determination of steady-state transcriptome modifications associated with repeated homotypic stress in the rat rostral posterior hypothalamic region.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[35711] doi:10.3389/fnins.2023.1188367 [paper, repository]

Mapping corpus callosum surface reduction in fetal alcohol spectrum disorders with sulci and connectivity-based parcellation.

Journal: Frontiers in neuroscience

Authors' code: neurospin/CC-parcellation-from-tractography (CC-BY-4.0)

Status: code verified, 5 files readable, 2 matches

[35712] doi:10.3389/fpsyg.2023.1117732 [paper, repository]

Bio-psycho-social factors' associations with brain age: a large-scale UK Biobank diffusion study of 35,749 participants.

Journal: Frontiers in psychology

Authors' code: NYU-DiffusionMRI/DESIGNER (MIT), ekaden/smt (BSD-2-Clause), reisert/baydiff (BSD-2-Clause)

Status: code verified, 97 files readable, 4 matches

[35713] doi:10.3390/diagnostics13122010 [paper, repository]

An Anatomical Template for the Normalization of Medical Images of Adult Human Hands.

Journal: Diagnostics (Basel, Switzerland)

Authors' code: stnava/ants (Apache-2.0), HegdeUSA/Hand_template (MIT)

Status: code verified, 310 files readable, 3 matches

[35714] doi:10.3390/s23125454 [paper]

Naturalistic Hyperscanning with Wearable Magnetoencephalography.

Journal: Sensors (Basel, Switzerland)

Status: code on request

Thursday, 8 June 2023 (23 papers)

[35715] doi:10.1016/j.bbi.2023.06.009 [paper, data]

The human lncRNA GOMAFU suppresses neuronal interferon response pathways affected in neuropsychiatric diseases.

Journal: Brain, behavior, and immunity

Status: data only, 1 dataset cited

[35716] doi:10.1016/j.ebiom.2023.104647 [paper, repository]

Dissecting shared genetic architecture between obesity and multiple sclerosis.

Journal: EBioMedicine

Authors' code: bulik/ldsc (GPL-3.0), JonJala/mtag (GPL-3.0), neurogenomics.github.io/magma_celltyping (no license)

Status: code verified, 52 files readable, 4 matches

[35717] doi:10.1016/j.isci.2023.107068 [paper]

Excitatory amino acid transporter 1 supports adult hippocampal neural stem cell self-renewal.

Journal: iScience

Status: code on request

[35718] doi:10.1016/j.isci.2023.107069 [paper, repository]

RespectM revealed metabolic heterogeneity powers deep learning for reshaping the DBTL cycle.

Journal: iScience

Authors' code: satijalab/seurat (other), Vivianstats/scImpute (no license), jaspershen/MetNormalizer (GPL-3.0), pinellolab/STREAM (AGPL-3.0)

Status: code verified, 206 files readable, 2 matches

[35719] doi:10.1016/j.isci.2023.107070 [paper]

Unbiased characterization of the larval zebrafish enteric nervous system at a single cell transcriptomic level.

Journal: iScience

Status: code on request

[35720] doi:10.1016/j.neuron.2023.05.008 [paper, repository]

Mouse frontal cortex mediates additive multisensory decisions.

Journal: Neuron

Authors' code: pipcoen/2023_CoenSit (MIT), Zenodo 7892397 (other-open), petersaj/AP_histology (GPL-3.0)

Status: code verified, 446 files readable, 26 matches

[35721] doi:10.1016/j.xpro.2023.102296 [paper]

Studying neural responses for multi-component economic choices in human and non-human primates using concept-based behavioral choice experiments.

Journal: STAR protocols

Status: code on request

[35722] doi:10.1037/rev0000427 [paper, repository]

The autocorrelated Bayesian sampler: A rational process for probability judgments, estimates, confidence intervals, choices, confidence judgments, and response times.

Journal: Psychological review

Authors' code: OSF 8wp5a (no license)

Status: code found, still to be checked

[35723] doi:10.1038/s41398-023-02492-5 [paper, repository]

Dissecting the causal association between social or physical inactivity and depression: a bidirectional two-sample Mendelian Randomization study.

Journal: Translational psychiatry

Authors' code: mrcieu.github.io/twosamplemr (no license), n-mounier/MRlap (GPL-2.0)

Status: code verified, 11 files readable, 2 matches

[35724] doi:10.1038/s41467-023-39046-8 [paper, data]

Astrocyte-oligodendrocyte interaction regulates central nervous system regeneration.

Journal: Nature communications

Status: data only, 1 dataset cited

[35725] doi:10.1038/s41531-023-00522-z [paper, data]

A multicentre study on grey matter morphometric biomarkers for classifying early schizophrenia and parkinson's disease psychosis.

Journal: NPJ Parkinson's disease

Status: data only, 1 dataset cited

[35726] doi:10.1038/s41590-023-01522-0 [paper, data]

Defining blood-induced microglia functions in neurodegeneration through multiomic profiling.

Journal: Nature immunology

Status: data only, 1 dataset cited

[35727] doi:10.1038/s41592-023-01896-x [paper, data]

Hardwiring tissue-specific AAV transduction in mice through engineered receptor expression.

Journal: Nature methods

Status: data only, 1 dataset cited

[35728] doi:10.1111/cns.14297 [paper, repository]

A neuromarker for deficit syndrome in schizophrenia from a combination of structural and functional magnetic resonance imaging.

Journal: CNS neuroscience & therapeutics

Authors' code: zaixucui/pattern_classification (no license)

Status: code verified, 98 files readable

[35729] doi:10.1172/jci.insight.168046 [paper, repository]

Foramen lacerum impingement of trigeminal nerve root as a rodent model for trigeminal neuralgia.

Journal: JCI insight

Authors' code: harnett/Shiqian-analysis (no license)

Status: code verified, 45 files readable, 2 matches

[35730] doi:10.1371/journal.pbio.3002145 [paper, data]

Sequential involvements of the perirhinal cortex and hippocampus in the recall of item-location associative memory in macaques.

Journal: PLoS biology

Status: data only, 1 dataset cited

[35731] doi:10.1371/journal.pcbi.1011104 [paper, repository]

Environmental dynamics shape perceptual decision bias.

Journal: PLoS computational biology

Authors' code: OSF v7ecy (no license)

Status: code found, still to be checked

[35732] doi:10.21037/tp-22-514 [paper]

Astrocyte-derived complement C3 is activated in patients with tuberous sclerosis complex and mediates immune injury: an integrated bioinformatics analysis.

Journal: Translational pediatrics

Status: data only

[35733] doi:10.2196/42337 [paper, repository]

A Trainable Open-Source Machine Learning Accelerometer Activity Recognition Toolbox: Deep Learning Approach.

Journal: JMIR AI

Authors' code: mmalekzadeh/motion-sense (MIT)

Status: code verified, 32 files readable

[35734] doi:10.26508/lsa.202301957 [paper, data]

Preeclampsia promotes autism in offspring via maternal inflammation and fetal NFκB signaling.

Journal: Life science alliance

Status: data only, 1 dataset cited

[35735] doi:10.3389/fnins.2023.1186751 [paper, data]

Cerebrolysin and repetitive transcranial magnetic stimulation (rTMS) in patients with traumatic brain injury: a three-arm randomized trial.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[35736] doi:10.34133/research.0171 [paper, repository]

Transcriptomic and Macroscopic Architectures of Multimodal Covariance Network Reveal Molecular-Structural-Functional Co-alterations.

Journal: Research (Washington, D.C.)

Authors' code: BMHLab/AHBAprocessing (no license)

Status: code verified, 386 files readable, 1 match

[35737] doi:10.7554/elife.83393 [paper, repository]

High-resolution volumetric imaging constrains compartmental models to explore synaptic integration and temporal processing by cochlear nucleus globular bushy cells.

Journal: eLife

Authors' code: MCKersting12/nrrd_tools (no license), cnmodel (no license), pbmanis/vcnmodel (MIT), doi:10.5061/dryad.4j0zpc8g1 (no license), gaspirou/pub_file_share (AGPL-3.0), cnmodel/cnmodel (BSD-3-Clause)

Status: code verified, 448 files readable, 32 matches

Wednesday, 7 June 2023 (34 papers)

[35738] doi:10.1002/acn3.51820 [paper]

Engineered extracellular matrices facilitate brain organoids from human pluripotent stem cells.

Journal: Annals of clinical and translational neurology

Status: code on request

[35739] doi:10.1007/s12021-023-09635-5 [paper, repository]

Geometric Reliability of Super-Resolution Reconstructed Images from Clinical Fetal MRI in the Second Trimester.

Journal: Neuroinformatics

Authors' code: gift-surg/NiftyMIC (BSD-3-Clause), Medical-Image-Analysis-Laboratory/mialsuperresolutiontoolkit (BSD-3-Clause), SVRTK/svrtk-docker-gpu (no license)

Status: code verified, 308 files readable, 1 match

[35740] doi:10.1016/j.dcn.2023.101261 [paper, repository]

Puberty differentially predicts brain maturation in male and female youth: A longitudinal ABCD Study.

Journal: Developmental cognitive neuroscience

Authors' code: OSF nh649 (no license)

Status: code found, still to be checked

[35741] doi:10.1016/j.heliyon.2023.e17065 [paper]

Regulation of RNG105/caprin1 dynamics by pathogenic cytoplasmic FUS and TDP-43 in neuronal RNA granules modulates synaptic loss.

Journal: Heliyon

Status: code on request

[35742] doi:10.1016/j.isci.2023.107022 [paper]

Induced neural stem cells suppressed neuroinflammation by inhibiting the microglial pyroptotic pathway in intracerebral hemorrhage rats.

Journal: iScience

Status: code on request

[35743] doi:10.1016/j.isci.2023.107042 [paper, data]

SRSF10 regulates proliferation of neural progenitor cells and affects neurogenesis in developing mouse neocortex.

Journal: iScience

Status: code on request, 1 dataset cited

[35744] doi:10.1016/j.isci.2023.107044 [paper]

Calcium dysregulation combined with mitochondrial failure and electrophysiological maturity converge in Parkinson's iPSC-dopamine neurons.

Journal: iScience

Status: code on request

[35745] doi:10.1016/j.isci.2023.107049 [paper]

Dephosphorylation of Six2Y129 protects tyrosine hydroxylase-positive cells in SNpc by regulating TEA domain 1 expression.

Journal: iScience

Status: code on request

[35746] doi:10.1016/j.isci.2023.107064 [paper, repository]

Pathway and directional specificity of Hebbian plasticity in the cortical visual motion processing network.

Journal: iScience

Authors' code: Zenodo 7969185 (CC-BY-4.0)

Status: empty repository

[35747] doi:10.1016/j.isci.2023.107066 [paper]

Globus pallidus internus activity increases during voluntary movement in children with dystonia.

Journal: iScience

Status: code verified

[35748] doi:10.1016/j.neuroimage.2023.120221 [paper, repository]

Perception and memory retrieval states are reflected in distributed patterns of background functional connectivity.

Journal: NeuroImage

Authors' code: peetal/Decode_AttenStates (no license)

Status: code verified, 24 files readable, 9 matches

[35749] doi:10.1038/s41467-023-38674-4 [paper, repository]

Brain-optimized deep neural network models of human visual areas learn non-hierarchical representations.

Journal: Nature communications

Authors' code: styvesg/nsd_gnet8x (no license)

Status: code verified, 27 files readable, 3 matches

[35750] doi:10.1038/s41467-023-39062-8 [paper, data]

A shared neural code for the physics of actions and object events.

Journal: Nature communications

Status: code on request, 1 dataset cited

[35751] doi:10.1038/s41598-023-36503-8 [paper, repository]

Comprehensive analysis of the coding and non-coding RNA transcriptome expression profiles of hippocampus tissue in tx-J animal model of Wilson's disease.

Journal: Scientific reports

Authors' code: biocoder/cpc (GPL-2.0)

Status: code verified, 102 files readable

[35752] doi:10.1038/s42003-023-04995-9 [paper, data]

Mesenchymal properties of iPSC-derived neural progenitors that generate undesired grafts after transplantation.

Journal: Communications biology

Status: data only, 1 dataset cited

[35753] doi:10.1098/rsif.2023.0108 [paper, repository]

Temporal dynamics of trauma memory persistence.

Journal: Journal of the Royal Society, Interface

Authors' code: OSF v4ynf (no license), doi:10.6084/m9.figshare.c.6662671 (no license)

Status: code found, still to be checked

[35754] doi:10.1098/rspb.2023.0415 [paper, repository]

A purely visual adaptation to motion can differentiate between perceptual timing and interval timing.

Journal: Proceedings. Biological sciences

Authors' code: OSF ps397 (no license)

Status: code found, still to be checked

[35755] doi:10.1126/sciadv.abq0712 [paper, data]

CD4⁺ T cells aggravate hemorrhagic brain injury.

Journal: Science advances

Status: data only, 1 dataset cited

[35756] doi:10.1126/sciadv.adf9524 [paper, repository]

A CMOS-based highly scalable flexible neural electrode interface.

Journal: Science advances

Authors' code: AllenInstitute/ecephys_spike_sorting (BSD-2-Clause)

Status: code verified, 116 files readable, 2 matches

[35757] doi:10.1159/000531194 [paper, data]

Novel Phenylethanoid Glycosides Improve Hippocampal Synaptic Plasticity via the Cyclic Adenosine Monophosphate-CREB-Brain-Derived Neurotrophic Growth Factor Pathway in APP/PS1 Transgenic Mice.

Journal: Gerontology

Status: data only, 1 dataset cited

[35758] doi:10.1186/s12864-023-09398-y [paper, repository]

Evaluating the mouse neural precursor line, SN4741, as a suitable proxy for midbrain dopaminergic neurons.

Journal: BMC genomics

Authors' code: rachelboyd/SN4741_pcHiC (no license), sarahmcclymont/SN4741_ATAC (no license), rachelboyd (no license)

Status: code verified, 66 files readable, 12 matches

[35759] doi:10.1186/s13073-023-01195-2 [paper, repository]

Not every estimate counts - evaluation of cell composition estimation approaches in brain bulk tissue data.

Journal: Genome medicine

Authors' code: ltoker/Cellephant (no license), cozygene/bisque (no license)

Status: code verified, 22 files readable, 7 matches

[35760] doi:10.1186/s40708-023-00194-8 [paper, data]

Electrical analysis of logical complexity: an exploratory eeg study of logically valid/invalid deducive inference.

Journal: Brain informatics

Status: data only, 2 datasets cited

[35761] doi:10.1523/eneuro.0505-22.2023 [paper, repository]

Scale Space Calibrates Present and Subsequent Spatial Learning in Barnes Maze in Mice.

Journal: eNeuro

Authors' code: suzuki-yusuke/BM_experiment (no license), suzuki-yusuke/BM_analysis (no license)

Status: code verified, 135 files readable, 9 matches

[35762] doi:10.3389/fnins.2023.1199568 [paper, repository]

Unraveling multi-fixel microstructure with tractography and angular weighting.

Journal: Frontiers in neuroscience

Authors' code: DelinteNicolas/UNRAVEL (GPL-3.0)

Status: code verified, 10 files readable, 1 match

[35763] doi:10.3389/fphar.2023.1197433 [paper, data]

Zhilong Huoxue Tongyu capsule attenuates intracerebral hemorrhage induced redox imbalance by modulation of Nrf2 signaling pathway.

Journal: Frontiers in pharmacology

Status: data only, 1 dataset cited

[35764] doi:10.3389/fpsyg.2023.1165622 [paper, repository]

Investigating the concept of representation in the neural and psychological sciences.

Journal: Frontiers in psychology

Authors' code: OSF sarvu (no license)

Status: code found, still to be checked

[35765] doi:10.3389/fsoc.2023.1183875 [paper, repository]

Contemporary myths on boredom.

Journal: Frontiers in sociology

Authors' code: Zenodo 6985511 (CC-BY-4.0)

Status: empty repository

[35766] doi:10.3390/bioengineering10060696 [paper, repository]

Model-Driven Analysis of ECG Using Reinforcement Learning.

Journal: Bioengineering (Basel, Switzerland)

Authors' code: lina-usc/ecg_paper (no license)

Status: code verified, 5 files readable

[35767] doi:10.3390/cells12121577 [paper, data]

scRNA-Seq of Cultured Human Amniotic Fluid from Fetuses with Spina Bifida Reveals the Origin and Heterogeneity of the Cellular Content.

Journal: Cells

Status: data only, 1 dataset cited

[35768] doi:10.3390/life13061338 [paper, data]

Research Trends in C-Terminal Domain Nuclear Envelope Phosphatase 1.

Journal: Life (Basel, Switzerland)

Status: data only, 1 dataset cited

[35769] doi:10.7554/elife.82598 [paper, repository]

The impact of task context on predicting finger movements in a brain-machine interface.

Journal: eLife

Authors' code: machenslab/dPCA (MIT), Zenodo 8048481 (MIT)

Status: code verified, 33 files readable, 6 matches

[35770] doi:10.7554/elife.85111 [paper, repository]

The locus coeruleus broadcasts prediction errors across the cortex to promote sensorimotor plasticity.

Journal: eLife

Authors' code: sourceforge.net/iris-scanning (no license), data.fmi.ch/publicationsupplementrepo (no license), Zenodo 8006972 (CC-BY-4.0)

Status: code verified

[35771] doi:10.7554/elife.85970 [paper, repository]

Neural circuit-wide analysis of changes to gene expression during deafening-induced birdsong destabilization.

Journal: eLife

Authors' code: bradleycolquitt/deaf_gex (MIT)

Status: code verified, 8 files readable, 15 matches

Tuesday, 6 June 2023 (21 papers)

[35772] doi:10.1021/acs.chemrestox.3c00095 [paper, repository]

Structure-Activity Relationship of Lower Chlorinated Biphenyls and Their Human-Relevant Metabolites for Astrocyte Toxicity.

Journal: Chemical research in toxicology

Authors' code: Zenodo 7909031 (other-open), Zenodo 7909030 (other-open), valdiman/metab-partitioning (BSD-2-Clause)

Status: code verified, 12 files readable, 1 match

[35773] doi:10.1038/s41467-023-39023-1 [paper, data]

Growth hormone releasing hormone signaling promotes Th17 cell differentiation and autoimmune inflammation.

Journal: Nature communications

Status: data only, 1 dataset cited

[35774] doi:10.1038/s41467-023-39054-8 [paper, data]

PIE-seq: identifying RNA-binding protein targets by dual RNA-deaminase editing and sequencing.

Journal: Nature communications

Status: data only, 2 datasets cited

[35775] doi:10.1038/s41598-023-35932-9 [paper, repository]

Self-regulation of visual word form area activation with real-time fMRI neurofeedback.

Journal: Scientific reports

Authors' code: OSF 4qhdb (no license)

Status: code found, still to be checked

[35776] doi:10.1073/pnas.2210719120 [paper, repository]

Astrocytic engagement of the corticostriatal synaptic cleft is disrupted in a mouse model of Huntington's disease.

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

Authors' code: qim.dk/portfolio-items/relational-shape-measure (no license), lab.compute.dtu.dk/qim/tools (no license)

Status: code verified

[35777] doi:10.1073/pnas.2219557120 [paper, repository]

Topological insights into the neural basis of flexible behavior.

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

Authors' code: TCR23/TopologyForAttention (no license)

Status: code verified, 1 file readable

[35778] doi:10.1073/pnas.2220200120 [paper, repository]

Heterogeneous growth of the insula shapes the human brain.

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

Authors' code: BioMedIA/dhcp-structural-pipeline (Apache-2.0), mallelaan/brain_development (no license)

Status: code verified, 1,250 files readable, 4 matches

[35779] doi:10.1073/pnas.2220867120 [paper, data]

ZBTB20 is essential for cochlear maturation and hearing in mice.

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

Status: data only, 1 dataset cited

[35780] doi:10.1073/pnas.2301528120 [paper, repository]

Implications of a temperature-dependent heat capacity for temperature-gated ion channels.

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

Authors' code: frank-yeh-95/thermotrpdeltacpt (no license)

Status: code verified, 8 files readable

[35781] doi:10.1097/j.pain.0000000000002934 [paper, repository]

Deep RNA-seq of male and female murine sensory neuron subtypes after nerve injury.

Journal: Pain

Authors' code: livedataoxford.shinyapps.io/drg-directory (no license), aliibarry/shiny (no license)

Status: code verified, 4 files readable

[35782] doi:10.1097/j.pain.0000000000002958 [paper, repository]

Brain morphology predicts individual sensitivity to pain: a multicenter machine learning approach.

Journal: Pain

Authors' code: pni-lab/ctp-signature (no license)

Status: code verified, 6 files readable, 9 matches

[35783] doi:10.1111/bcp.15793 [paper, data]

Genetically instrumented LDL-cholesterol lowering and multiple disease outcomes: A Mendelian randomization phenome-wide association study in the UK Biobank.

Journal: British journal of clinical pharmacology

Status: data only, 1 dataset cited

[35784] doi:10.1111/epi.17663 [paper, repository]

Temporal stability of intracranial electroencephalographic abnormality maps for localizing epileptogenic tissue.

Journal: Epilepsia

Authors' code: cnnp-lab/2023Wang_Temporal-stability (CC0-1.0)

Status: code verified, 10 files readable, 2 matches

[35785] doi:10.1186/s13287-023-03382-9 [paper, data]

Suspension culture improves iPSC expansion and pluripotency phenotype.

Journal: Stem cell research & therapy

Status: data only, 5 datasets cited

[35786] doi:10.1210/jendso/bvad072 [paper, data]

Metreleptin Robustly Increases Resting-state Brain Connectivity in Treatment-naïve Female Patients With Lipodystrophy.

Journal: Journal of the Endocrine Society

Status: data only, 1 dataset cited

[35787] doi:10.1371/journal.pbio.3002128 [paper, repository]

Distinct neural encoding of glimpsed and masked speech in multitalker situations.

Journal: PLoS biology

Authors' code: Naplib/Naplib (no license), naplab/naplib-python (MIT)

Status: code verified, 141 files readable, 11 matches

[35788] doi:10.1371/journal.pcbi.1011167 [paper, repository]

Identifying properties of pattern completion neurons in a computational model of the visual cortex.

Journal: PLoS computational biology

Authors' code: caseymbaker/V1_Mouse_L23_Model (no license), figshare 22525099 (CC-BY-4.0), figshare 22547011 (CC-BY-4.0)

Status: code verified, 7 files readable, 4 matches

[35789] doi:10.17179/excli2023-6129 [paper, data]

Momordicine I suppresses glioma growth by promoting apoptosis and impairing mitochondrial oxidative phosphorylation.

Journal: EXCLI journal

Status: data only, 1 dataset cited

[35790] doi:10.3389/fncel.2023.1179796 [paper, data]

Moderate intrinsic phenotypic alterations in <i>C9orf72</i> ALS/FTD iPSC-microglia despite the presence of C9orf72 pathological features.

Journal: Frontiers in cellular neuroscience

Status: data only, 1 dataset cited

[35791] doi:10.7554/elife.83289 [paper, repository]

Model discovery to link neural activity to behavioral tasks.

Journal: eLife

Authors' code: seung-lab/connected-components-3d (GPL-3.0), haesemeyer/mine_pub (MIT), haesemeyer/imaging_pipeline (MIT), jcostabile/2p (no license)

Status: code verified, 57 files readable, 24 matches

[35792] doi:10.7554/elife.84357 [paper, repository]

Inconsistencies between human and macaque lesion data can be resolved with a stimulus-computable model of the ventral visual stream.

Journal: eLife

Authors' code: tzler/eldridge_reanalysis (no license)

Status: code verified, 2 files readable, 3 matches

Monday, 5 June 2023 (27 papers)

[35793] doi:10.1002/epi4.12767 [paper]

Identifying epileptogenic abnormalities through spatial clustering of MEG interictal band power.

Journal: Epilepsia open

Status: code on request

[35794] doi:10.1007/s00429-023-02653-8 [paper, data]

HumanBrainAtlas: an in vivo MRI dataset for detailed segmentations.

Journal: Brain structure & function

Status: data only, 1 dataset cited

[35795] doi:10.1016/j.bbih.2023.100646 [paper, data]

Autistic spectrum disorder (ASD) - Gene, molecular and pathway signatures linking systemic inflammation, mitochondrial dysfunction, transsynaptic signalling, and neurodevelopment.

Journal: Brain, behavior, & immunity - health

Status: data only, 1 dataset cited

[35796] doi:10.1016/j.heliyon.2023.e16908 [paper, data]

Short-chain fatty and carboxylic acid changes associated with fecal microbiota transplant communally influence microglial inflammation.

Journal: Heliyon

Status: data only, 1 dataset cited

[35797] doi:10.1016/j.nbd.2023.106174 [paper, repository]

Shared genetic loci between Alzheimer's disease and multiple sclerosis: Crossroads between neurodegeneration and immune system.

Journal: Neurobiology of disease

Authors' code: precimed/mixer (GPL-3.0), precimed/pleiofdr (GPL-3.0)

Status: code verified, 55 files readable, 3 matches

[35798] doi:10.1016/j.neuroimage.2023.120195 [paper, repository]

Brain hubs defined in the group do not overlap with regions of high inter-individual variability.

Journal: NeuroImage

Authors' code: GrattonLab/SeitzmanGratton-2019-PNAS (GPL-3.0), MidnightScanClub (no license), GrattonLab (no license)

Status: code verified, 100 files readable, 1 match

[35799] doi:10.1016/j.xgen.2023.100326 [paper, repository]

150 risk variants for diverticular disease of intestine prioritize cell types and enable polygenic prediction of disease susceptibility.

Journal: Cell genomics

Authors' code: bulik/ldsc (GPL-3.0), omerwe/polyfun (MIT), stephenslab/susieR (other)

Status: code verified, 213 files readable, 7 matches

[35800] doi:10.1038/s41467-023-38669-1 [paper, repository]

Wide-spread brain activation and reduced CSF flow during avian REM sleep.

Journal: Nature communications

Authors' code: Zenodo 7851602 (CC-BY-4.0)

Status: code verified, 17 files readable, 8 matches

[35801] doi:10.1038/s41467-023-38953-0 [paper, data]

A multiple super-enhancer region establishes inter-TAD interactions and controls Hoxa function in cranial neural crest.

Journal: Nature communications

Status: data only, 1 dataset cited

[35802] doi:10.1038/s41467-023-38972-x [paper, repository]

Hierarchical fluctuation shapes a dynamic flow linked to states of consciousness.

Journal: Nature communications

Authors' code: Zenodo 7855130 (other-open), netneurolab/markello_spatialnulls (BSD-3-Clause), fcp-indi/c-pac (GPL-3.0), angli1993/hi_consciousness (GPL-3.0)

Status: code verified, 329 files readable, 5 matches

[35803] doi:10.1038/s41467-023-38988-3 [paper, repository]

Downregulation of extraembryonic tension controls body axis formation in avian embryos.

Journal: Nature communications

Authors' code: humphreysb/ConvertTDMS (BSD-3-Clause)

Status: code verified, 4 files readable

[35804] doi:10.1038/s41531-023-00521-0 [paper]

Distinct cortical and subcortical predictors of Purdue Pegboard decline in Parkinson's disease and atypical parkinsonism.

Journal: NPJ Parkinson's disease

Status: code on request

[35805] doi:10.1038/s41598-023-36029-z [paper, data]

Multiple visual objects are represented differently in the human brain and convolutional neural networks.

Journal: Scientific reports

Status: data only, 1 dataset cited

[35806] doi:10.1038/s41598-023-36061-z [paper, repository]

Deep learning phase error correction for cerebrovascular 4D flow MRI.

Journal: Scientific reports

Authors' code: AiDALabUCSD/Neuro-Phase-Error-Correction (no license)

Status: dead link

[35807] doi:10.1038/s41598-023-36336-5 [paper, repository]

Improving deep learning model performance under parametric constraints for materials informatics applications.

Journal: Scientific reports

Authors' code: GuptaVishu2002/BRNet (MIT)

Status: code verified, 5 files readable, 2 matches

[35808] doi:10.1038/s42003-023-04920-0 [paper, repository]

Cerebellar contributions to a brainwide network for flexible behavior in mice.

Journal: Communications biology

Authors' code: PrincetonUniversity/BrainPipe (GPL-3.0), PrincetonUniversity/OF-ymaze-cfos-analysis (MIT)

Status: code verified, 281 files readable, 21 matches

[35809] doi:10.1049/syb2.12066 [paper, data]

Identification of genomic biomarkers and their pathway crosstalks for deciphering mechanistic links in glioblastoma.

Journal: IET systems biology

Status: data only, 1 dataset cited

[35810] doi:10.1073/pnas.2219435120 [paper, data]

Membrane vesicle delivery of a streptococcal M protein disrupts the blood-brain barrier by inducing autophagic endothelial cell death.

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

Status: data only, 2 datasets cited

[35811] doi:10.1073/pnas.2221641120 [paper, data]

Sensory and motor representations of internalized rhythms in the cerebellum and basal ganglia.

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

Status: data only, 1 dataset cited

[35812] doi:10.1073/pnas.2303760120 [paper, repository]

CARD9 attenuates Aβ pathology and modifies microglial responses in an Alzheimer's disease mouse model.

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

Authors' code: Zenodo 7947039 (CC-BY-4.0)

Status: code verified, 1 file readable

[35813] doi:10.1128/mra.00138-23 [paper, data]

Complete Genome Sequence of Invasive MLST-Untypeable Serotype 3 <i>xpt</i>-Deficient Streptococcus pneumoniae Strain B1900, Isolated from the Brain of an Infant Rhesus Monkey (Macaca mulatta) That Died of Meningitis.

Journal: Microbiology resource announcements

Status: data only, 2 datasets cited

[35814] doi:10.1523/eneuro.0408-22.2023 [paper, repository]

Content Representation of Tactile Mental Imagery in Primary Somatosensory Cortex.

Journal: eNeuro

Authors' code: Neurocomputation-and-Neuroimaging-Unit/Tactile_Imagery_Content_in_SI (no license)

Status: code verified, 39 files readable, 15 matches

[35815] doi:10.1523/jneurosci.2076-22.2023 [paper, data]

Integrin-Driven Axon Regeneration in the Spinal Cord Activates a Distinctive CNS Regeneration Program.

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

Status: data only, 1 dataset cited

[35816] doi:10.3389/fncel.2023.1198657 [paper, repository]

Physical activity and the brain myelin content in humans.

Journal: Frontiers in cellular neuroscience

Authors' code: mezera/mrQ (MIT)

Status: code verified, 126 files readable

[35817] doi:10.3389/fnins.2023.1175629 [paper, repository]

Characterizing neural coding performance for populations of sensory neurons: comparing a weighted spike distance metrics to other analytical methods.

Journal: Frontiers in neuroscience

Authors' code: marsat.org/publications/code (no license)

Status: code verified

[35818] doi:10.3389/fnins.2023.1178283 [paper, repository]

A novel visual brain-computer interfaces paradigm based on evoked related potentials evoked by weak and small number of stimuli.

Journal: Frontiers in neuroscience

Authors' code: TBC-TJU/MetaBCI (GPL-2.0)

Status: code verified, 132 files readable, 7 matches

[35819] doi:10.7554/elife.86103 [paper, data]

Role of the postinspiratory complex in regulating swallow-breathing coordination and other laryngeal behaviors.

Journal: eLife

Status: data only, 1 dataset cited

Sunday, 4 June 2023 (4 papers)

[35820] doi:10.1002/imt2.116 [paper, repository]

&lt;i&gt;Lepidium meyenii&lt;/i&gt; Walp (Maca)-derived extracellular vesicles ameliorate depression by promoting 5-HT synthesis via the modulation of gut-brain axis.

Journal: iMeta

Authors' code: imeta.science (no license)

Status: code verified

[35821] doi:10.1007/s11357-023-00840-3 [paper, repository]

DNA methylation clocks for clawed frogs reveal evolutionary conservation of epigenetic aging.

Journal: GeroScience

Authors' code: shorvath/MammalianMethylationConsortium (MIT), Zenodo 7574747 (other-open)

Status: code verified, 50 files readable, 7 matches

[35822] doi:10.3390/bioengineering10060685 [paper, repository]

Physiological Noise Filtering in Functional Near-Infrared Spectroscopy Signals Using Wavelet Transform and Long-Short Term Memory Networks.

Journal: Bioengineering (Basel, Switzerland)

Authors' code: sohyeonyoo/MODWT-LSTM (no license)

Status: code verified, 1 file readable

[35823] doi:10.3390/molecules28114545 [paper, repository]

The Motion Paradigm of Pre-Dock Zearalenone Hydrolase Predictions with Molecular Dynamics and the Docking Phase with Umbrella Sampling.

Journal: Molecules (Basel, Switzerland)

Authors' code: juexinwang/NRI-MD (MIT)

Status: code verified, 10 files readable

Saturday, 3 June 2023 (9 papers)

[35824] doi:10.1016/j.dib.2023.109289 [paper, data]

Brain electrophysiological recording during olfactory stimulation in mild cognitive impairment and Alzheimer disease patients: An EEG dataset.

Journal: Data in brief

Status: data only, 2 datasets cited

[35825] doi:10.1016/j.xpro.2023.102345 [paper]

Protocol to prepare mouse spinal cord for patch-clamp and histology experiments.

Journal: STAR protocols

Status: code on request

[35826] doi:10.1016/j.ynirp.2023.100174 [paper, repository]

Exploring interhemispheric connectivity using the directional tract density patterns of the corpus callosum.

Journal: Neuroimage. Reports

Authors' code: _ali_demir/dtdp (no license)

Status: code verified, 225 files readable, 5 matches

[35827] doi:10.1038/s41386-023-01606-3 [paper, repository]

Long term structural and functional neural changes following a single infusion of Ketamine in PTSD.

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

Authors' code: orduek/KPE (MIT)

Status: code verified, 24 files readable

[35828] doi:10.1038/s41531-023-00531-y [paper]

Targeted metabolomic analysis in Parkinson's disease brain frontal cortex and putamen with relation to cognitive impairment.

Journal: NPJ Parkinson's disease

Status: code on request

[35829] doi:10.1038/s41598-023-36255-5 [paper, repository]

A single-cell trajectory atlas of striatal development.

Journal: Scientific reports

Authors' code: bradleycolquitt/songbird_cells (no license)

Status: code verified, 47 files readable, 5 matches

[35830] doi:10.1111/acel.13898 [paper]

Age- and sex-dependent alterations in primary somatosensory cortex neuronal calcium network dynamics during locomotion.

Journal: Aging cell

Status: code on request

[35831] doi:10.3390/cancers15113045 [paper, data]

The Role of Adhesion Molecules and Extracellular Vesicles in an In Vitro Model of the Blood-Brain Barrier for Metastatic Disease.

Journal: Cancers

Status: data only, 2 datasets cited

[35832] doi:10.3390/diagnostics13111957 [paper, data]

Effective Early Detection of Epileptic Seizures through EEG Signals Using Classification Algorithms Based on t-Distributed Stochastic Neighbor Embedding and K-Means.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 3 datasets cited

Friday, 2 June 2023 (33 papers, 8 on this page)

[35833] doi:10.1007/s12031-023-02123-0 [paper, data]

Transcriptome Profiling of Hippocampus After Cerebral Hypoperfusion in Mice.

Journal: Journal of molecular neuroscience : MN

Status: data only, 1 dataset cited

[35834] doi:10.1016/j.cell.2023.05.006 [paper, repository]

Sleep is required to consolidate odor memory and remodel olfactory synapses.

Journal: Cell

Authors' code: letoilelab/Sleep_2022 (no license)

Status: empty repository, 1 file readable

[35835] doi:10.1016/j.crmeth.2023.100489 [paper]

Optical opening of the blood-brain barrier for targeted and ultra-sparse viral infection of cells in mouse cortex.

Journal: Cell reports methods

Status: code on request

[35836] doi:10.1038/s41467-023-37689-1 [paper, repository]

Therapeutic blood-brain barrier modulation and stroke treatment by a bioengineered FZD₄-selective WNT surrogate in mice.

Journal: Nature communications

Authors' code: califano-lab/NDP-KO-SC (no license)

Status: code verified, 5 files readable, 5 matches

[35837] doi:10.1038/s41467-023-38910-x [paper, repository]

Microstructural and functional plasticity following repeated brain stimulation during cognitive training in older adults.

Journal: Nature communications

Authors' code: annaelisabethfromm/NCOM_Antonenko_2023 (Apache-2.0)

Status: code verified, 3 files readable, 3 matches

[35838] doi:10.1038/s41467-023-38912-9 [paper, data]

Two RhoGEF isoforms with distinct localisation control furrow position during asymmetric cell division.

Journal: Nature communications

Status: data only, 3 datasets cited

[35839] doi:10.1038/s41467-023-38973-w [paper, repository]

Circadian regulation of developmental synaptogenesis via the hypocretinergic system.

Journal: Nature communications

Authors' code: soaringdu/Proj-CS (no license)

Status: code verified, 6 files readable

[35840] doi:10.1038/s41597-023-02243-7 [paper, repository]

An EEG database for the cognitive assessment of motor imagery during walking with a lower-limb exoskeleton.

Journal: Scientific data

Authors' code: bmislab/DECODED (no license), figshare 21185884 (CC-BY-4.0)

Status: code verified, 3 files readable, 2 matches

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