Every paper, by date: page 154

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 154 of 200: 11 August 2023 to 2 August 2023.

Friday, 11 August 2023 (26 papers, 10 on this page)

[34273] doi:10.1523/eneuro.0158-23.2023 [paper, data]

TARPγ2 Is Required for Normal AMPA Receptor Expression and Function in Direction-Selective Circuits of the Mammalian Retina.

Journal: eNeuro

Status: data only, 1 dataset cited

[34274] doi:10.3389/fncel.2023.1225504 [paper, data]

Regeneration of the cerebral cortex by direct chemical reprogramming of macrophages into neuronal cells in acute ischemic stroke.

Journal: Frontiers in cellular neuroscience

Status: data only, 12 datasets cited

[34275] doi:10.3389/fneur.2023.1110883 [paper, repository]

Reduced neurite density index in the prefrontal cortex of adults with autism assessed using neurite orientation dispersion and density imaging.

Journal: Frontiers in neurology

Authors' code: arash-n/GBSS (CC-BY-NC-4.0)

Status: code verified, 11 files readable, 3 matches

[34276] doi:10.3389/fnins.2023.1209521 [paper]

Estimating axon radius using diffusion-relaxation MRI: calibrating a surface-based relaxation model with histology.

Journal: Frontiers in neuroscience

Status: code on request

[34277] doi:10.3389/fnins.2023.1220122 [paper, repository]

Decreased GABA levels of the anterior and posterior cingulate cortex are associated with executive dysfunction in mild cognitive impairment.

Journal: Frontiers in neuroscience

Authors' code: richardedden/Gannet3.1 (no license)

Status: code verified, 89 files readable, 8 matches

[34278] doi:10.3389/fnut.2023.1115727 [paper, data]

The effects of an 8-week mindful eating intervention on anticipatory reward responses in striatum and midbrain.

Journal: Frontiers in nutrition

Status: data only, 1 dataset cited

[34279] doi:10.3390/cancers15164070 [paper, data]

Proteomic Analysis on Sequential Samples of Cystic Fluid Obtained from Human Brain Tumors.

Journal: Cancers

Status: data only, 1 dataset cited

[34280] doi:10.3390/diagnostics13162650 [paper, data]

Brain Tumor Segmentation from MRI Images Using Handcrafted Convolutional Neural Network.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 1 dataset cited

[34281] doi:10.3390/nu15163542 [paper, repository]

Dietary Flaxseed and Flaxseed Oil Differentially Modulate Aspects of the Microbiota Gut-Brain Axis Following an Acute Lipopolysaccharide Challenge in Male C57Bl/6 Mice.

Journal: Nutrients

Authors' code: genome.jp/kegg-bin/get_htext (no license)

Status: code verified

[34282] doi:10.7554/elife.86453 [paper, data]

Resting-state fMRI signals contain spectral signatures of local hemodynamic response timing.

Journal: eLife

Status: data only, 1 dataset cited

Thursday, 10 August 2023 (29 papers)

[34283] doi:10.1002/advs.202301367 [paper, data]

The Lysine Demethylase KDM7A Regulates Immediate Early Genes in Neurons.

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

Status: data only, 1 dataset cited

[34284] doi:10.1002/eat.24028 [paper, data]

Emotional food-cue-reactivity in anorexia nervosa and bulimia nervosa: An electroencephalography study.

Journal: The International journal of eating disorders

Status: data only, 1 dataset cited

[34285] doi:10.1007/s12035-023-03522-5 [paper]

Sex Differences in Long-term Outcome of Prenatal Exposure to Excess Glucocorticoids-Implications for Development of Psychiatric Disorders.

Journal: Molecular neurobiology

Status: code on request

[34286] doi:10.1038/s41380-023-02195-9 [paper, repository]

A meta-analysis and systematic review of single vs. multimodal neuroimaging techniques in the classification of psychosis.

Journal: Molecular psychiatry

Authors' code: GrattonLab/Porter_metaAnalysis2022 (no license)

Status: code verified, 4 files readable

[34287] doi:10.1038/s41467-023-39789-4 [paper, data]

NvPrdm14d-expressing neural progenitor cells contribute to non-ectodermal neurogenesis in Nematostella vectensis.

Journal: Nature communications

Status: data only, 3 datasets cited

[34288] doi:10.1038/s41467-023-39941-0 [paper, repository]

Brain mitochondrial diversity and network organization predict anxiety-like behavior in male mice.

Journal: Nature communications

Authors' code: Zenodo 7955250 (other-open), braindynamicslab/tda-mito-networks (no license)

Status: code verified, 16 files readable, 1 match

[34289] doi:10.1038/s41467-023-40503-7 [paper, repository]

Cell-type-specific co-expression inference from single cell RNA-sequencing data.

Journal: Nature communications

Authors' code: xuranw/locCSN (MIT), lingfeiwang/normalisr (BSD-3-Clause), ChangSuBiostats/CS-CORE (MIT), ChangSuBiostats/CS-CORE_python (MIT), changsubiostats.github.io/cs-core (no license), Zenodo 7983426 (other-open)

Status: code verified, 98 files readable, 7 matches

[34290] doi:10.1038/s41594-023-01060-1 [paper, repository]

Droplet-based single-cell joint profiling of histone modifications and transcriptomes.

Journal: Nature structural & molecular biology

Authors' code: Xieeeee/Droplet-Paired-Tag (no license)

Status: code verified, 20 files readable, 6 matches

[34291] doi:10.1038/s41598-023-38101-0 [paper, data]

Supervised machine learning classification of psychosis biotypes based on brain structure: findings from the Bipolar-Schizophrenia network for intermediate phenotypes (B-SNIP).

Journal: Scientific reports

Status: data only, 1 dataset cited

[34292] doi:10.1038/s41598-023-39864-2 [paper, repository]

Fine-grained cell-type specific association studies with human bulk brain data using a large single-nucleus RNA sequencing based reference panel.

Journal: Scientific reports

Authors' code: ejvandenoord/Empirical-Bayes-estimation-of-cell-type-proportions (no license), ejvandenoord/celltype_MWAS (no license)

Status: code verified, 5 files readable

[34293] doi:10.1038/s42003-023-05197-z [paper]

Shared intentionality modulates interpersonal neural synchronization at the establishment of communication system.

Journal: Communications biology

Status: code on request

[34294] doi:10.1038/s42003-023-05200-7 [paper, repository]

An oscillatory mechanism for multi-level storage in short-term memory.

Journal: Communications biology

Authors' code: goldman-lab/Championetal2023.jl (MIT), Zenodo 8170156 (other-open)

Status: code verified, 10 files readable

[34295] doi:10.1038/s42256-023-00702-9 [paper, repository]

Prediction of mechanistic subtypes of Parkinson's using patient-derived stem cell models.

Journal: Nature machine intelligence

Authors' code: Zenodo 7276333 (other-open), Zenodo 8116411 (other-open), esmb/save-size-and-intensity (no license), minee-liane-choi/chempredpd (GPL-3.0)

Status: code verified, 10 files readable

[34296] doi:10.1093/pnasnexus/pgad262 [paper, repository]

Day-night fluctuations in choroid plexus transcriptomics and cerebrospinal fluid metabolomics.

Journal: PNAS nexus

Authors' code: Sorennorge/Day_night_transcriptomics_and_CSF_metabolomics (no license)

Status: code verified, 30 files readable, 1 match

[34297] doi:10.1128/jvi.00827-23 [paper, data]

Deep spatial profiling of Venezuelan equine encephalitis virus reveals increased genetic diversity amidst neuroinflammation and cell death during brain infection.

Journal: Journal of virology

Status: data only, 1 dataset cited

[34298] doi:10.1162/imag_a_00001 [paper, repository]

Developmental changes in individual alpha frequency: Recording EEG data during public engagement events.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF ct2xw (no license)

Status: code verified, 2 files readable, 3 matches

[34299] doi:10.1162/imag_a_00002 [paper, repository]

The interaction between random and systematic visual stimulation and infraslow quasiperiodic spatiotemporal patterns of whole brain activity.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: GT-EmoryMINDlab/PartialHumanBrain_preprocessing (GPL-3.0)

Status: code verified, 61 files readable, 4 matches

[34300] doi:10.1162/imag_a_00003 [paper, data]

Auditory dyadic interactions through the "eye" of the social brain: How visual is the posterior STS interaction region?

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

[34301] doi:10.1162/imag_a_00005 [paper, repository]

Confidence is predicted by pre- and post-choice decision signal dynamics.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF 4dqkz (no license), Zenodo 7550910 (other-open), johnpgrogan/postdecisioncpp (no license)

Status: code verified, 215 files readable, 6 matches

[34302] doi:10.1162/imag_a_00006 [paper, repository]

The representational dynamics of the animal appearance bias in human visual cortex are indicative of fast feedforward processing.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: OSF d5egu (no license)

Status: code verified, 9 files readable, 3 matches

[34303] doi:10.1186/s12944-023-01883-3 [paper, repository]

Identification of cholesterol metabolism-related subtypes in nonfunctioning pituitary neuroendocrine tumors and analysis of immune infiltration.

Journal: Lipids in health and disease

Authors' code: supp:PMC10413501/12944_2023_1883_MOESM3_ESM.r (no license)

Status: code verified, 1 file readable

[34304] doi:10.1186/s13046-023-02770-6 [paper, data]

CIS deletion by CRISPR/Cas9 enhances human primary natural killer cell functions against allogeneic glioblastoma.

Journal: Journal of experimental & clinical cancer research : CR

Status: data only, 1 dataset cited

[34305] doi:10.1186/s13048-023-01205-2 [paper, data]

Linkage and association of variants in the dopamine receptor 2 gene (DRD2) with polycystic ovary syndrome.

Journal: Journal of ovarian research

Status: data only, 1 dataset cited

[34306] doi:10.1186/s42466-023-00263-7 [paper, repository]

Subthalamic 85 Hz deep brain stimulation improves walking pace and stride length in Parkinson's disease patients.

Journal: Neurological research and practice

Authors' code: dpedrosac/DBSgait (MIT), OSF qsu4j (no license)

Status: code verified, 31 files readable, 2 matches

[34307] doi:10.3389/fninf.2023.1191200 [paper, repository]

versaFlow: a versatile pipeline for resolution adapted diffusion MRI processing and its application to studying the variability of the PRIME-DE database.

Journal: Frontiers in neuroinformatics

Authors' code: AlexVCaron/versaFlow (other), hub.docker.com/r/avcaron (no license), AlexVCaron/mrHARDI (MIT)

Status: code verified, 132 files readable, 9 matches

[34308] doi:10.3389/fnins.2023.1180293 [paper, repository]

Exploring the feasibility of tensor decomposition for analysis of fNIRS signals: a comparative study with grand averaging method.

Journal: Frontiers in neuroscience

Authors' code: jas-chan/tensor-decomposition-for-analysis-of-fnirs-signals (MIT)

Status: code verified, 15 files readable, 2 matches

[34309] doi:10.3389/fnins.2023.1210138 [paper, data]

LITE-1 mediates behavioral responses to X-rays in <i>Caenorhabditis elegans</i>.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[34310] doi:10.3390/jcm12165215 [paper, data]

Ankle Strategies for Step-Aside Movement during Straight Walking.

Journal: Journal of clinical medicine

Status: data only, 1 dataset cited

[34311] doi:10.7554/elife.81701 [paper, repository]

Object representation in a gravitational reference frame.

Journal: eLife

Authors' code: amxemonds/ObjectGravity (no license)

Status: code verified, 7 files readable

Wednesday, 9 August 2023 (36 papers)

[34312] doi:10.1002/1878-0261.13494 [paper, repository]

Epigenetic silencing of HTATIP2 in glioblastoma contributes to treatment resistance by enhancing nuclear translocation of the DNA repair protein MPG.

Journal: Molecular oncology

Authors' code: cellprofiler/cellprofiler (BSD-3-Clause)

Status: code verified, 974 files readable, 3 matches

[34313] doi:10.1002/hbm.26446 [paper, repository]

Retinotopic connectivity maps of human visual cortex with unconstrained eye movements.

Journal: Human brain mapping

Authors' code: OSF 46wcm (no license)

Status: code verified, 9 files readable, 2 matches

[34314] doi:10.1016/j.bpsgos.2023.08.001 [paper, data]

Corticosteroid Treatment During Sepsis Alters Hippocampal Function in Male and Female Survivors.

Journal: Biological psychiatry global open science

Status: data only, 1 dataset cited

[34315] doi:10.1016/j.cell.2023.07.009 [paper, repository]

Distinct molecular profiles of skull bone marrow in health and neurological disorders.

Journal: Cell

Authors' code: erturklab/skull_immune (no license)

Status: code verified

[34316] doi:10.1016/j.celrep.2023.112957 [paper]

Tle4 controls both developmental acquisition and early post-natal maturation of corticothalamic projection neuron identity.

Journal: Cell reports

Status: code on request

[34317] doi:10.1016/j.dib.2023.109490 [paper, data]

Word-timestamped transcripts of two spoken narrative recall functional neuroimaging datasets.

Journal: Data in brief

Status: data only, 6 datasets cited

[34318] doi:10.1016/j.isci.2023.107561 [paper]

DHHC2 regulates fear memory formation, LTP, and AKAP150 signaling in the hippocampus.

Journal: iScience

Status: code on request

[34319] doi:10.1016/j.isci.2023.107585 [paper, repository]

Multi-omic approach identifies hypoxic tumor-associated myeloid cells that drive immunobiology of high-risk pediatric ependymoma.

Journal: iScience

Authors' code: broadinstitute/inferCNV (other)

Status: code verified, 82 files readable

[34320] doi:10.1016/j.media.2023.102926 [paper, repository]

MISPEL: A supervised deep learning harmonization method for multi-scanner neuroimaging data.

Journal: Medical image analysis

Authors' code: Mahbaneh/MISPEL (no license)

Status: code verified, 7 files readable, 1 match

[34321] doi:10.1016/j.redox.2023.102846 [paper, data]

Metabolic reprogramming in inflammatory microglia indicates a potential way of targeting inflammation in Alzheimer's disease.

Journal: Redox biology

Status: data only, 1 dataset cited

[34322] doi:10.1016/j.xpro.2023.102482 [paper, repository]

Immunofluorescence protocol for localizing protein targets in brain tissue from diverse model and non-model mammals.

Journal: STAR protocols

Authors' code: phylot.biobyte.de (no license)

Status: code verified

[34323] doi:10.1017/s0033291723001861 [paper, repository]

Predicting long-term outcome in anorexia nervosa: a machine learning analysis of brain structure at different stages of weight recovery.

Journal: Psychological medicine

Authors' code: OSF mcjp6 (no license)

Status: code verified, 13 files readable, 5 matches

[34324] doi:10.1021/acs.jcim.3c00651 [paper, repository]

De Novo Design of κ-Opioid Receptor Antagonists Using a Generative Deep-Learning Framework.

Journal: Journal of chemical information and modeling

Authors' code: molecularsets/moses (MIT), PatWalters/solubility (MIT), rdkit/rdkit (BSD-3-Clause), insilicomedicine/GENTRL (no license)

Status: code verified, 1,770 files readable, 7 matches

[34325] doi:10.1038/s41420-023-01588-7 [paper, repository]

Nogo-A antibody delivery through the olfactory mucosa mitigates experimental autoimmune encephalomyelitis in the mouse CNS.

Journal: Cell death discovery

Authors' code: ludovicosilvestri/RAPID_CLSM (GPL-3.0)

Status: code verified, 425 files readable

[34326] doi:10.1038/s41467-023-40477-6 [paper, repository]

Dynamics of cortical contrast adaptation predict perception of signals in noise.

Journal: Nature communications

Authors' code: geffenlab/contrast_behavior (no license), geffenlab/contrast_glm (no license)

Status: code verified, 891 files readable, 12 matches

[34327] doi:10.1038/s41467-023-40513-5 [paper, repository]

Single-cell analysis reveals region-heterogeneous responses in rhesus monkey spinal cord with complete injury.

Journal: Nature communications

Authors' code: 10xgenomics.com (no license), chris-mcginnis-ucsf/DoubletFinder (no license), satijalab.org/seurat (no license), cole-trapnell-lab.github.io/monocle-release (no license), cellphonedb.org (no license)

Status: code verified, 13 files readable, 2 matches

[34328] doi:10.1038/s41586-023-06492-9 [paper, repository]

Dopamine and glutamate regulate striatal acetylcholine in decision-making.

Journal: Nature

Authors' code: HMS-RIC/TwoArmedBandit (no license), bernardosabatinilab/chantranupong-2023-nwb (no license)

Status: code verified, 23 files readable, 6 matches

[34329] doi:10.1038/s41598-023-39108-3 [paper, repository]

Long- and short-term history effects in a spiking network model of statistical learning.

Journal: Scientific reports

Authors' code: modeldb:267144 (no license)

Status: code found, still to be checked

[34330] doi:10.1038/s41598-023-39903-y [paper]

Intrathecal [⁶⁴Cu]Cu-albumin PET reveals age-related decline of lymphatic drainage of cerebrospinal fluid.

Journal: Scientific reports

Status: code on request

[34331] doi:10.1038/s41598-023-40051-6 [paper, data]

Low-dose radiation induces unstable gene expression in developing human iPSC-derived retinal ganglion organoids.

Journal: Scientific reports

Status: data only, 1 dataset cited

[34332] doi:10.1098/rsif.2023.0223 [paper, repository]

Sheet and void porous media models for brain interstitial space.

Journal: Journal of the Royal Society, Interface

Authors' code: doi:10.6084/m9.figshare.c.6760135 (no license)

Status: code found, still to be checked

[34333] doi:10.1098/rsos.230380 [paper, repository]

The role of awareness in shaping responses in human visual cortex.

Journal: Royal Society open science

Authors' code: OSF 2rgsm (no license), OSF u9tvp (no license)

Status: code verified, 95 files readable, 5 matches

[34334] doi:10.1126/sciadv.adf5672 [paper, repository]

Brain rhythms control microglial response and cytokine expression via NF-κB signaling.

Journal: Science advances

Authors' code: Zenodo 8121569 (other-open), singerlabgt/PrichardGarza_ScienceAdvances (no license), JaegerLab/VisualFlickerVoltageImaging (BSD-3-Clause)

Status: code verified, 55 files readable, 12 matches

[34335] doi:10.1186/s13293-023-00536-5 [paper, data]

Sex differences in metabolic phenotype and hypothalamic inflammation in the 3xTg-AD mouse model of Alzheimer's disease.

Journal: Biology of sex differences

Status: data only, 1 dataset cited

[34336] doi:10.1186/s40478-023-01618-6 [paper, repository]

The specific DNA methylation landscape in focal cortical dysplasia ILAE type 3D.

Journal: Acta neuropathologica communications

Authors' code: bionetslab/fcd3-methylation-landscape (GPL-3.0)

Status: code verified, 3 files readable, 1 match

[34337] doi:10.1242/dev.201432 [paper, repository]

Characterization of an eye field-like state during optic vesicle organoid development.

Journal: Development (Cambridge, England)

Authors' code: aertslab/mucistarget (no license), andrewpapa/optic_vesicle_eye_field_analysis (no license)

Status: code verified, 25 files readable, 20 matches

[34338] doi:10.1371/journal.pcbi.1011290 [paper, repository]

Investigating the ability of astrocytes to drive neural network synchrony.

Journal: PLoS computational biology

Authors' code: Zenodo 8070653 (other-open), gregoryhandy/neuronal_network_with_astrocyte_ensheathment (BSD-2-Clause)

Status: code verified, 29 files readable, 9 matches

[34339] doi:10.1371/journal.pcbi.1011327 [paper, repository]

Redundant representations are required to disambiguate simultaneously presented complex stimuli.

Journal: PLoS computational biology

Authors' code: wj2/assignment-problem (no license)

Status: code verified, 29 files readable, 1 match

[34340] doi:10.1371/journal.pone.0286523 [paper, data]

Small molecule inhibitor of tau self-association in a mouse model of tauopathy: A preventive study in P301L tau JNPL3 mice.

Journal: PloS one

Status: data only, 1 dataset cited

[34341] doi:10.1523/eneuro.0204-23.2023 [paper]

Genetically Defined Subtypes of Somatostatin-Containing Cortical Interneurons.

Journal: eNeuro

Status: code on request

[34342] doi:10.2147/ijgm.s408725 [paper, repository]

Using Radiomics and Convolutional Neural Networks for the Prediction of Hematoma Expansion After Intracerebral Hemorrhage.

Journal: International journal of general medicine

Authors' code: zy20030535/CNN-prediction-HE (no license)

Status: code verified, 5 files readable, 3 matches

[34343] doi:10.3389/fncom.2023.1223258 [paper, repository]

Excitatory/inhibitory balance emerges as a key factor for RBN performance, overriding attractor dynamics.

Journal: Frontiers in computational neuroscience

Authors' code: Zenodo 8121795 (other-open), manuneuro/binary_model (no license)

Status: code verified, 15 files readable, 4 matches

[34344] doi:10.3390/bioengineering10080950 [paper, data]

An Approach to Binary Classification of Alzheimer's Disease Using LSTM.

Journal: Bioengineering (Basel, Switzerland)

Status: data only, 1 dataset cited

[34345] doi:10.3390/s23167037 [paper, repository]

A Modified Aquila-Based Optimized XGBoost Framework for Detecting Probable Seizure Status in Neonates.

Journal: Sensors (Basel, Switzerland)

Authors' code: MIrazul29/NSD_MAO-XGB (no license)

Status: code verified, 12 files readable, 5 matches

[34346] doi:10.7554/elife.83451 [paper, data]

TPL2 kinase activity regulates microglial inflammatory responses and promotes neurodegeneration in tauopathy mice.

Journal: eLife

Status: data only, 1 dataset cited

[34347] doi:10.7554/elife.86183 [paper, repository]

An open-source platform for head-fixed operant and consummatory behavior.

Journal: eLife

Authors' code: agordonfennell/OHRBETS (no license), Zenodo 8015631 (CC-BY-4.0)

Status: code verified, 9 files readable, 3 matches

Tuesday, 8 August 2023 (26 papers)

[34348] doi:10.1002/acm2.14120 [paper, repository]

Contrast-enhanced MRI synthesis using dense-dilated residual convolutions based 3D network toward elimination of gadolinium in neuro-oncology.

Journal: Journal of applied clinical medical physics

Authors' code: afiosman/dense-dilated-residual-convolutions-for-contrast-enhanced-MRI-synthesis (no license)

Status: code verified, 2 files readable, 3 matches

[34349] doi:10.1007/s10548-023-00991-8 [paper]

Single-trial ERP Quantification Using Neural Networks.

Journal: Brain topography

Status: code on request

[34350] doi:10.1016/j.celrep.2023.112946 [paper]

Entry receptor LDLRAD3 is required for Venezuelan equine encephalitis virus peripheral infection and neurotropism leading to pathogenesis in mice.

Journal: Cell reports

Status: code on request

[34351] doi:10.1016/j.celrep.2023.112956 [paper, repository]

Rescue of Alzheimer's disease phenotype in a mouse model by transplantation of wild-type hematopoietic stem and progenitor cells.

Journal: Cell reports

Authors' code: sahoo00/BoNE (GPL-3.0), sahoo00/Hegemon (GPL-3.0)

Status: code verified, 60 files readable, 3 matches

[34352] doi:10.1016/j.heliyon.2023.e18943 [paper]

Personalized repetitive transcranial magnetic stimulation (prtms®) for post-traumatic stress disorder (ptsd) in military combat veterans.

Journal: Heliyon

Status: code verified

[34353] doi:10.1016/j.nbd.2023.106257 [paper, data]

Role of TET1-mediated epigenetic modulation in Alzheimer's disease.

Journal: Neurobiology of disease

Status: data only, 1 dataset cited

[34354] doi:10.1016/j.zemedi.2023.07.003 [paper, repository]

Comparison of different neurite density metrics with brain asymmetry evaluation.

Journal: Zeitschrift fur medizinische Physik

Authors' code: ekaden/smt (BSD-2-Clause)

Status: code verified, 41 files readable

[34355] doi:10.1038/s41467-023-40322-w [paper, repository]

spinDrop: a droplet microfluidic platform to maximise single-cell sequencing information content.

Journal: Nature communications

Authors' code: droplet-lab/spinDrop (MIT), Zenodo 8076340 (other-open)

Status: code verified, 15 files readable, 9 matches

[34356] doi:10.1038/s41467-023-40436-1 [paper, repository]

A mosaic adeno-associated virus vector as a versatile tool that exhibits high levels of transgene expression and neuron specificity in primate brain.

Journal: Nature communications

Authors' code: Zenodo 8137537 (CC-BY-4.0)

Status: code verified, 1 file readable

[34357] doi:10.1038/s41467-023-40437-0 [paper, repository]

Mechanisms underlying pathological cortical bursts during metabolic depletion.

Journal: Nature communications

Authors' code: Zenodo 8013692 (other-open), brain-modelling-group/neuro-metabolic-model (GPL-3.0)

Status: code verified, 12 files readable, 3 matches

[34358] doi:10.1038/s41467-023-40444-1 [paper, repository]

Stimulus edges induce orientation tuning in superior colliculus.

Journal: Nature communications

Authors' code: JiLabUCBerkeley/SCimaging (no license)

Status: code verified, 79 files readable, 5 matches

[34359] doi:10.1038/s41467-023-40487-4 [paper, data]

SNIP1 and PRC2 coordinate cell fates of neural progenitors during brain development.

Journal: Nature communications

Status: data only, 1 dataset cited

[34360] doi:10.1038/s41597-023-02416-4 [paper, repository]

MedalCare-XL: 16,900 healthy and pathological synthetic 12 lead ECGs from electrophysiological simulations.

Journal: Scientific data

Authors' code: Zenodo 8068944 (CC-BY-4.0), Zenodo 4309957 (CC-BY-4.0), Zenodo 7217554 (other-open), Zenodo 7293625 (Apache-2.0), kit-ibt/fim_eikonal (MIT), kit-ibt/ecg-synthesization (Apache-2.0)

Status: code verified, 136 files readable, 7 matches

[34361] doi:10.1038/s41598-023-39984-9 [paper]

Automated analysis of a large-scale paediatric dataset illustrates the interdependent relationship between epilepsy and sleep.

Journal: Scientific reports

Status: code on request

[34362] doi:10.1186/s12967-023-04382-2 [paper, data]

COVPRIG robustly predicts the overall survival of IDH wild-type glioblastoma and highlights METTL1⁺ neural-progenitor-like tumor cell in driving unfavorable outcome.

Journal: Journal of translational medicine

Status: data only, 1 dataset cited

[34363] doi:10.1186/s13063-023-07521-8 [paper]

Can dexamethasone improve postoperative sleep and postoperative delirium in elderly patients undergoing robot-assisted laparoscopic radical prostatectomy? Protocol for a prospective, randomized, double-blind, controlled study.

Journal: Trials

Status: code on request

[34364] doi:10.1186/s13287-023-03409-1 [paper, data]

Neural stem cell-derived exosomes and regeneration: cell-free therapeutic strategies for traumatic brain injury.

Journal: Stem cell research & therapy

Status: data only, 2 datasets cited

[34365] doi:10.1212/nxg.0000000000200092 [paper, repository]

Genome-wide Analysis of Motor Progression in Parkinson Disease.

Journal: Neurology. Genetics

Authors' code: Zenodo 7258985 (other-open), RajLabMSSM/echolocatoR (no license), AMCalejandro/EMPD (MIT)

Status: code verified, 144 files readable, 10 matches

[34366] doi:10.1371/journal.pcbi.1011349 [paper, repository]

Spatial organisation of the mesoscale connectome: A feature influencing synchrony and metastability of network dynamics.

Journal: PLoS computational biology

Authors' code: supp:PMC10437862/pcbi.1011349.s006.zip (no license)

Status: code verified, 16 files readable, 2 matches

[34367] doi:10.26508/lsa.202302142 [paper, repository]

De novo network analysis reveals autism causal genes and developmental links to co-occurring traits.

Journal: Life science alliance

Authors' code: Genome3d/codes3d (MIT), Catriona-Miller/Autism_Co-occurring_Traits (no license)

Status: code verified, 50 files readable, 6 matches

[34368] doi:10.3389/fneur.2023.1185447 [paper, data]

Interpretable machine learning for predicting 28-day all-cause in-hospital mortality for hypertensive ischemic or hemorrhagic stroke patients in the ICU: a multi-center retrospective cohort study with internal and external cross-validation.

Journal: Frontiers in neurology

Status: data only, 1 dataset cited

[34369] doi:10.3390/cancers15164015 [paper, repository]

Deciphering Machine Learning Decisions to Distinguish between Posterior Fossa Tumor Types Using MRI Features: What Do the Data Tell Us?

Journal: Cancers

Authors' code: toygarr/save-the-kid (MIT)

Status: code verified, 4 files readable, 6 matches

[34370] doi:10.3390/healthcare11162231 [paper]

Convolutional Neural Networks to Assess Steno-Occlusive Disease Using Cerebrovascular Reactivity.

Journal: Healthcare (Basel, Switzerland)

Status: code on request

[34371] doi:10.3390/ijms241612550 [paper, data]

Extracellular Vesicles in Young Serum Contribute to the Restoration of Age-Related Brain Transcriptomes and Cognition in Old Mice.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[34372] doi:10.3758/s13428-023-02094-5 [paper, repository]

Orthography-phonology consistency in English: Theory- and data-driven measures and their impact on auditory vs. visual word recognition.

Journal: Behavior research methods

Authors' code: OSF wdzqc (no license), alfred-lim/BiPDP (GPL-3.0)

Status: code verified, 14 files readable, 1 match

[34373] doi:10.7554/elife.83328 [paper, data]

Synchronous multi-segmental activity between metachronal waves controls locomotion speed in <i>Drosophila</i> larvae.

Journal: eLife

Status: data only, 1 dataset cited

Monday, 7 August 2023 (35 papers)

[34374] doi:10.1002/brb3.3180 [paper]

DHT inhibits REDOX damage and neuroinflammation to reduce PND occurrence in aged mice via mmu_circ_0001442/miR-125a-3p/NUFIP2 axis.

Journal: Brain and behavior

Status: data only

[34375] doi:10.1002/brb3.3211 [paper, repository]

No reduction in motor-evoked potential amplitude during the rubber hand illusion.

Journal: Brain and behavior

Authors' code: TheHandLab/HandLabToolBox (no license)

Status: code verified, 89 files readable

[34376] doi:10.1002/hbm.26440 [paper, repository]

Improved dynamic distortion correction for fMRI using single-echo EPI and a readout-reversed first image (REFILL).

Journal: Human brain mapping

Authors' code: korbinian90/ASPIRE (no license)

Status: code verified, 124 files readable

[34377] doi:10.1007/s00401-023-02616-7 [paper, data]

Inflammation and the pathological progression of Alzheimer's disease are associated with low circulating choline levels.

Journal: Acta neuropathologica

Status: data only, 3 datasets cited

[34378] doi:10.1007/s10802-023-01106-4 [paper, repository]

Developmental Trajectories of Internalizing and Externalizing Symptoms in Youth and Associated Gender Differences: A Directed Network Perspective.

Journal: Research on child and adolescent psychopathology

Authors' code: OSF fcuhm (no license)

Status: code verified, 1 file readable

[34379] doi:10.1016/j.isci.2023.107545 [paper]

<i>In vivo</i> spontaneous activity and coital-evoked inhibition of mouse accessory olfactory bulb output neurons.

Journal: iScience

Status: code on request

[34380] doi:10.1016/j.isci.2023.107553 [paper]

Involvement of neuronal tachykinin-like receptor at 86C in <i>Drosophila</i> disc repair via regulation of kynurenine metabolism.

Journal: iScience

Status: code on request

[34381] doi:10.1016/j.isci.2023.107560 [paper, data]

P2X7 purinergic receptor modulates dentate gyrus excitatory neurotransmission and alleviates schizophrenia-like symptoms in mouse.

Journal: iScience

Status: code on request, 1 dataset cited

[34382] doi:10.1016/j.isci.2023.107562 [paper, repository]

Scaling up cell-counting efforts in neuroscience through semi-automated methods.

Journal: iScience

Authors' code: qupath.github.io (no license), Zenodo 8082124 (CC-BY-4.0)

Status: code verified

[34383] doi:10.1016/j.isci.2023.107566 [paper]

Stress-mediated dysregulation of the Rap1 small GTPase impairs hippocampal structure and function.

Journal: iScience

Status: code on request

[34384] doi:10.1016/j.neuroimage.2023.120314 [paper, data]

Specialized late cingulo-opercular network activation elucidates the mechanisms underlying decisions about ambiguity.

Journal: NeuroImage

Status: data only, 1 dataset cited

[34385] doi:10.1016/j.xcrm.2023.101148 [paper, repository]

Seq-ing the SINEs of central nervous system tumors in cerebrospinal fluid.

Journal: Cell reports. Medicine

Authors' code: Zenodo 3656943 (CC-BY-4.0)

Status: code verified

[34386] doi:10.1021/acsanm.3c02719 [paper, data]

Quantum Dot Biomimetic for SARS-CoV-2 to Interrogate Blood-Brain Barrier Damage Relevant to NeuroCOVID Brain Inflammation.

Journal: ACS applied nano materials

Status: data only, 1 dataset cited

[34387] doi:10.1038/s41439-023-00250-z [paper, data]

Biallelic KCTD3 nonsense variant derived from paternal uniparental isodisomy of chromosome 1 in a patient with developmental epileptic encephalopathy and distinctive features.

Journal: Human genome variation

Status: data only, 1 dataset cited

[34388] doi:10.1038/s41467-023-40056-9 [paper, repository]

Brain criticality predicts individual levels of inter-areal synchronization in human electrophysiological data.

Journal: Nature communications

Authors' code: palvalab/DFA_Synch (no license)

Status: code verified, 6 files readable, 4 matches

[34389] doi:10.1038/s41467-023-40141-z [paper, repository]

Experimental validation of the free-energy principle with in vitro neural networks.

Journal: Nature communications

Authors' code: takuyaisomura/reverse_engineering (GPL-3.0), Zenodo 8139515 (other-open)

Status: code verified, 73 files readable, 5 matches

[34390] doi:10.1038/s41467-023-40405-8 [paper, repository]

Pinging the brain to reveal the hidden attentional priority map using encephalography.

Journal: Nature communications

Authors' code: OSF v7yhc (no license)

Status: code verified, 3 files readable, 5 matches

[34391] doi:10.1038/s41467-023-40440-5 [paper]

Backbone spiking sequence as a basis for preplay, replay, and default states in human cortex.

Journal: Nature communications

Status: code on request

[34392] doi:10.1038/s41591-023-02476-4 [paper, data]

Cerebrospinal fluid proteomics define the natural history of autosomal dominant Alzheimer's disease.

Journal: Nature medicine

Status: code on request, 1 dataset cited

[34393] doi:10.1073/pnas.2221601120 [paper, data]

Growth deregulation and interaction with host hemocytes contribute to tumor progression in a Drosophila brain tumor model.

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

Status: data only, 2 datasets cited

[34394] doi:10.1073/pnas.2303318120 [paper, data]

Cell assembly analysis of neural circuits for innate behavior in <i>Drosophila melanogaster</i> using an immediate early gene <i>stripe</i>/<i>egr-1</i>.

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

Status: data only, 1 dataset cited

[34395] doi:10.1073/pnas.2303491120 [paper, repository]

Human white matter myelinates faster in utero than ex utero.

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

Authors' code: EduNeuroLab/wmDevIuEu (no license)

Status: code verified, 4 files readable, 7 matches

[34396] doi:10.1073/pnas.2303809120 [paper, data]

Astrocyte-targeting therapy rescues cognitive impairment caused by neuroinflammation via the Nrf2 pathway.

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

Status: data only, 1 dataset cited

[34397] doi:10.1098/rstb.2022.0333 [paper, data]

Self-motion perception and sequential decision-making: where are we heading?

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

Status: data only, 1 dataset cited

[34398] doi:10.1098/rstb.2022.0346 [paper, repository]

The role of conflict processing in multisensory perception: behavioural and electroencephalography evidence.

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

Authors' code: OSF 6yrwq (no license), doi:10.6084/m9.figshare.c.6742247 (no license)

Status: code verified, 6 files readable, 3 matches

[34399] doi:10.1098/rstb.2022.0347 [paper, data]

Metacognitive awareness in the sound-induced flash illusion.

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

Status: data only, 1 dataset cited

[34400] doi:10.1109/jbhi.2023.3281332 [paper, repository]

3D Domain Adaptive Instance Segmentation via Cyclic Segmentation GANs.

Journal: IEEE journal of biomedical and health informatics

Authors' code: connectomics-bazaar.github.io/proj (no license)

Status: code verified

[34401] doi:10.1186/s12929-023-00954-y [paper, data]

Brain alarm by self-extracellular nucleic acids: from neuroinflammation to neurodegeneration.

Journal: Journal of biomedical science

Status: data only, 4 datasets cited

[34402] doi:10.1186/s13024-023-00639-y [paper, data]

Valosin containing protein (VCP): initiator, modifier, and potential drug target for neurodegenerative diseases.

Journal: Molecular neurodegeneration

Status: data only, 1 dataset cited

[34403] doi:10.1371/journal.pcbi.1011315 [paper, repository]

Geometry of population activity in spiking networks with low-rank structure.

Journal: PLoS computational biology

Authors' code: LjubicaCimesa/Spiking-low-rank-networks (no license)

Status: code verified, 36 files readable

[34404] doi:10.1371/journal.pcbi.1011362 [paper, repository]

Synaptic weights that correlate with presynaptic selectivity increase decoding performance.

Journal: PLoS computational biology

Authors' code: juliavg/decoding (MIT)

Status: code verified, 15 files readable

[34405] doi:10.26508/lsa.202302227 [paper, repository]

Generating fast-twitch myotubes in vitro with an optogenetic-based, quantitative contractility assay.

Journal: Life science alliance

Authors' code: dhardma2/myochip (GPL-3.0)

Status: code verified, 19 files readable, 7 matches

[34406] doi:10.3389/fnins.2023.1230404 [paper, data]

The emerging role of copper in depression.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[34407] doi:10.3390/brainsci13081173 [paper, data]

Visual Dysfunction in Parkinson's Disease.

Journal: Brain sciences

Status: data only, 1 dataset cited

[34408] doi:10.3390/healthcare11152226 [paper, data]

Clinical Efficiency and Acceptability of EMDR and MOSAIC Therapy for PTSD.

Journal: Healthcare (Basel, Switzerland)

Status: data only, 1 dataset cited

Sunday, 6 August 2023 (4 papers)

[34409] doi:10.1002/acn3.51866 [paper]

Automated detection of immune effector cell-associated neurotoxicity syndrome via quantitative EEG.

Journal: Annals of clinical and translational neurology

Status: code on request

[34410] doi:10.1016/j.celrep.2023.112943 [paper]

Autophagy collaborates with apoptosis pathways to control oligodendrocyte number.

Journal: Cell reports

Status: code on request

[34411] doi:10.1111/tra.12913 [paper, data]

Statistical modeling of mRNP transport in dendrites: A comparative analysis of β-actin and Arc mRNP dynamics.

Journal: Traffic (Copenhagen, Denmark)

Status: data only, 5 datasets cited

[34412] doi:10.3390/metabo13080920 [paper, data]

Metabolic Covariance Connectivity of Posterior Cingulate Cortex Associated with Depression Symptomatology Level in Healthy Young Adults.

Journal: Metabolites

Status: data only, 2 datasets cited

Saturday, 5 August 2023 (14 papers)

[34413] doi:10.1016/j.celrep.2023.112948 [paper, repository]

Dopamine release at the time of a predicted aversive outcome causally controls the trajectory and expression of conditioned behavior.

Journal: Cell reports

Authors' code: kutlugunes (no license), Zenodo 6635659 (other-open), kutlugunes/fp_functions (no license)

Status: code verified, 20 files readable, 1 match

[34414] doi:10.1016/j.ebiom.2023.104749 [paper, data]

Sex and cell-specific gene expression in corticolimbic brain regions associated with psychiatric disorders revealed by bulk and single-nuclei RNA sequencing.

Journal: EBioMedicine

Status: data only, 1 dataset cited

[34415] doi:10.1016/j.ijchp.2023.100401 [paper, repository]

Childhood trauma is linked to abnormal static-dynamic brain topology in adolescents with major depressive disorder.

Journal: International journal of clinical and health psychology : IJCHP

Authors' code: Yicheng-Long/dynamic_graph_metrics (no license)

Status: code verified, 4 files readable, 2 matches

[34416] doi:10.1016/j.isci.2023.107385 [paper]

Ventral pallidal glutamatergic neurons regulate wakefulness and emotion through separated projections.

Journal: iScience

Status: code on request

[34417] doi:10.1016/j.neuroimage.2023.120310 [paper, repository]

A primer on Variational Laplace (VL).

Journal: NeuroImage

Authors' code: pzeidman/vl-tutorial (GPL-3.0), fil.ion.ucl.ac.uk/spm/data (no license)

Status: code verified, 12 files readable, 6 matches

[34418] doi:10.1038/s41467-023-40250-9 [paper, repository]

Modulatory dynamics of periodic and aperiodic activity in respiration-brain coupling.

Journal: Nature communications

Authors' code: OSF 8nw9t (no license)

Status: code verified, 4 files readable, 4 matches

[34419] doi:10.1038/s41467-023-40419-2 [paper, repository]

Neurexin-3 subsynaptic densities are spatially distinct from Neurexin-1 and essential for excitatory synapse nanoscale organization in the hippocampus.

Journal: Nature communications

Authors' code: Han-y/Synapse-Model-for-Aoto-Lab (no license), Brian3342/Aoto_Lloyd_2023 (no license)

Status: code verified, 14 files readable, 7 matches

[34420] doi:10.1038/s41467-023-40443-2 [paper, repository]

Neural manifolds for odor-driven innate and acquired appetitive preferences.

Journal: Nature communications

Authors' code: figshare 22656154 (CC-BY-4.0)

Status: code verified, 37 files readable, 3 matches

[34421] doi:10.1038/s41467-023-40445-0 [paper, repository]

Bilateral human laryngeal motor cortex in perceptual decision of lexical tone and voicing of consonant.

Journal: Nature communications

Authors' code: Zenodo 8075062 (CC-BY-4.0)

Status: code verified, 85 files readable, 2 matches

[34422] doi:10.1038/s41467-023-40446-z [paper, repository]

Self-supervised learning with application for infant cerebellum segmentation and analysis.

Journal: Nature communications

Authors' code: DBC-Lab/Self_Supervised_Learning (other), Zenodo 8050825 (other-open)

Status: code verified, 5 files readable

[34423] doi:10.1038/s41467-023-40450-3 [paper, repository]

A common neuronal ensemble in nucleus accumbens regulates pain-like behaviour and sleep.

Journal: Nature communications

Authors' code: brain-state-analysis/-Sun-2023_Nature-Communications (no license)

Status: code verified, 1 file readable

[34424] doi:10.1038/s41597-023-02426-2 [paper, repository]

Gene expression genetics of the striatum of Diversity Outbred mice.

Journal: Scientific data

Authors' code: thejacksonlaboratory/csna (no license)

Status: code verified, 194 files readable, 3 matches

[34425] doi:10.21769/bioprotoc.4734 [paper, repository]

Using Fiber Photometry in Mice to Estimate Fluorescent Biosensor Levels During Sleep.

Journal: Bio-protocol

Authors' code: MieAndersen/Bio-Protocol_FibPho_NE (no license)

Status: code verified, 4 files readable

[34426] doi:10.7759/cureus.42985 [paper, repository]

Non-targeted Metabolomics Analysis Reveals Distinct Metabolic Profiles Between Positive and Negative Emotional Tears of Humans: A Preliminary Study.

Journal: Cureus

Authors' code: hao203/tears (no license)

Status: empty repository, 1 file readable

Friday, 4 August 2023 (18 papers)

[34427] doi:10.1002/hbm.26425 [paper, repository]

A practical model-based segmentation approach for improved activation detection in single-subject functional magnetic resonance imaging studies.

Journal: Human brain mapping

Authors' code: snoweye/MixfMRI (MPL-2.0), cran.r-project.org/package=mixfmri (no license)

Status: code verified, 150 files readable

[34428] doi:10.1002/hbm.26445 [paper, data]

The need for hemispheric separation in pairwise structural disconnection studies.

Journal: Human brain mapping

Status: data only, 2 datasets cited

[34429] doi:10.1016/j.tranon.2023.101739 [paper, data]

Identification of LOX as a candidate prognostic biomarker in Glioblastoma multiforme.

Journal: Translational oncology

Status: data only, 1 dataset cited

[34430] doi:10.1038/s41467-023-39750-5 [paper, repository]

A single-cell transcriptional landscape of immune cells shows disease-specific changes of T cell and macrophage populations in human achalasia.

Journal: Nature communications

Authors' code: saeyslab/nichenetr (no license)

Status: code verified, 61 files readable, 2 matches

[34431] doi:10.1038/s41598-023-39799-8 [paper, repository]

Machine-learning for the prediction of one-year seizure recurrence based on routine electroencephalography.

Journal: Scientific reports

Authors' code: chum-epilepsy/epilepsy_markers_reeg (MIT)

Status: code verified, 13 files readable, 10 matches

[34432] doi:10.1038/s42003-023-05181-7 [paper, repository]

3D cell segregation geometry and dynamics are governed by tissue surface tension regulation.

Journal: Communications biology

Authors' code: gulyasmarton/ContractilityAnalyzer (MIT)

Status: code verified, 11 files readable, 1 match

[34433] doi:10.1111/ejn.16109 [paper]

Expression pattern of nicotinic acetylcholine receptor subunit transcripts in neurons and astrocytes in the ventral tegmental area and locus coeruleus.

Journal: The European journal of neuroscience

Status: code on request

[34434] doi:10.1186/s12916-023-02920-9 [paper, data]

Neurodevelopmental risk and adaptation as a model for comorbidity among internalizing and externalizing disorders: genomics and cell-specific expression enriched morphometric study.

Journal: BMC medicine

Status: data only, 8 datasets cited

[34435] doi:10.1186/s12951-023-02006-x [paper, data]

Anti-glioma effect of ginseng-derived exosomes-like nanoparticles by active blood-brain-barrier penetration and tumor microenvironment modulation.

Journal: Journal of nanobiotechnology

Status: data only, 2 datasets cited

[34436] doi:10.1186/s40708-023-00199-3 [paper, data]

Brain-computer interface: trend, challenges, and threats.

Journal: Brain informatics

Status: data only, 2 datasets cited

[34437] doi:10.1371/journal.pbio.3001852 [paper, repository]

FOXP1 orchestrates neurogenesis in human cortical basal radial glial cells.

Journal: PLoS biology

Authors' code: konopkalab/organoidseq (no license)

Status: empty repository, 1 file readable

[34438] doi:10.1371/journal.pcbi.1011343 [paper, repository]

Species-specific wiring of cortical circuits for small-world networks in the primary visual cortex.

Journal: PLoS computational biology

Authors' code: vsnnlab/LRC_Smallworld (no license), Zenodo 7874690 (CC-BY-4.0)

Status: code verified, 56 files readable, 4 matches

[34439] doi:10.1371/journal.pone.0289220 [paper, data]

Socioeconomic and demographic risk factors of autism spectrum disorder among children and adolescents in Bangladesh: Evidence from a cross-sectional study in 2022.

Journal: PloS one

Status: data only, 1 dataset cited

[34440] doi:10.1371/journal.pone.0289688 [paper, data]

The interaction of ammonia and manganese in abnormal metabolism of minimal hepatic encephalopathy: A comparison metabolomics study.

Journal: PloS one

Status: data only, 1 dataset cited

[34441] doi:10.17179/excli2023-6135 [paper, repository]

Exploring cognitive individuality and the underlying creativity in statistical learning and phase entrainment.

Journal: EXCLI journal

Authors' code: OSF zjwxe (no license)

Status: code verified, 15 files readable

[34442] doi:10.3389/fnins.2023.1196805 [paper, repository]

Glutamatergic neurometabolite levels in the caudate are associated with the ability of rhythm production.

Journal: Frontiers in neuroscience

Authors' code: CIC-methods/FID-A (BSD-3-Clause)

Status: code verified, 352 files readable, 4 matches

[34443] doi:10.3389/fnins.2023.1226181 [paper, data]

TUBB3 and KIF21A in neurodevelopment and disease.

Journal: Frontiers in neuroscience

Status: data only, 2 datasets cited

[34444] doi:10.3390/brainsci13081164 [paper]

Sex Difference in Cigarette-Smoking Status and Its Association with Brain Volumes Using Large-Scale Community-Representative Data.

Journal: Brain sciences

Status: code on request

Thursday, 3 August 2023 (23 papers)

[34445] doi:10.1007/s00422-023-00969-6 [paper]

Periodic solutions in next generation neural field models.

Journal: Biological cybernetics

Status: code on request

[34446] doi:10.1016/j.isci.2023.107521 [paper]

Prefrontal cortex encodes value pop-out in visual search.

Journal: iScience

Status: code on request

[34447] doi:10.1016/j.isci.2023.107532 [paper, data]

Task-specific oscillatory synchronization of prefrontal cortex, nucleus reuniens, and hippocampus during working memory.

Journal: iScience

Status: code on request, 1 dataset cited

[34448] doi:10.1021/acsnano.3c05309 [paper]

Observing Extracellular Vesicles Originating from Endothelial Cells <i>in Vivo</i> Demonstrates Improved Astrocyte Function Following Ischemic Stroke via Aggregation-Induced Emission Luminogens.

Journal: ACS nano

Status: data only

[34449] doi:10.1038/s41419-023-05980-0 [paper]

Mitochondria dysregulation contributes to secondary neurodegeneration progression post-contusion injury in human 3D in vitro triculture brain tissue model.

Journal: Cell death & disease

Status: data only

[34450] doi:10.1038/s41467-023-40380-0 [paper, repository]

A neural-mechanistic hybrid approach improving the predictive power of genome-scale metabolic models.

Journal: Nature communications

Authors' code: brsynth/amn_release (MIT), Zenodo 8056442 (MIT)

Status: code verified, 19 files readable, 10 matches

[34451] doi:10.1038/s41467-023-40411-w [paper, data]

Droplet-based bisulfite sequencing for high-throughput profiling of single-cell DNA methylomes.

Journal: Nature communications

Status: data only, 1 dataset cited

[34452] doi:10.1038/s41556-023-01195-9 [paper, data]

An intestinal sphingolipid confers intergenerational neuroprotection.

Journal: Nature cell biology

Status: data only, 1 dataset cited

[34453] doi:10.1038/s41593-023-01401-9 [paper, repository]

Unique functional responses differentially map onto genetic subtypes of dopamine neurons.

Journal: Nature neuroscience

Authors' code: Zenodo 7900531 (other-open), DombeckLab/Azcorra2023 (no license)

Status: code verified, 52 files readable, 25 matches

[34454] doi:10.1038/s41597-023-02392-9 [paper, repository]

NeuMa - the absolute Neuromarketing dataset en route to an holistic understanding of consumer behaviour.

Journal: Scientific data

Authors' code: xdf-modules (no license), neuromkt/neuma_dataset_processing (no license)

Status: code verified, 362 files readable, 7 matches

[34455] doi:10.1038/s41598-023-39500-z [paper, data]

Neuronal correlates of eyeblinks are an expression of primary consciousness phenomena.

Journal: Scientific reports

Status: data only, 1 dataset cited

[34456] doi:10.1186/s12935-023-03006-5 [paper, data]

Decoding the prognostic significance of integrator complex subunit 9 (INTS9) in glioma: links to TP53 mutations, E2F signaling, and inflammatory microenvironments.

Journal: Cancer cell international

Status: data only, 1 dataset cited

[34457] doi:10.1186/s13023-023-02756-9 [paper]

Intrathecal magnesium delivery for Mg++-insensitive NMDA receptor activity due to GRIN1 mutation.

Journal: Orphanet journal of rare diseases

Status: code on request

[34458] doi:10.1186/s13072-023-00505-7 [paper, data]

Promoter hypermethylation of neural-related genes is compatible with stemness in solid cancers.

Journal: Epigenetics & chromatin

Status: data only, 2 datasets cited

[34459] doi:10.1186/s42466-023-00262-8 [paper, data]

Clinical characteristics of patients with suspected Alzheimer's disease within a CSF Aß-ratio grey zone.

Journal: Neurological research and practice

Status: data only, 1 dataset cited

[34460] doi:10.1371/journal.pbio.3002217 [paper, repository]

A previously unrecognized superfamily of macro-conotoxins includes an inhibitor of the sensory neuron calcium channel Cav2.3.

Journal: PLoS biology

Authors' code: leeleavitt/procPharm (other)

Status: code verified, 103 files readable

[34461] doi:10.1371/journal.pcbi.1011007 [paper, repository]

Modeling the role of the thalamus in resting-state functional connectivity: Nature or structure.

Journal: PLoS computational biology

Authors' code: jescab01/ThalamusInRSFC_2023 (no license)

Status: code verified, 30 files readable, 6 matches

[34462] doi:10.1371/journal.pone.0287252 [paper, data]

Effect of automaticity induced by treadmill walking on prefrontal cortex activation and dual-task performance in older adults.

Journal: PloS one

Status: data only, 1 dataset cited

[34463] doi:10.1523/eneuro.0071-23.2023 [paper, repository]

Estradiol Receptors Inhibit Long-Term Potentiation in the Dorsomedial Striatum.

Journal: eNeuro

Authors' code: neurord/ephys_anal (GPL-3.0)

Status: code verified, 46 files readable, 3 matches

[34464] doi:10.23736/s1973-9087.23.07908-x [paper, data]

The structure of the Early Rehabilitation Barthel Index (ERBI) should be modified: evidence from a Rasch analysis study.

Journal: European journal of physical and rehabilitation medicine

Status: data only, 1 dataset cited

[34465] doi:10.3390/s23156903 [paper, repository]

Zero-Shot Neural Decoding with Semi-Supervised Multi-View Embedding.

Journal: Sensors (Basel, Switzerland)

Authors' code: KamitaniLab/GenericObjectDecoding (MIT)

Status: code verified, 91 files readable

[34466] doi:10.3390/s23156930 [paper, data]

An Augmented Modulated Deep Learning Based Intelligent Predictive Model for Brain Tumor Detection Using GAN Ensemble.

Journal: Sensors (Basel, Switzerland)

Status: data only, 1 dataset cited

[34467] doi:10.7554/elife.86035 [paper, repository]

Atypical cognitive training-induced learning and brain plasticity and their relation to insistence on sameness in children with autism.

Journal: eLife

Authors' code: scsnl/jinliu_ASD_plasticity_2022 (no license), scsnl/JL_eLife_2023 (no license), OSF 5ywrt (no license)

Status: code verified, 35 files readable, 11 matches

Wednesday, 2 August 2023 (30 papers, 29 on this page)

[34468] doi:10.1007/s12035-023-03520-7 [paper, data]

Differential Expression of miRNAs in Amyotrophic Lateral Sclerosis Patients.

Journal: Molecular neurobiology

Status: data only, 5 datasets cited

[34469] doi:10.1016/j.isci.2023.107515 [paper, repository]

Biglycan regulated colorectal cancer progress by modulating enteric neuron-derived IL-10 and abundance of <i>Bacteroides thetaiotaomicron</i>.

Journal: iScience

Authors' code: DaehwanKimLab/hisat2 (GPL-3.0), picrust/picrust2 (GPL-3.0), Xingyinliu-Lab/BGN-project-related-codes (no license)

Status: code verified, 302 files readable, 4 matches

[34470] doi:10.1016/j.isci.2023.107518 [paper]

Functional odor map heterogeneity is based on multifaceted glomerular connectivity in larval <i>Xenopus</i> olfactory bulb.

Journal: iScience

Status: code on request

[34471] doi:10.1016/j.isci.2023.107522 [paper, repository]

Deep learning for risk-based stratification of cognitively impaired individuals.

Journal: iScience

Authors' code: Zenodo 8176269 (CC-BY-4.0), slundberg/shap (MIT), vkola-lab/iscience2023 (no license)

Status: code verified, 336 files readable, 27 matches

[34472] doi:10.1016/j.isci.2023.107524 [paper, repository]

EEG error-related potentials encode magnitude of errors and individual perceptual thresholds.

Journal: iScience

Authors' code: Zenodo 6415455 (CC-BY-4.0), alexandrebarachant/covariancetoolbox (GPL-3.0)

Status: code verified, 70 files readable

[34473] doi:10.1016/j.isci.2023.107525 [paper, repository]

Novel human pluripotent stem cell-derived hypothalamus organoids demonstrate cellular diversity.

Journal: iScience

Authors' code: powellgenomicslab/hypothalamus_organoid_scRNA (no license), theislab/scvelo (BSD-3-Clause)

Status: code verified, 106 files readable, 15 matches

[34474] doi:10.1016/j.isci.2023.107533 [paper, repository]

Human fetal dermal fibroblast-myeloid cell diversity is characterized by dominance of pro-healing Annexin1-FPR1 signaling.

Journal: iScience

Authors' code: RajneeshSrivastava/scRNA-skin-tissue-repair (no license)

Status: empty repository, 1 file readable

[34475] doi:10.1016/j.omtn.2023.07.036 [paper]

Long-term muscle-specific overexpression of DOK7 in mice using AAV9-tMCK-DOK7.

Journal: Molecular therapy. Nucleic acids

Status: code on request

[34476] doi:10.1038/s41398-023-02547-7 [paper, repository]

Transcranial random noise stimulation combined with cognitive training for treating ADHD: a randomized, sham-controlled clinical trial.

Journal: Translational psychiatry

Authors' code: sccn.ucsd.edu/eeglab (no license)

Status: code verified

[34477] doi:10.1038/s41467-023-40362-2 [paper, data]

Molecular pathway and structural mechanism of human oncochannel TRPV6 inhibition by the phytocannabinoid tetrahydrocannabivarin.

Journal: Nature communications

Status: data only, 2 datasets cited

[34478] doi:10.1038/s41586-023-06373-1 [paper, data]

cGAS-STING drives ageing-related inflammation and neurodegeneration.

Journal: Nature

Status: data only, 2 datasets cited

[34479] doi:10.1038/s41586-023-06405-w [paper, data]

TDP-43 forms amyloid filaments with a distinct fold in type A FTLD-TDP.

Journal: Nature

Status: data only, 9 datasets cited

[34480] doi:10.1038/s42003-023-05185-3 [paper]

Noninvasive disruption of the blood-brain barrier in the marmoset monkey.

Journal: Communications biology

Status: code on request

[34481] doi:10.1098/rsob.230063 [paper, repository]

Skewed distribution of spines is independent of presynaptic transmitter release and synaptic plasticity, and emerges early during adult neurogenesis.

Journal: Open biology

Authors' code: NinaRoessler/Lognormal-like-skewed-distribution-of-spine-sizes (MIT), doi:10.6084/m9.figshare.c.6742218 (no license)

Status: code verified, 7 files readable, 1 match

[34482] doi:10.1101/2023.07.31.551339 [paper, data]

Neural substrates of cold nociception in <i>Drosophila</i> larva

Journal: bioRxiv (preprint)

Status: data only, 1 dataset cited

[34483] doi:10.1126/sciadv.adg0666 [paper, repository]

Local autocrine plasticity signaling in single dendritic spines by insulin-like growth factors.

Journal: Science advances

Authors' code: ryoheiyasuda/FLIMage_public (no license)

Status: code verified, 174 files readable, 3 matches

[34484] doi:10.1126/sciadv.adg6034 [paper, repository]

Single-cell atlases of two lophotrochozoan larvae highlight their complex evolutionary histories.

Journal: Science advances

Authors' code: Zenodo 7515738 (cc-by-2.0)

Status: code verified

[34485] doi:10.1186/s12974-023-02859-x [paper, data]

Transcriptome alterations in peripheral blood B cells of patients with multiple sclerosis receiving immune reconstitution therapy.

Journal: Journal of neuroinflammation

Status: data only, 5 datasets cited

[34486] doi:10.1186/s12984-023-01223-7 [paper]

Intracortical and intercortical networks in patients after stroke: a concurrent TMS-EEG study.

Journal: Journal of neuroengineering and rehabilitation

Status: code on request

[34487] doi:10.1186/s13089-023-00331-8 [paper, repository]

Evaluation of commercially available point-of-care ultrasound for automated optic nerve sheath measurement.

Journal: The ultrasound journal

Authors' code: KitwareMedicalPublications/2023-Eval-POCUS-ONSD (Apache-2.0)

Status: code verified, 17 files readable, 6 matches

[34488] doi:10.1186/s40478-023-01624-8 [paper, data]

Human Alzheimer's disease reactive astrocytes exhibit a loss of homeostastic gene expression.

Journal: Acta neuropathologica communications

Status: data only, 2 datasets cited

[34489] doi:10.1371/journal.pcbi.1011280 [paper, repository]

Hybrid predictive coding: Inferring, fast and slow.

Journal: PLoS computational biology

Authors' code: alec-tschantz/pybrid (MIT)

Status: code verified, 20 files readable

[34490] doi:10.2196/46021 [paper, repository]

A Semantic Relatedness Model for the Automatic Cluster Analysis of Phonematic and Semantic Verbal Fluency Tasks Performed by People With Parkinson Disease: Prospective Multicenter Study.

Journal: JMIR neurotechnology

Authors' code: Zenodo 7429321 (CC-BY-4.0), t-haehnel/VFTModels (MIT)

Status: code verified, 7 files readable, 3 matches

[34491] doi:10.3389/fonc.2023.1158773 [paper, data]

MicroRNAs miR-16 and miR-519 control meningioma cell proliferation &lt;i&gt;via&lt;/i&gt; overlapping transcriptomic programs shared with the RNA-binding protein HuR.

Journal: Frontiers in oncology

Status: data only, 1 dataset cited

[34492] doi:10.3390/bioengineering10080918 [paper, repository]

SeizFt: Interpretable Machine Learning for Seizure Detection Using Wearables.

Journal: Bioengineering (Basel, Switzerland)

Authors' code: iah3/interpretable-seizure (MIT)

Status: empty repository, 2 files readable

[34493] doi:10.3390/brainsci13081156 [paper]

A Fast and Effective Spike Sorting Method Based on Multi-Frequency Composite Waveform Shapes.

Journal: Brain sciences

Status: code on request

[34494] doi:10.3390/ijms241512339 [paper, repository]

Literature-Based Discovery Predicts Antihistamines Are a Promising Repurposed Adjuvant Therapy for Parkinson's Disease.

Journal: International journal of molecular sciences

Authors' code: pathologydynamics/semnet-2 (no license)

Status: dead link

[34495] doi:10.3758/s13414-023-02763-9 [paper, repository]

Deviants violating higher-order auditory regularities can become predictive and facilitate behaviour.

Journal: Attention, perception & psychophysics

Authors' code: OSF 42cf3 (no license)

Status: empty repository

[34496] doi:10.7554/elife.82717 [paper, repository]

scRNA-sequencing in chick suggests a probabilistic model for cell fate allocation at the neural plate border.

Journal: eLife

Authors' code: alexthiery/10x_neural_plate_border (no license)

Status: code verified, 52 files readable, 23 matches

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