Every paper, by date: page 146

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 146 of 200: 2 November 2023 to 24 October 2023.

Thursday, 2 November 2023 (33 papers, 1 on this page)

[32481] doi:10.3758/s13414-023-02802-5 [paper]

Saccade execution increases the preview effect with faces: An EEG and eye-tracking coregistration study.

Journal: Attention, perception & psychophysics

Status: code on request

Wednesday, 1 November 2023 (83 papers)

[32482] doi:10.1002/hbm.26495 [paper, data]

Developmental dyscalculia is not associated with atypical brain activation: A univariate fMRI study of arithmetic, magnitude processing, and visuospatial working memory.

Journal: Human brain mapping

Status: data only, 2 datasets cited

[32483] doi:10.1002/hbm.26509 [paper, repository]

Bayesian longitudinal tensor response regression for modeling neuroplasticity.

Journal: Human brain mapping

Authors' code: aereinh/Bayesian-Tensor-Response-Regression (no license)

Status: code verified, 5 files readable, 5 matches

[32484] doi:10.1016/j.brs.2023.11.018 [paper, data]

Multi-scale model of axonal and dendritic polarization by transcranial direct current stimulation in realistic head geometry.

Journal: Brain stimulation

Status: data only, 2 datasets cited

[32485] doi:10.1016/j.cell.2023.09.028 [paper]

The proteomic landscape of synaptic diversity across brain regions and cell types.

Journal: Cell

Status: code on request

[32486] doi:10.1016/j.crmeth.2023.100644 [paper]

Third-generation rabies viral vectors allow nontoxic retrograde targeting of projection neurons with greatly increased efficiency.

Journal: Cell reports methods

Status: code on request

[32487] doi:10.1016/j.metrad.2023.100046 [paper, repository]

A comprehensive survey of complex brain network representation.

Journal: Meta-radiology

Authors' code: cwatson/brainGraph (GPL), sknetwork-team/scikit-network (BSD-3-Clause)

Status: code verified, 292 files readable, 6 matches

[32488] doi:10.1016/j.nbd.2023.106336 [paper, repository]

Investigating brain alterations in the Dp1Tyb mouse model of Down syndrome.

Journal: Neurobiology of disease

Authors' code: dama-lab/multi-atlas-segmentation (MIT), dama-lab/shape_morphological_analysis (no license)

Status: code verified, 142 files readable, 1 match

[32489] doi:10.1016/j.xcrm.2023.101297 [paper]

GRP78-CAR T cell effector function against solid and brain tumors is controlled by GRP78 expression on T cells.

Journal: Cell reports. Medicine

Status: code on request

[32490] doi:10.1038/s12276-023-01112-y [paper, data]

Ketohexokinase-dependent metabolism of cerebral endogenous fructose in microglia drives diabetes-associated cognitive dysfunction.

Journal: Experimental & molecular medicine

Status: data only, 1 dataset cited

[32491] doi:10.1038/s41386-023-01762-6 [paper, repository]

Comparable roles for serotonin in rats and humans for computations underlying flexible decision-making.

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

Authors' code: qluo2018/PRLmodeling (no license)

Status: code verified, 59 files readable, 2 matches

[32492] doi:10.1038/s41586-023-06678-1 [paper, repository]

Glioma synapses recruit mechanisms of adaptive plasticity.

Journal: Nature

Authors' code: jlaffy/scalop (MIT)

Status: code verified, 130 files readable, 4 matches

[32493] doi:10.1038/s41586-023-06680-7 [paper, repository]

Vagal sensory neurons mediate the Bezold-Jarisch reflex and induce syncope.

Journal: Nature

Authors' code: AugustineLab/Syncope (no license)

Status: code verified, 42 files readable, 19 matches

[32494] doi:10.1038/s41586-023-06683-4 [paper, repository]

Neural signal propagation atlas of Caenorhabditis elegans.

Journal: Nature

Authors' code: leiferlab/pump-probe-acquisition (no license), leiferlab/pumpprobe (GPL-3.0), leiferlab/wormdatamodel (GPL-3.0), leiferlab/wormneuronsegmentation-c (GPL-3.0), leiferlab/wormbrain (GPL-3.0), Zenodo 8312985 (GPL-2.0), Zenodo 8247252 (other-open), Zenodo 8247242 (other-open), Zenodo 8247254 (other-open), Zenodo 8247258 (other-open)

Status: code verified, 334 files readable, 9 matches

[32495] doi:10.1038/s41598-023-41653-w [paper, data]

Deep temporal networks for EEG-based motor imagery recognition.

Journal: Scientific reports

Status: data only, 2 datasets cited

[32496] doi:10.1038/s41598-023-45959-7 [paper, data]

Transcriptomic analyses reveal proinflammatory activation of human brain microvascular endothelial cells by aging-associated peptide medin and reversal by nanoliposomes.

Journal: Scientific reports

Status: data only, 1 dataset cited

[32497] doi:10.1038/s41598-023-46123-x [paper, repository]

An automated rat grimace scale for the assessment of pain.

Journal: Scientific reports

Authors' code: Barn99/Automated-RGS (MIT)

Status: code verified, 4 files readable, 2 matches

[32498] doi:10.1038/s41598-023-46139-3 [paper, data]

Brain mechanisms of social signalling in live social interactions with autistic and neurotypical adults.

Journal: Scientific reports

Status: data only, 1 dataset cited

[32499] doi:10.1080/19490976.2023.2271629 [paper, data]

Estradiol mediates colonic epithelial protection in aged mice after stroke and is associated with shifts in the gut microbiome.

Journal: Gut microbes

Status: data only, 1 dataset cited

[32500] doi:10.1083/jcb.202301084 [paper, data]

Axonal transport of autophagosomes is regulated by dynein activators JIP3/JIP4 and ARF/RAB GTPases.

Journal: The Journal of cell biology

Status: data only, 1 dataset cited

[32501] doi:10.1088/1741-2552/ad038e [paper, repository]

From monkeys to humans: observation-basedEMGbrain-computer interface decoders for humans with paralysis.

Journal: Journal of neural engineering

Authors' code: Zenodo 8247498 (MIT)

Status: code verified, 3 files readable, 8 matches

[32502] doi:10.1091/mbc.e23-06-0218 [paper]

Neuronal membrane proteasome-derived peptides modulate NMDAR-dependent neuronal signaling to promote changes in gene expression.

Journal: Molecular biology of the cell

Status: code on request

[32503] doi:10.1093/bib/bbad469 [paper, repository]

GTAD: a graph-based approach for cell spatial composition inference from integrated scRNA-seq and ST-seq data.

Journal: Briefings in bioinformatics

Authors' code: zzhjs/GTAD (no license)

Status: code verified, 6 files readable, 2 matches

[32504] doi:10.1093/bioinformatics/btad649 [paper, repository]

dsRID: in silico identification of dsRNA regions using long-read RNA-seq data.

Journal: Bioinformatics (Oxford, England)

Authors' code: gxiaolab/dsRID (GPL-3.0), Zenodo 8384704 (CC-BY-4.0)

Status: code verified, 17 files readable, 4 matches

[32505] doi:10.1093/bioinformatics/btad684 [paper, data]

PiDeeL: metabolic pathway-informed deep learning model for survival analysis and pathological classification of gliomas.

Journal: Bioinformatics (Oxford, England)

Status: data only, 3 datasets cited

[32506] doi:10.1093/brain/awad199 [paper, repository]

Brain tumour genetic network signatures of survival.

Journal: Brain : a journal of neurology

Authors' code: high-dimensional/brain-tumour-genetic-networks (Apache-2.0)

Status: code verified, 6 files readable, 5 matches

[32507] doi:10.1093/brain/awad220 [paper, repository]

Regional cortical thinning, demyelination and iron loss in cerebral small vessel disease.

Journal: Brain : a journal of neurology

Authors' code: kschan0214/r2starmapping (no license)

Status: code verified, 74 files readable

[32508] doi:10.1093/brain/awad224 [paper, data]

Characterizing proteomic and transcriptomic features of missense variants in amyotrophic lateral sclerosis genes.

Journal: Brain : a journal of neurology

Status: data only, 1 dataset cited

[32509] doi:10.1093/brain/awad231 [paper, repository]

Models of KPTN-related disorder implicate mTOR signalling in cognitive and overgrowth phenotypes.

Journal: Brain : a journal of neurology

Authors' code: wtsi-hgi/nextflow-pipelines (no license)

Status: code verified, 42 files readable, 1 match

[32510] doi:10.1093/brain/awad275 [paper, repository]

Genetic topography and cortical cell loss in Huntington's disease link development and neurodegeneration.

Journal: Brain : a journal of neurology

Authors' code: cestevezfraga (no license)

Status: code verified

[32511] doi:10.1093/brain/awad284 [paper, repository]

Identification of different MRI atrophy progression trajectories in epilepsy by subtype and stage inference.

Journal: Brain : a journal of neurology

Authors' code: ucl-pond (no license)

Status: code verified

[32512] doi:10.1093/cercor/bhad348 [paper, repository]

Quantifying the contribution of subject and group factors in brain activation.

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

Authors' code: OSF gyw8f (no license)

Status: code verified, 6 files readable, 1 match

[32513] doi:10.1093/cercor/bhad352 [paper]

How embodied is cognition? fMRI and behavioral evidence for common neural resources underlying motor planning and mental rotation of bodily stimuli.

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

Status: code on request

[32514] doi:10.1093/cercor/bhad361 [paper, data]

Levodopa suppresses grid-like activity and impairs spatial learning in novel environments in healthy young adults.

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

Status: data only, 1 dataset cited

[32515] doi:10.1093/cercor/bhad373 [paper, repository]

Graded functional organization in the left inferior frontal gyrus: evidence from task-free and task-based functional connectivity.

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

Authors' code: OSF u2834 (no license), DiveicaV/LIFG_Gradients (no license)

Status: code verified, 18 files readable, 13 matches

[32516] doi:10.1093/ecco-jcc/jjad080 [paper, data]

Distinct Alterations in Central Pain Processing of Visceral and Somatic Pain in Quiescent Ulcerative Colitis Compared to Irritable Bowel Syndrome and Health.

Journal: Journal of Crohn's & colitis

Status: data only, 1 dataset cited

[32517] doi:10.1093/jamia/ocad171 [paper, data]

Image-encoded biological and non-biological variables may be used as shortcuts in deep learning models trained on multisite neuroimaging data.

Journal: Journal of the American Medical Informatics Association : JAMIA

Status: data only, 1 dataset cited

[32518] doi:10.1093/nar/gkad774 [paper]

Drosha-dependent microRNAs modulate FUS-mediated neurodegeneration in vivo.

Journal: Nucleic acids research

Status: data only

[32519] doi:10.1093/nar/gkad798 [paper, repository]

Lineage specific 3D genome structure in the adult human brain and neurodevelopmental changes in the chromatin interactome.

Journal: Nucleic acids research

Authors' code: Zenodo 8190413 (CC-BY-4.0)

Status: code verified, 6 files readable, 4 matches

[32520] doi:10.1093/nar/gkad810 [paper, repository]

Identification and quantification of small exon-containing isoforms in long-read RNA sequencing data.

Journal: Nucleic acids research

Authors' code: Zenodo 8345036 (MIT), zhenliuxplr/miser-project (MIT)

Status: code verified, 18 files readable

[32521] doi:10.1093/ntr/ntad118 [paper, data]

The role of miRNA-144-3p/Oprk1/KOR in nicotine dependence and nicotine withdrawal in male rats.

Journal: Nicotine & tobacco research : official journal of the Society for Research on Nicotine and Tobacco

Status: data only, 1 dataset cited

[32522] doi:10.1093/scan/nsad060 [paper, data]

Role of medial prefrontal cortex and primary somatosensory cortex in self and other-directed vicarious social touch: a TMS study.

Journal: Social cognitive and affective neuroscience

Status: data only, 1 dataset cited

[32523] doi:10.1093/scan/nsad061 [paper, repository]

Causal roles of prefrontal and temporo-parietal theta oscillations for inequity aversion.

Journal: Social cognitive and affective neuroscience

Authors' code: OSF 8ybp7 (no license)

Status: code verified, 4 files readable

[32524] doi:10.1093/scan/nsad065 [paper, repository]

If you're happy and you know it: neural correlates of self-evaluated psychological health and well-being.

Journal: Social cognitive and affective neuroscience

Authors' code: dsnlab/happy_scripts (no license), dsnlab/svc-wellbeing (MIT)

Status: code verified, 105 files readable, 5 matches

[32525] doi:10.1093/scan/nsad066 [paper]

Specificity in the processing of a subject's own name.

Journal: Social cognitive and affective neuroscience

Status: code on request

[32526] doi:10.1093/scan/nsad067 [paper]

Negative emotion reduces the discriminability of reward outcomes in the ventromedial prefrontal cortex.

Journal: Social cognitive and affective neuroscience

Status: code on request

[32527] doi:10.1093/scan/nsad069 [paper, repository]

Gain/loss framing moderates the VMPFC's response to persuasive messages when behaviors have personal outcomes.

Journal: Social cognitive and affective neuroscience

Authors' code: OSF fwe8b (no license)

Status: code verified, 1 file readable, 3 matches

[32528] doi:10.1093/scan/nsad074 [paper, repository]

Does pain hurt more in Spanish? The neurobiology of pain among Spanish-English bilingual adults.

Journal: Social cognitive and affective neuroscience

Authors' code: OSF 8djb7 (no license)

Status: code verified, 1 file readable, 6 matches

[32529] doi:10.1093/schbul/sbad103 [paper]

Effects of Substance Use and Antisocial Personality on Neuroimaging-Based Machine Learning Prediction of Schizophrenia.

Journal: Schizophrenia bulletin

Status: code on request

[32530] doi:10.1097/md.0000000000035555 [paper]

Exploration of the shared genetic biomarkers in Alzheimer's disease and chronic kidney disease using integrated bioinformatics analysis.

Journal: Medicine

Status: data only

[32531] doi:10.1097/md.0000000000035961 [paper, repository]

A bibliometric analysis of research foci and trends in cerebral ischemia-reperfusion injury involving autophagy during 2008 to 2022.

Journal: Medicine

Authors' code: links.lww.com/md/k678 (no license)

Status: code verified

[32532] doi:10.1126/sciadv.adh2560 [paper, repository]

Phonological acquisition depends on the timing of speech sounds: Deconvolution EEG modeling across the first five years.

Journal: Science advances

Authors' code: OSF wjd8a (no license)

Status: code verified, 16 files readable, 4 matches

[32533] doi:10.1126/sciadv.adh2884 [paper, data]

Neural adaption in midbrain GABAergic cells contributes to high-fat diet-induced obesity.

Journal: Science advances

Status: data only, 1 dataset cited

[32534] doi:10.1126/sciadv.adh7693 [paper, repository]

A telencephalon cell type atlas for goldfish reveals diversity in the evolution of spatial structure and cell types.

Journal: Science advances

Authors' code: doi:10.5061/dryad.qfttdz0p9 (no license), muhammadtibi/Goldfish_Telencephalon_scRNAseq (MIT), Zenodo 8127695 (MIT)

Status: code verified, 38 files readable, 2 matches

[32535] doi:10.1126/sciadv.adh9543 [paper, repository]

LINE-1 retrotransposons drive human neuronal transcriptome complexity and functional diversification.

Journal: Science advances

Authors' code: Zenodo 7589548 (other-open), raquelgarza.github.io/truster (no license), raquelgarza/truster (no license), raquelgarza/L1_transcriptional_complexity_Garza2023 (no license), Zenodo 8116135 (other-open)

Status: code verified, 78 files readable, 30 matches

[32536] doi:10.1126/sciadv.adh9853 [paper, repository]

The CALIPR framework for highly accelerated myelin water imaging with improved precision and sensitivity.

Journal: Science advances

Authors' code: avdvorak/CALIPR (MIT), Zenodo 8049208 (other-open)

Status: code verified, 190 files readable, 6 matches

[32537] doi:10.1158/1078-0432.ccr-23-0290 [paper, data]

ATM-Inhibitor AZD1390 Is a Radiosensitizer for Breast Cancer CNS Metastasis.

Journal: Clinical cancer research : an official journal of the American Association for Cancer Research

Status: data only, 1 dataset cited

[32538] doi:10.1162/jocn_a_02043 [paper, repository]

Empirically Identifying and Computationally Modeling the Brain-Behavior Relationship for Human Scene Categorization.

Journal: Journal of cognitive neuroscience

Authors' code: Agnessa14/Perceptual-decision-making (MIT)

Status: code verified, 100 files readable, 13 matches

[32539] doi:10.1172/jci162788 [paper, data]

CD8+ T cells recognizing a neuron-restricted antigen injure axons in a model of multiple sclerosis.

Journal: The Journal of clinical investigation

Status: data only, 2 datasets cited

[32540] doi:10.1172/jci166333 [paper, data]

Phenotype screens of murine pancreatic cancer identify a Tgf-α-Ccl2-paxillin axis driving human-like neural invasion.

Journal: The Journal of clinical investigation

Status: data only, 1 dataset cited

[32541] doi:10.1186/s42494-023-00138-z [paper, data]

Identification of a common brain network associated with lesional epilepsy.

Journal: Acta epileptologica

Status: data only, 1 dataset cited

[32542] doi:10.1371/journal.pone.0290158 [paper, repository]

Open design of a reproducible videogame controller for MRI and MEG.

Journal: PloS one

Authors' code: Zenodo 7847577 (CC-BY-4.0), courtois-neuromod/controller_validation (no license)

Status: code verified, 21 files readable, 6 matches

[32543] doi:10.1503/jpn.230008 [paper, repository]

Connectivity patterns of the core resting-state networks associated with apathy in late-life depression.

Journal: Journal of psychiatry & neuroscience : JPN

Authors' code: inria-visages/anima-public (AGPL-3.0)

Status: code verified, 271 files readable

[32544] doi:10.18999/nagjms.85.4.772 [paper, repository]

Microglial process dynamics depend on astrocyte and synaptic activity.

Journal: Nagoya journal of medical science

Authors' code: atakehiro/TurboReg_macro (MIT)

Status: empty repository, 2 files readable

[32545] doi:10.2147/phmt.s427773 [paper, data]

Detection and Severity Identification of Neonatal Seizure Using Deep Convolutional Neural Networks from Multichannel EEG Signal.

Journal: Pediatric health, medicine and therapeutics

Status: data only, 1 dataset cited

[32546] doi:10.26508/lsa.202302140 [paper, data]

<i>Polycomb</i> regulates circadian rhythms in <i>Drosophila</i> in clock neurons.

Journal: Life science alliance

Status: data only, 1 dataset cited

[32547] doi:10.3389/fnhum.2023.1280512 [paper, data]

A comprehensive review for machine learning on neuroimaging in obsessive-compulsive disorder.

Journal: Frontiers in human neuroscience

Status: data only, 1 dataset cited

[32548] doi:10.3389/fninf.2023.1271059 [paper, repository]

Online interoperable resources for building hippocampal neuron models via the Hippocampus Hub.

Journal: Frontiers in neuroinformatics

Authors' code: hippocampushub/build (no license), BlueBrain/nmodl (Apache-2.0)

Status: code verified, 387 files readable, 1 match

[32549] doi:10.3390/s23218880 [paper, repository]

Bridging Neuroscience and Robotics: Spiking Neural Networks in Action.

Journal: Sensors (Basel, Switzerland)

Authors' code: adammd1/Code-Robotic-Arm-And-Hand (no license)

Status: code verified, 4 files readable, 2 matches

[32550] doi:10.3390/s23218893 [paper, data]

A Combined Virtual Electrode-Based ESA and CNN Method for MI-EEG Signal Feature Extraction and Classification.

Journal: Sensors (Basel, Switzerland)

Status: data only, 1 dataset cited

[32551] doi:10.3724/abbs.2023238 [paper, repository]

Alternating current stimulation promotes neurite outgrowth and plasticity in neurons through activation of the PI3K/AKT signaling pathway.

Journal: Acta biochimica et biophysica Sinica

Authors' code: gpertea/gffcompare (MIT)

Status: code verified, 32 files readable

[32552] doi:10.4103/1673-5374.371365 [paper, repository]

A novel phenotype of B cells associated with enhanced phagocytic capability and chemotactic function after ischemic stroke.

Journal: Neural regeneration research

Authors' code: YuLab-SMU/clusterProfiler (no license)

Status: code verified, 91 files readable, 2 matches

[32553] doi:10.4103/1673-5374.371368 [paper, data]

<i>Vav1</i> promotes inflammation and neuronal apoptosis in cerebral ischemia/reperfusion injury by upregulating microglial and NLRP3 inflammasome activation.

Journal: Neural regeneration research

Status: data only, 1 dataset cited

[32554] doi:10.4103/1673-5374.371374 [paper, repository]

Epigenetic combined with transcriptomic analysis of the m6A methylome after spared nerve injury-induced neuropathic pain in mice.

Journal: Neural regeneration research

Authors' code: OpenGene/fastp (MIT)

Status: code verified, 68 files readable

[32555] doi:10.4103/aian.aian_731_23 [paper, data]

Prevalence of Cognitive Impairment and Dementia After Intracerebral Hemorrhage.

Journal: Annals of Indian Academy of Neurology

Status: data only, 4 datasets cited

[32556] doi:10.5306/wjco.v14.i11.445 [paper]

Analysis of clinicopathological features and prognostic factors of breast cancer brain metastasis.

Journal: World journal of clinical oncology

Status: code on request

[32557] doi:10.7554/elife.84376 [paper, data]

Brain-imaging evidence for compression of binary sound sequences in human memory.

Journal: eLife

Status: data only, 4 datasets cited

[32558] doi:10.7554/elife.85069 [paper, repository]

Mega-scale movie-fields in the mouse visuo-hippocampal network.

Journal: eLife

Authors' code: cspurandare/ELife_MovieTuning (GPL-3.0)

Status: code verified, 3 files readable, 6 matches

[32559] doi:10.7554/elife.88198 [paper, repository]

Experimentally induced active and quiet sleep engage non-overlapping transcriptional programs in <i>Drosophila</i>.

Journal: eLife

Authors' code: Zenodo 10002274 (afl-1.1)

Status: code verified, 3 files readable, 1 match

[32560] doi: [paper, repository]

Mechanisms of Sustained Increases in γ Power Post-Ketamine in a Computational Model of the Hippocampal CA3: Implications for Ketamine’s Antidepressant Mechanism of Action

Journal: Brain sciences

Authors' code: MaximilianPetzi/ketamine_gamma_CA3 (no license)

Status: code verified, 524 files readable, 3 matches

[32561] doi: [paper, repository]

Neural Marker Expression in Adipose-Derived Stem Cells Grown in PEG-Based 3D Matrix Is Enhanced in the Presence of B27 and CultureOne Supplements

Journal: International journal of molecular sciences

Authors' code: maxlcummins/Pelegri_et_al_2023 (no license)

Status: code verified, 13 files readable, 2 matches

[32562] doi: [paper, repository]

CRISPR/Cas9 Directed Reprogramming of iPSC for Accelerated Motor Neuron Differentiation Leads to Dysregulation of Neuronal Fate Patterning and Function

Journal: International journal of molecular sciences

Authors' code: poeli/opaver (LGPL-3.0)

Status: code verified, 53 files readable, 4 matches

[32563] doi: [paper, data]

Repetitive Transcranial Magnetic Stimulation of the Human Motor Cortex Modulates Processing of Heat Pain Sensation as Assessed by the Offset Analgesia Paradigm

Journal: Journal of clinical medicine

Status: data only, 1 dataset cited

[32564] doi: [paper, repository]

5-HT4 Receptor Agonist Effects on Functional Connectivity in the Human Brain: Implications for Procognitive Action

Journal: Biological psychiatry. Cognitive neuroscience and neuroimaging

Authors' code: git.fmrib.ox.ac.uk/acates/7dp_code (no license), Zenodo 6354716 (CC-BY-4.0)

Status: code verified

Tuesday, 31 October 2023 (32 papers)

[32565] doi:10.1007/s00429-023-02709-9 [paper, repository]

A map of white matter tracts in a lesser ape, the lar gibbon.

Journal: Brain structure & function

Authors' code: neuroecologylab.org (no license)

Status: code verified

[32566] doi:10.1016/j.celrep.2023.113238 [paper, repository]

A neural code for time and space in the human brain.

Journal: Cell reports

Authors' code: Zenodo 8333600 (other-open), dschonhaut/time_cells (no license)

Status: code verified, 31 files readable

[32567] doi:10.1016/j.celrep.2023.113271 [paper, repository]

Minute-scale periodicity of neuronal firing in the human entorhinal cortex.

Journal: Cell reports

Authors' code: Zahra-M-Aghajan/temporally_periodic_cells (no license)

Status: code verified, 2 files readable, 1 match

[32568] doi:10.1016/j.isci.2023.108364 [paper, data]

Prdm12 represses the expression of the visceral neuron determinants Phox2a/b in developing somatosensory ganglia.

Journal: iScience

Status: code on request, 1 dataset cited

[32569] doi:10.1016/j.isci.2023.108371 [paper, repository]

Flash-based content addressable memory with L2 distance for memory-augmented neural network.

Journal: iScience

Authors' code: ElijahBele/Flash-based_L2_CAM (no license)

Status: code verified, 18 files readable, 1 match

[32570] doi:10.1016/j.isci.2023.108372 [paper, data]

Effects of focused ultrasound in a "clean" mouse model of ultrasonic neuromodulation.

Journal: iScience

Status: code on request, 1 dataset cited

[32571] doi:10.1016/j.omtm.2023.101146 [paper]

A C1qTNF3 collagen domain fusion chaperones diverse secreted proteins and anti-Aβ scFvs: Applications for gene therapies.

Journal: Molecular therapy. Methods & clinical development

Status: code on request

[32572] doi:10.1016/j.xpro.2023.102674 [paper]

Prospective isolation of neural stem and progenitor cells from the developing human brain.

Journal: STAR protocols

Status: code on request

[32573] doi:10.1038/s41598-023-44001-0 [paper, repository]

Perceived financial well-being and its association with frontostriatal functional connectivity, real-life anticipatory experiences, and everyday happiness.

Journal: Scientific reports

Authors' code: OSF b2ng3 (no license)

Status: code verified, 1 file readable

[32574] doi:10.1038/s41598-023-45602-5 [paper, repository]

A fast direct solver for surface-based whole-head modeling of transcranial magnetic stimulation.

Journal: Scientific reports

Authors' code: dropbox.com/sh/ztra43jfj8afh0z (no license)

Status: code verified

[32575] doi:10.1038/s42003-023-05423-8 [paper, repository]

Relevance of the anterior cingulate cortex volume and personality in motivated physical activity behaviors.

Journal: Communications biology

Authors' code: neuro.uni-jena.de/cat (no license), fil.ion.ucl.ac.uk/spm/software (no license)

Status: code verified

[32576] doi:10.1038/s42003-023-05453-2 [paper, repository]

Mutual generation in neuronal activity across the brain via deep neural approach, and its network interpretation.

Journal: Communications biology

Authors' code: ShimonoMLab/GenerativeNeurosci_ML-LSTM (no license), ShimonoMLab (no license)

Status: code verified, 1 file readable

[32577] doi:10.1073/pnas.2310057120 [paper, repository]

Shift of the insoluble content of the proteome in the aging mouse brain.

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

Authors' code: cmolzahn/aging_proteomics (no license), shinyapps.io (no license)

Status: code verified, 8 files readable, 2 matches

[32578] doi:10.1093/braincomms/fcad294 [paper, repository]

Deep learning distinguishes connectomes from focal epilepsy patients and controls: feasibility and clinical implications.

Journal: Brain communications

Authors' code: jackjacktang/ConnectomePrediction (no license)

Status: dead link

[32579] doi:10.1101/2023.10.30.564638 [paper, repository]

Top-down semantic predictions align phonetic neuronal dynamics in human superior temporal gyrus

Journal: bioRxiv (preprint)

Authors' code: Zenodo 20542051 (CC-BY-4.0), Zenodo 20542052 (CC-BY-4.0)

Status: code verified

[32580] doi:10.1101/gr.277864.123 [paper, repository]

Infernape uncovers cell type-specific and spatially resolved alternative polyadenylation in the brain.

Journal: Genome research

Authors' code: kangbw702/Infernape (other)

Status: code verified, 13 files readable, 1 match

[32581] doi:10.1159/000534618 [paper, data]

Brain Injury Outcomes after Adjuvant Erythropoietin Neuroprotection for Moderate or Severe Neonatal Hypoxic-Ischemic Encephalopathy: A Report from the HEAL Trial.

Journal: Developmental neuroscience

Status: data only, 2 datasets cited

[32582] doi:10.1162/nol_a_00115 [paper, repository]

Leukoaraiosis Is Not Associated With Recovery From Aphasia in the First Year After Stroke.

Journal: Neurobiology of language (Cambridge, Mass.)

Authors' code: OSF d45cf (no license)

Status: code verified, 1 file readable

[32583] doi:10.1186/s12880-023-01128-w [paper, repository]

"A net for everyone": fully personalized and unsupervised neural networks trained with longitudinal data from a single patient.

Journal: BMC medical imaging

Authors' code: cstrack/pn_vagan (no license)

Status: dead link

[32584] doi:10.1186/s12915-023-01748-2 [paper, data]

Lactoferrin deficiency during lactation increases the risk of depressive-like behavior in adult mice.

Journal: BMC biology

Status: data only, 4 datasets cited

[32585] doi:10.1186/s13073-023-01248-6 [paper, repository]

DeepGAMI: deep biologically guided auxiliary learning for multimodal integration and imputation to improve genotype-phenotype prediction.

Journal: Genome medicine

Authors' code: daifengwanglab/DeepGAMI (MIT), daifengwanglab/scMNC (no license)

Status: code verified, 32 files readable, 9 matches

[32586] doi:10.1371/journal.pbio.3002206 [paper, repository]

Effects of stochastic coding on olfactory discrimination in flies and mice.

Journal: PLoS biology

Authors' code: figshare 23994708 (GPL 3.0+)

Status: code verified, 8 files readable, 10 matches

[32587] doi:10.1371/journal.pone.0291740 [paper, repository]

Intermediate gray matter interneurons in the lumbar spinal cord play a critical and necessary role in coordinated locomotion.

Journal: PloS one

Authors' code: naemikuehn/lumbarcordanalysis (no license), cberri/2D_Registration_BrainAtlas_ImageJ-Fiji (MIT)

Status: code verified, 4 files readable, 1 match

[32588] doi:10.21037/qims-23-708 [paper, repository]

Estimate of fetal brain temperature using proton resonance frequency thermometry during 3 Tesla fetal magnetic resonance imaging.

Journal: Quantitative imaging in medicine and surgery

Authors' code: jacob-ellison/fetal_prf_thermometry (no license)

Status: code verified, 21 files readable, 1 match

[32589] doi:10.3389/fncel.2023.1252782 [paper, data]

Inhibitory neuron map of sevoflurane induced neurotoxicity model in young primates.

Journal: Frontiers in cellular neuroscience

Status: data only, 1 dataset cited

[32590] doi:10.3389/fneur.2023.1272960 [paper, data]

Detection of neuron-derived cfDNA in blood plasma: a new diagnostic approach for neurodegenerative conditions.

Journal: Frontiers in neurology

Status: data only, 1 dataset cited

[32591] doi:10.3389/fpain.2023.1274811 [paper, data]

Transcriptional profiles of non-neuronal and immune cells in mouse trigeminal ganglia.

Journal: Frontiers in pain research (Lausanne, Switzerland)

Status: data only, 1 dataset cited

[32592] doi:10.3389/fphar.2023.1276309 [paper, repository]

Ketamine promptly normalizes excess norepinephrine and enhances dopamine neuronal activity in Wistar Kyoto rats.

Journal: Frontiers in pharmacology

Authors' code: nno/burstidator (MIT)

Status: code verified, 22 files readable

[32593] doi:10.3390/biomedicines11112940 [paper, repository]

Iron Bioavailability in the Extracellular Environment Is More Relevant Than the Intracellular One in Viability and Gene Expression: A Lesson from Oligodendroglioma Cells.

Journal: Biomedicines

Authors' code: www-genome.wi.mit.edu/genome_software/other (no license)

Status: code found, still to be checked

[32594] doi:10.3390/ijms242115840 [paper, data]

Molecular Mechanisms for Changing Brain Connectivity in Mice and Humans.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[32595] doi:10.3390/nu15214629 [paper, data]

Ketogenic Diet Has Moderate Effects on the Fecal Microbiota of Wild-Type Mice.

Journal: Nutrients

Status: data only, 3 datasets cited

[32596] doi:10.7554/elife.91355 [paper, repository]

Homeostatic control of deep sleep and molecular correlates of sleep pressure in <i>Drosophila</i>.

Journal: eLife

Authors' code: abhilashlakshman/ethoscopeCodes_eLife (GPL-3.0), shaliulab/shaferlab-ethoscope (GPL-3.0), gilestrolab/ethoscope (GPL-3.0)

Status: code verified, 516 files readable, 2 matches

Monday, 30 October 2023 (21 papers)

[32597] doi:10.1002/dad2.12493 [paper, repository]

NeuropsychBrainAge: A biomarker for conversion from mild cognitive impairment to Alzheimer's disease.

Journal: Alzheimer's & dementia (Amsterdam, Netherlands)

Authors' code: JGarciaCondado/ADNIBrainAge (GPL-3.0)

Status: code verified, 12 files readable, 4 matches

[32598] doi:10.1016/j.celrep.2023.113344 [paper, repository]

Cell type specializations of the vocal-motor cortex in songbirds.

Journal: Cell reports

Authors' code: Zenodo 8394120 (other-open), Zenodo 8394118 (other-open), alexnevue/shinyapp_snrnaseq (no license), alexnevue/shinyapp_bulk (no license)

Status: code verified, 74 files readable, 1 match

[32599] doi:10.1016/j.dcn.2023.101320 [paper, data]

Hooked on a thought: Associations between rumination and neural responses to social rejection in adolescent girls.

Journal: Developmental cognitive neuroscience

Status: data only, 1 dataset cited

[32600] doi:10.1021/acschemneuro.3c00442 [paper, repository]

Patient Brain Organoids Identify a Link between the 16p11.2 Copy Number Variant and the <i>RBFOX1</i> Gene.

Journal: ACS chemical neuroscience

Authors' code: sandbox.zenodo.org/record/1103196 (no license), Novartis/16p11.2-Organoid-scRNA-seq (MIT)

Status: code verified, 12 files readable, 12 matches

[32601] doi:10.1038/s41467-023-42175-9 [paper]

Neural control of lexical tone production in human laryngeal motor cortex.

Journal: Nature communications

Status: code on request

[32602] doi:10.1038/s41467-023-42570-2 [paper, data]

Microglia-mediated demyelination protects against CD8⁺ T cell-driven axon degeneration in mice carrying PLP defects.

Journal: Nature communications

Status: data only, 1 dataset cited

[32603] doi:10.1038/s41593-023-01468-4 [paper, repository]

Dissecting neural computations in the human auditory pathway using deep neural networks for speech.

Journal: Nature neuroscience

Authors' code: yuanningli/neural_encoding_demo (no license)

Status: code verified, 19 files readable, 5 matches

[32604] doi:10.1038/s41598-023-44261-w [paper, data]

Epidemiology and disease burden of patients requiring neurocritical care: a Brazilian multicentre cohort study.

Journal: Scientific reports

Status: data only, 1 dataset cited

[32605] doi:10.1038/s41598-023-45769-x [paper, data]

Contextual fear memory impairment in Angelman syndrome model mice is associated with altered transcriptional responses.

Journal: Scientific reports

Status: data only, 1 dataset cited

[32606] doi:10.1073/pnas.2309015120 [paper, repository]

Neuronal implementation of the temporal difference learning algorithm in the midbrain dopaminergic system.

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

Authors' code: koostib/temporal_difference_dopamine (no license)

Status: empty repository, 1 file readable

[32607] doi:10.1186/s12880-023-01131-1 [paper, data]

Brain tumor image segmentation based on improved FPN.

Journal: BMC medical imaging

Status: data only, 1 dataset cited

[32608] doi:10.1186/s13014-023-02360-y [paper]

Dose-effect relationship of linear accelerator based stereotactic radiotherapy for brain metastases.

Journal: Radiation oncology (London, England)

Status: code on request

[32609] doi:10.1371/journal.pone.0293546 [paper, repository]

Repetitive sensorimotor mu-alpha phase-targeted afferent stimulation produces no phase-dependent plasticity related changes in somatosensory evoked potentials or sensory thresholds.

Journal: PloS one

Authors' code: OSF t6vdn (no license)

Status: empty repository

[32610] doi:10.1523/eneuro.0094-23.2023 [paper, repository]

Whole-Brain Evaluation of Cortical Microconnectomes.

Journal: eNeuro

Authors' code: ShimonoMLab (no license), Motoki878 (no license)

Status: code verified

[32611] doi:10.3389/fimmu.2023.1227104 [paper]

Immunological characterization of stroke-heart syndrome and identification of inflammatory therapeutic targets.

Journal: Frontiers in immunology

Status: data only

[32612] doi:10.3389/fnhum.2023.1234085 [paper, repository]

Neurofeedback strategies in binge-eating disorder as predictors of EEG-neurofeedback regulation success.

Journal: Frontiers in human neuroscience

Authors' code: OSF t3pba (no license)

Status: code found, still to be checked

[32613] doi:10.3390/biom13111597 [paper, data]

Neuroproteomic Analysis after SARS-CoV-2 Infection Reveals Overrepresented Neurodegeneration Pathways and Disrupted Metabolic Pathways.

Journal: Biomolecules

Status: data only, 1 dataset cited

[32614] doi:10.3390/diagnostics13213344 [paper, data]

Segmentation of Brain Tumor Using a 3D Generative Adversarial Network.

Journal: Diagnostics (Basel, Switzerland)

Status: data only, 1 dataset cited

[32615] doi:10.3390/s23218833 [paper, data]

Graph Analysis of TMS-EEG Connectivity Reveals Hemispheric Differences following Occipital Stimulation.

Journal: Sensors (Basel, Switzerland)

Status: data only, 1 dataset cited

[32616] doi:10.7554/elife.87419 [paper, data]

Hepatic conversion of acetyl-CoA to acetate plays crucial roles in energy stress.

Journal: eLife

Status: data only, 2 datasets cited

[32617] doi: [paper, data]

Multi-Dataset Comparison of Vision Transformers and Convolutional Neural Networks for Detecting Glaucomatous Optic Neuropathy from Fundus Photographs

Journal: Bioengineering (Basel, Switzerland)

Status: data only, 1 dataset cited

Sunday, 29 October 2023 (1 paper)

[32618] doi:10.1016/j.mcpro.2023.100673 [paper, repository]

Synaptic Involvement of the Human Amygdala in Parkinson's Disease.

Journal: Molecular & cellular proteomics : MCP

Authors' code: vdemichev/diann (other), MannLabs/alphamap (Apache-2.0)

Status: code verified, 476 files readable, 4 matches

Saturday, 28 October 2023 (13 papers)

[32619] doi:10.1016/j.celrep.2023.113282 [paper]

Mitf is a Schwann cell sensor of axonal integrity that drives nerve repair.

Journal: Cell reports

Status: code on request

[32620] doi:10.1016/j.ebiom.2023.104847 [paper, data]

The alteration of cortical microstructure similarity in drug-resistant epilepsy correlated with mTOR pathway genes.

Journal: EBioMedicine

Status: data only, 2 datasets cited

[32621] doi:10.1016/j.ebiom.2023.104862 [paper]

Trajectories of olfactory identification preceding incident mild cognitive impairment and dementia: a longitudinal study.

Journal: EBioMedicine

Status: code on request

[32622] doi:10.1016/j.heliyon.2023.e21165 [paper, repository]

Omics-CNN: A comprehensive pipeline for predictive analytics in quantitative omics using one-dimensional convolutional neural networks.

Journal: Heliyon

Authors' code: alphazita/Omics-CNN (no license)

Status: code verified, 7 files readable, 4 matches

[32623] doi:10.1016/j.isci.2023.108310 [paper, repository]

Low frequency independent components: Internal neuromarkers linking cortical LFPs to behavior.

Journal: iScience

Authors' code: D-Orellana/lf-ICs-as-Internal-Neuromarkers (no license)

Status: code verified, 90 files readable, 5 matches

[32624] doi:10.1016/j.isci.2023.108335 [paper]

Single nucleotide polymorphisms rs148582811 regulates its host gene <i>ARVCF</i> expression to affect nicotine-associated hippocampus-dependent memory.

Journal: iScience

Status: code on request

[32625] doi:10.1038/s41398-023-02625-w [paper, repository]

Functional connectivity between the amygdala and prefrontal cortex underlies processing of emotion ambiguity.

Journal: Translational psychiatry

Authors' code: OSF 26rhz (no license)

Status: code verified, 39 files readable, 1 match

[32626] doi:10.1038/s41419-023-06231-y [paper, repository]

The identification of BCL-XL and MCL-1 as key anti-apoptotic proteins in medulloblastoma that mediate distinct roles in chemotherapy resistance.

Journal: Cell death & disease

Authors' code: niamhconno/Fitzgerald-et-al-2023 (no license)

Status: code verified, 4 files readable, 3 matches

[32627] doi:10.1038/s41467-023-42589-5 [paper, repository]

Neural and computational underpinnings of biased confidence in human reinforcement learning.

Journal: Nature communications

Authors' code: OSF s92tj (no license)

Status: code verified, 25 files readable, 9 matches

[32628] doi:10.1038/s41467-023-42609-4 [paper, repository]

Emergence of cortical network motifs for short-term memory during learning.

Journal: Nature communications

Authors' code: HiroshiMakinoLaboratory/ChiaEtAl2023NatureCommunications (no license), Zenodo 8275051 (other-open)

Status: code verified, 132 files readable, 19 matches

[32629] doi:10.1038/s41467-023-42623-6 [paper, repository]

Lateral hypothalamic proenkephalin neurons drive threat-induced overeating associated with a negative emotional state.

Journal: Nature communications

Authors' code: Shinlab/matlabcodes (CC-BY-4.0)

Status: code verified, 3 files readable

[32630] doi:10.3390/biomedicines11112918 [paper]

Whole Genome Expression Profiling of Semitendinosus Tendons from Children with Diplegic and Tetraplegic Cerebral Palsy.

Journal: Biomedicines

Status: data only

[32631] doi:10.3390/cancers15215190 [paper, repository]

Leveraging Attention-Based Convolutional Neural Networks for Meningioma Classification in Computational Histopathology.

Journal: Cancers

Authors' code: Neuropathology-Giessen/METHnet (GPL-3.0)

Status: code verified, 20 files readable, 7 matches

Friday, 27 October 2023 (18 papers)

[32632] doi:10.1038/s41467-023-42465-2 [paper, repository]

Neuronal connected burst cascades bridge macroscale adaptive signatures across arousal states.

Journal: Nature communications

Authors' code: Bmunn/Layer5_Arousal (no license)

Status: code verified, 4 files readable, 3 matches

[32633] doi:10.1038/s41467-023-42519-5 [paper, repository]

Early selection of task-relevant features through population gating.

Journal: Nature communications

Authors' code: cxrodgers/Rodgers2014 (no license), jmourabarbosa/multi-area-ctx (no license)

Status: code verified, 108 files readable, 6 matches

[32634] doi:10.1038/s41467-023-42611-w [paper, repository]

Aversive stimulus-tuned responses in the CA1 of the dorsal hippocampus.

Journal: Nature communications

Authors' code: Zenodo 8343626 (CC-BY-4.0)

Status: code verified

[32635] doi:10.1038/s41598-023-45024-3 [paper, data]

An MR spectroscopy study of temporal areas excluding primary auditory cortex and frontal regions in subjective bilateral and unilateral tinnitus.

Journal: Scientific reports

Status: data only, 2 datasets cited

[32636] doi:10.1038/s41598-023-45683-2 [paper]

Gender versus sex in predicting outcomes of traumatic brain injury: a cohort study utilizing large administrative databases.

Journal: Scientific reports

Status: code on request

[32637] doi:10.1038/s41598-023-45922-6 [paper]

Comprehensive analyses identify potential biomarkers for encephalitis in HIV infection.

Journal: Scientific reports

Status: data only

[32638] doi:10.1101/gad.350733.123 [paper, data]

A novel pathogenic mutation of MeCP2 impairs chromatin association independent of protein levels.

Journal: Genes & development

Status: data only, 6 datasets cited

[32639] doi:10.1126/sciadv.adh3273 [paper, data]

Mechanical stimulation of human hair follicle outer root sheath cultures activates adjacent sensory neurons.

Journal: Science advances

Status: data only, 1 dataset cited

[32640] doi:10.1159/000534607 [paper, data]

Transcrocetin Meglumine Salt Inhibits Spinal Glial Cell-Mediated Proinflammatory Cytokines and Attenuates Complete Freund's Adjuvant-Induced Inflammatory Pain.

Journal: Neuroimmunomodulation

Status: data only, 1 dataset cited

[32641] doi:10.12688/f1000research.134891.2 [paper, repository]

Pinostrobin mitigates neurodegeneration through an up-regulation of antioxidants and GDNF in a rat model of Parkinson's disease.

Journal: F1000Research

Authors' code: figshare 23058479 (CC-BY-4.0)

Status: empty repository

[32642] doi:10.1371/journal.pcbi.1011556 [paper, repository]

Discovering individual-specific gait signatures from data-driven models of neuromechanical dynamics.

Journal: PLoS computational biology

Authors' code: bermanlabemory/gait_signatures (no license), sheim/phaser (no license)

Status: code verified, 4 files readable, 8 matches

[32643] doi:10.1371/journal.pone.0284755 [paper, repository]

Predictability awareness rather than mere predictability enhances the perceptual benefits for targets in auditory rhythms over targets following temporal cues.

Journal: PloS one

Authors' code: Zenodo 6472448 (CC-BY-4.0), Zenodo 6473030 (CC-BY-4.0)

Status: code verified, 36 files readable, 3 matches

[32644] doi:10.1523/eneuro.0250-23.2023 [paper, repository]

Reciprocal Connections between Parvalbumin-Expressing Cells and Adjacent Pyramidal Cells Are Regulated by Clustered Protocadherin γ.

Journal: eNeuro

Authors' code: scicrunch.org/resolver/scr_001622 (no license)

Status: code found, still to be checked

[32645] doi:10.3389/fnins.2023.1277501 [paper, repository]

The autism spectrum disorder risk gene <i>NEXMIF</i> over-synchronizes hippocampal CA1 network and alters neuronal coding.

Journal: Frontiers in neuroscience

Authors' code: HanLabBU/SemiSeg (Apache-2.0)

Status: code verified, 7 files readable

[32646] doi:10.3389/fonc.2023.1285775 [paper]

A systematic review of data sources for artificial intelligence applications in pediatric brain tumors in Europe: implications for bias and generalizability.

Journal: Frontiers in oncology

Status: data only

[32647] doi:10.3390/diagnostics13213326 [paper, repository]

Deep Learning-Based Denoising of CEST MR Data: A Feasibility Study on Applying Synthetic Phantoms in Medical Imaging.

Journal: Diagnostics (Basel, Switzerland)

Authors' code: MPR-UKD/CEST-Generator (GPL-3.0), cest-sources/BM_sim_fit (GPL-3.0), MPR-UKD/CEST-Denoise (GPL-3.0)

Status: code verified, 209 files readable, 7 matches

[32648] doi:10.3390/ijms242115664 [paper, data]

Essential Role of BMP4 Signaling in the Avian Ceca in Colorectal Enteric Nervous System Development.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[32649] doi:10.7554/elife.75352 [paper, repository]

Conscious processing of global and local auditory irregularities causes differentiated heartbeat-evoked responses.

Journal: eLife

Authors' code: diegocandiar/brain_heart_doc (GPL-3.0)

Status: code verified, 14 files readable, 2 matches

Thursday, 26 October 2023 (18 papers)

[32650] doi:10.1016/j.celrep.2023.113316 [paper, data]

Pain and itch coding mechanisms of polymodal sensory neurons.

Journal: Cell reports

Status: code on request, 2 datasets cited

[32651] doi:10.1016/j.celrep.2023.113335 [paper, data]

Single-cell long-read sequencing in human cerebral organoids uncovers cell-type-specific and autism-associated exons.

Journal: Cell reports

Status: data only, 7 datasets cited

[32652] doi:10.1016/j.eclinm.2023.102276 [paper, repository]

A neuroimaging biomarker for Individual Brain-Related Abnormalities In Neurodegeneration (IBRAIN): a cross-sectional study.

Journal: EClinicalMedicine

Authors' code: YongLiuLab (no license)

Status: code verified

[32653] doi:10.1016/j.xpro.2023.102647 [paper, repository]

Brain Registration and Evaluation for Zebrafish (BREEZE)-mapping: A pipeline for whole-brain structural and activity analyses.

Journal: STAR protocols

Authors' code: ehoffmanlab/Jin_Neelakantan_BREEZE_Mapping (GPL-3.0), Zenodo 7996403 (CC-BY-4.0), bioimagesuiteweb/bisweb (Apache-2.0)

Status: code verified, 702 files readable, 2 matches

[32654] doi:10.1038/s41467-023-42339-7 [paper, repository]

Small leucine-rich proteoglycans inhibit CNS regeneration by modifying the structural and mechanical properties of the lesion environment.

Journal: Nature communications

Authors' code: BrillouinMicroscopy/BrillouinAcquisition (GPL-3.0), OpticalDiffractionTomography/ODT_Reconstruction (no license), GuckLab/impose (GPL-3.0), BrillouinMicroscopy/BMicro (GPL-3.0), afm-analysis/pyjibe (GPL-3.0), Zenodo 8336463 (GPL-2.0), Zenodo 8329103 (other-open), Zenodo 8329129 (other-open), Zenodo 8341300 (other-open), Zenodo 8329158 (other-open)

Status: code verified, 485 files readable, 3 matches

[32655] doi:10.1038/s41467-023-42517-7 [paper, repository]

GSG1L-containing AMPA receptor complexes are defined by their spatiotemporal expression, native interactome and allosteric sites.

Journal: Nature communications

Authors' code: phys2/belki (GPL-3.0)

Status: code verified, 98 files readable, 2 matches

[32656] doi:10.1038/s41467-023-42613-8 [paper, repository]

Sensorimotor transformation underlying odor-modulated locomotion in walking Drosophila.

Journal: Nature communications

Authors' code: bhandawatlab/CircularArenaTrackingCode (MIT), bhandawatlab/DrosoRT (no license), bhandawatlab/Single-Sensillum-Spike-Sorting-GUI (Apache-2.0), bhandawatlab/ORN-Optogenetics (GPL-3.0), Zenodo 8190933 (other-open)

Status: code verified, 1,055 files readable, 23 matches

[32657] doi:10.1038/s41467-023-42686-5 [paper, data]

Transcriptional dissection of symptomatic profiles across the brain of men and women with depression.

Journal: Nature communications

Status: data only, 1 dataset cited

[32658] doi:10.1038/s41562-023-01725-3 [paper, repository]

Stunting in infancy is associated with atypical activation of working memory and attention networks.

Journal: Nature human behaviour

Authors' code: OSF kc3n8 (no license), developmentaldynamicslab/MRI-NIRS_Pipeline (no license)

Status: code verified, 197 files readable, 3 matches

[32659] doi:10.1038/s41588-023-01538-0 [paper, repository]

Rare variants with large effects provide functional insights into the pathology of migraine subtypes, with and without aura.

Journal: Nature genetics

Authors' code: mjpirinen/migraine-meta (MIT), DecodeGenetics/graphtyper (MIT), odelaneau.github.io/shapeit4 (no license), dalexander.github.io/admixture (no license), ggplot2.tidyverse.org (no license), pachterlab/kallisto (BSD-2-Clause), Ensembl/ensembl-vep (Apache-2.0), fuma.ctglab.nl (no license), sequencher.software.informer.com/5.0 (no license), ncbi.nlm.nih.gov (no license)

Status: code verified, 540 files readable

[32660] doi:10.1038/s41593-023-01469-3 [paper, repository]

Neuronal types in the mouse amygdala and their transcriptional response to fear conditioning.

Journal: Nature neuroscience

Authors' code: tjd2002/tjd-shared-code (no license), zeiselamit/amygdala_fc (no license)

Status: code verified, 156 files readable, 16 matches

[32661] doi:10.1038/s41598-023-45267-0 [paper, repository]

A pill as a quick solution: association between painkiller intake, empathy, and prosocial behavior.

Journal: Scientific reports

Authors' code: OSF dzs85 (no license)

Status: code verified, 1 file readable, 3 matches

[32662] doi:10.1038/s41598-023-45374-y [paper, repository]

Videoconference fatigue from a neurophysiological perspective: experimental evidence based on electroencephalography (EEG) and electrocardiography (ECG).

Journal: Scientific reports

Authors' code: scwLab (no license)

Status: code verified

[32663] doi:10.1101/gr.277784.123 [paper, repository]

GC-biased gene conversion drives accelerated evolution of ultraconserved elements in mammalian and avian genomes.

Journal: Genome research

Authors' code: Anguo-Liu/gBGC-drives-accelerated-evolution-of-UCEs (MIT)

Status: code verified, 51 files readable, 9 matches

[32664] doi:10.1242/dev.201519 [paper, data]

The shift to 3D growth during embryogenesis of kelp species, atlas of cell division and differentiation of Saccharina latissima.

Journal: Development (Cambridge, England)

Status: data only, 1 dataset cited

[32665] doi:10.1371/journal.pcbi.1011572 [paper, repository]

Dose-response in modulating brain function with transcranial direct current stimulation: From local to network levels.

Journal: PLoS computational biology

Authors' code: OSF wguxf (no license)

Status: code verified, 7 files readable, 1 match

[32666] doi:10.3389/fnmol.2023.1279232 [paper, data]

Transcriptional and bioinformatic analysis of GABA_A receptors expressed in oligodendrocyte progenitor cells from the human brain.

Journal: Frontiers in molecular neuroscience

Status: data only, 2 datasets cited

[32667] doi:10.7554/elife.82823 [paper, repository]

Quantifying decision-making in dynamic, continuously evolving environments.

Journal: eLife

Authors' code: CCNHuntLab/continuous-rdm-task (no license), ccnhuntlab/ruesseler-eeg-analysis (MIT)

Status: code verified, 132 files readable, 16 matches

Wednesday, 25 October 2023 (23 papers)

[32668] doi:10.1038/s41467-023-42077-w [paper, repository]

Presynaptic gating of monkey proprioceptive signals for proper motor action.

Journal: Nature communications

Authors' code: saetoma/Tomatsu_NC2023 (no license)

Status: code verified, 8 files readable, 4 matches

[32669] doi:10.1038/s41467-023-42276-5 [paper, data]

Microglial cannabinoid receptor type 1 mediates social memory deficits in mice produced by adolescent THC exposure and 16p11.2 duplication.

Journal: Nature communications

Status: data only, 1 dataset cited

[32670] doi:10.1038/s41586-023-06630-3 [paper, repository]

Normative spatiotemporal fetal brain maturation with satisfactory development at 2 years.

Journal: Nature

Authors' code: felipemoser/kelluwen (CC-BY-NC-SA-4.0), lindehesse/FetalSubcortSegm_Code (no license)

Status: code verified, 22 files readable

[32671] doi:10.1038/s41586-023-06659-4 [paper, repository]

An ON-type direction-selective ganglion cell in primate retina.

Journal: Nature

Authors' code: doi:10.5061/dryad.47d7wm3kx (no license), Zenodo 10023143 (MIT)

Status: code verified

[32672] doi:10.1038/s41586-023-06671-8 [paper, repository]

Dopaminergic systems create reward seeking despite adverse consequences.

Journal: Nature

Authors' code: satijalab.org/seurat (no license), natverse.org (no license), pypi.org/project/navis (no license)

Status: code verified

[32673] doi:10.1038/s41597-023-02650-w [paper, repository]

A Large Finer-grained Affective Computing EEG Dataset.

Journal: Scientific data

Authors' code: doi:10.7303/syn50614194 (no license)

Status: code verified

[32674] doi:10.1038/s44271-023-00027-8 [paper, repository]

Attractor dynamics with activity-dependent plasticity capture human working memory across time scales.

Journal: Communications psychology

Authors' code: OSF fxwmr (no license)

Status: code verified, 19 files readable

[32675] doi:10.1093/braincomms/fcad292 [paper, repository]

Interictal magnetoencephalography abnormalities to guide intracranial electrode implantation and predict surgical outcome.

Journal: Brain communications

Authors' code: cnnp-lab/Using_MEG_abnormalities_to_guide_intracranial_electrode_implantation (no license)

Status: code verified, 4 files readable

[32676] doi:10.1098/rsos.230755 [paper, repository]

Adult neurogenesis does not explain the extensive post-eclosion growth of <i>Heliconius</i> mushroom bodies.

Journal: Royal Society open science

Authors' code: Zenodo 7821485 (other-open), doi:10.6084/m9.figshare.c.6878007 (no license), mianalysis/mia (GPL-3.0)

Status: code verified, 966 files readable, 1 match

[32677] doi:10.1111/ene.16108 [paper, repository]

Cholinergic basal forebrain system degeneration underlies postural instability/gait difficulty and attention impairment in Parkinson's disease.

Journal: European journal of neurology

Authors' code: markvcid.partners.org/markvcid1-protocols-resources (no license)

Status: code verified

[32678] doi:10.1117/1.nph.10.4.044412 [paper]

Enhanced synaptic protein visualization by multicolor super-resolution expansion microscopy.

Journal: Neurophotonics

Status: code on request

[32679] doi:10.1126/sciadv.adf1332 [paper, repository]

Human cerebrospinal fluid affects chemoradiotherapy sensitivities in tumor cells from patients with glioblastoma.

Journal: Science advances

Authors' code: bardylab/GBM_CSF_Science_Advances_Paper_2023 (no license), doi:10.5061/dryad.p8cz8w9wp (no license)

Status: code verified, 4 files readable, 17 matches

[32680] doi:10.1126/sciadv.adi4038 [paper, repository]

High-throughput single-cell analysis reveals progressive mitochondrial DNA mosaicism throughout life.

Journal: Science advances

Authors' code: lbozhilova/sc-mtdna-mosaicism (no license), Zenodo 8200085 (CC-BY-4.0)

Status: code verified, 16 files readable, 5 matches

[32681] doi:10.1159/000533793 [paper, data]

Long-Term Follow-Up of Unilateral Deep Brain Stimulation Targeting the Caudal Zona Incerta in 13 Patients with Parkinsonian Tremor.

Journal: Stereotactic and functional neurosurgery

Status: data only, 1 dataset cited

[32682] doi:10.1186/s12915-023-01742-8 [paper, data]

Unveiling adcyap1 as a protective factor linking pain and nerve regeneration through single-cell RNA sequencing of rat dorsal root ganglion neurons.

Journal: BMC biology

Status: data only, 1 dataset cited

[32683] doi:10.1186/s13229-023-00572-3 [paper, data]

Translatome analysis of tuberous sclerosis complex 1 patient-derived neural progenitor cells reveals rapamycin-dependent and independent alterations.

Journal: Molecular autism

Status: data only, 7 datasets cited

[32684] doi:10.3389/fnbot.2023.1239581 [paper]

Neurorobotic reinforcement learning for domains with parametrical uncertainty.

Journal: Frontiers in neurorobotics

Status: code on request

[32685] doi:10.3389/fnins.2023.1178473 [paper, repository]

In humans, striato-pallido-thalamic projections are largely segregated by their origin in either the striosome-like or matrix-like compartments.

Journal: Frontiers in neuroscience

Authors' code: jeff-waugh/Striatal-Connectivity-based-Parcellation (no license)

Status: code verified, 17 files readable, 1 match

[32686] doi:10.3389/fnmol.2023.1263369 [paper]

ADAR1 suppression causes interferon signaling and transposable element transcript accumulation in human astrocytes.

Journal: Frontiers in molecular neuroscience

Status: data only

[32687] doi:10.3390/ijms242115559 [paper, data]

Characterisation of GFAP-Expressing Glial Cells in the Dorsal Root Ganglion after Spared Nerve Injury.

Journal: International journal of molecular sciences

Status: data only, 1 dataset cited

[32688] doi:10.3390/s23218722 [paper, repository]

Examining Neural Connectivity in Schizophrenia Using Task-Based EEG: A Graph Theory Approach.

Journal: Sensors (Basel, Switzerland)

Authors' code: OSF dj7rv (no license)

Status: empty repository

[32689] doi:10.3758/s13415-023-01135-y [paper, data]

Looking into troubled waters: Childhood emotional maltreatment modulates neural responses to prolonged gazing into one's own, but not others', eyes.

Journal: Cognitive, affective & behavioral neuroscience

Status: data only, 2 datasets cited

[32690] doi:10.3758/s13428-023-02261-8 [paper, data]

Cloze probability, predictability ratings, and computational estimates for 205 English sentences, aligned with existing EEG and reading time data.

Journal: Behavior research methods

Status: data only, 1 dataset cited

Tuesday, 24 October 2023 (16 papers, 14 on this page)

[32691] doi:10.1007/s12035-023-03692-2 [paper, data]

Downregulation of Ubiquitin-Specific Protease 15 (USP15) Does Not Provide Therapeutic Benefit in Experimental Mesial Temporal Lobe Epilepsy.

Journal: Molecular neurobiology

Status: data only, 2 datasets cited

[32692] doi:10.1016/j.isci.2023.108327 [paper, repository]

CBD lengthens sleep but shortens ripples and leads to intact simple but worse cumulative memory.

Journal: iScience

Authors' code: genzellab/cbd (GPL-3.0), genzellab/sleep_architecture (GPL-3.0), NeuroNetMem/score (GPL-3.0)

Status: code verified, 254 files readable, 14 matches

[32693] doi:10.1016/j.isci.2023.108328 [paper, repository]

Hypothalamic neuronal outputs transmit sensorimotor signals at the onset of locomotor initiation.

Journal: iScience

Authors' code: katemartian/lhoutputsmanuscript (GPL-3.0)

Status: code verified, 19 files readable, 3 matches

[32694] doi:10.1038/s41467-023-42053-4 [paper, repository]

Enhanced brain structure-function tethering in transmodal cortex revealed by high-frequency eigenmodes.

Journal: Nature communications

Authors' code: connectomicslab/connectomemapper3 (BSD-3-Clause), yaqiany/scfccoupling-high (no license), Zenodo 8255376 (other-open), spin-test/spin-test (MIT)

Status: code verified, 253 files readable, 5 matches

[32695] doi:10.1038/s41467-023-42087-8 [paper, data]

The spatiotemporal dynamics of semantic integration in the human brain.

Journal: Nature communications

Status: code on request, 1 dataset cited

[32696] doi:10.1038/s41467-023-42429-6 [paper, repository]

A thalamic-hippocampal CA1 signal for contextual fear memory suppression, extinction, and discrimination.

Journal: Nature communications

Authors' code: hmacomber/NR-Analysis (CC0-1.0), Zenodo 8393380 (other-open)

Status: code verified, 10 files readable, 4 matches

[32697] doi:10.1038/s41598-023-44807-y [paper, data]

Disrupted brain mitochondrial morphology after in vivo hydrogen sulfide exposure.

Journal: Scientific reports

Status: data only, 1 dataset cited

[32698] doi:10.1038/s42003-023-05359-z [paper, repository]

Genomic signatures of convergent shifts to plunge-diving behavior in birds.

Journal: Communications biology

Authors' code: ibest/HTStream (Apache-2.0), Zenodo 8291004 (MIT)

Status: code verified, 59 files readable, 6 matches

[32699] doi:10.1093/braincomms/fcad285 [paper, data]

α-Synuclein expression in response to bacterial ligands and metabolites in gut enteroendocrine cells: an <i>in vitro</i> proof of concept study.

Journal: Brain communications

Status: data only, 1 dataset cited

[32700] doi:10.1186/s12974-023-02923-6 [paper, data]

ASK1-K716R reduces neuroinflammation and white matter injury via preserving blood-brain barrier integrity after traumatic brain injury.

Journal: Journal of neuroinflammation

Status: data only, 1 dataset cited

[32701] doi:10.3389/fnbeh.2023.1213894 [paper, data]

Effects of parental mental health and family environment on impulsivity in preadolescents: a longitudinal ABCD study&lt;sup&gt;®&lt;/sup&gt;.

Journal: Frontiers in behavioral neuroscience

Status: data only, 1 dataset cited

[32702] doi:10.3389/fnins.2023.1222749 [paper, data]

Group analysis and classification of working memory task conditions using electroencephalogram cortical currents during an n-back task.

Journal: Frontiers in neuroscience

Status: data only, 1 dataset cited

[32703] doi:10.3389/fnins.2023.1259742 [paper, data]

Analysis of damage-associated molecular patterns in amyotrophic lateral sclerosis based on ScRNA-seq and bulk RNA-seq data.

Journal: Frontiers in neuroscience

Status: data only, 2 datasets cited

[32704] doi:10.3390/biom13111563 [paper, repository]

A New Approach for Multimodal Usage of Gene Expression and Its Image Representation for the Detection of Alzheimer's Disease.

Journal: Biomolecules

Authors' code: akkayaumit/One2MFusion-MultiModel-AD-Detection (no license)

Status: dead link

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