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Define and visualize pathological architectures of human tissues from spatially resolved transcriptomics using deep learning

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.08.451210Source: DataRank Database

Define and visualize pathological architectures of human tissues from spatially resolved transcriptomics using deep learning is a research paper published in bioRxiv (Cold Spring Harbor Laboratory) (2021). On theSindex it has a DataRank of 0.742. It has been cited 12 times, with 11 citing works in its 1-hop citation network.

N/A

0.742DataRank · unranked

Scored on demand from live citation data

Open Access12 citations · 11 citing works in its network

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›Methodology & internals

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Pipeline:MetadataData-paper checkEnrichmentCitation networkScoring

Enrichment:Funding (10 grants)OA: greenTopics (10)IDs (PubMed)SDGs (1)

FAIR Checklist

Context only (not used in score)

Findable (1/2)

Has DOI

Accessible (1/2)

Open Access

Interoperable (0/2)

Reusable (0/3)

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DataRank Breakdown

Base Score 52%Citation Network 48%

Base Score Contribution

0.385

From this paper's citation signal

Citation Network Contribution

0.357

From 9 citing papers with measurable signal

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Top 5 citers driving the network score

Ranked by each citer's contribution to N(p) — log1p(C_q) divided by its reference count — out of 11 citers.

Deciphering spatial domains from spatially resolved transcriptomics with an adaptive graph attention auto-encoder
Nature Communications2022730 citations45 referencesContributes 0.147
Identifying multicellular spatiotemporal organization of cells with SpaceFlow
Nature Communications2022238 citations75 referencesContributes 0.073
Spatial transcriptomics prediction from histology jointly through Transformer and graph neural networks
Briefings in Bioinformatics2022206 citations81 referencesContributes 0.066
Spatial omics: Navigating to the golden era of cancer research
Clinical and Translational Medicine2022134 citations165 referencesContributes 0.030
Novel insights from spatial transcriptome analysis in solid tumors
International Journal of Biological Sciences202324 citations109 referencesContributes 0.030

Authors (19)

Fei He ORCID,Juexin Wang ORCID,Shuo Chen ORCID,Jingyi Li ORCID,Jixin Liu ORCID

Live enrichment

PubMed:19965766

National Institutes of Health

Grant: 3P30AG066462-01S1

Alzheimer's Disease Research Center Determinants of health seeking behaviors during COVID-19 in persons with MCI/ADRD and their caregivers

National Institutes of Health

Grant: 1R56AG066782-01

The role of ectodermal-neural cortex 1 in selective neuronal vulnerability in aging and Alzheimer's disease

National Institutes of Health

Grant: 7R01GM131399-02

Construction of cell specific gene co-regulations signatures based on single cell transcriptomics analysis

National Institutes of Health

Grant: 3P50AG008702-11A1S1

GENES, AGING, LEARNING AND DEMENTIA

National Institutes of Health

Grant: 2P30AG019610-11

Education and Information Transfer Core

National Institutes of Health

Grant: 1U54AG075931-01

TriState SenNET (Lung and Heart) Tissue Map and Atlas consortium

National Institutes of Health

Grant: 1K01AG056673-01

Investigating the vulnerability of WFS1-expressing excitatory neurons to tau pathology in early Alzheimer's disease.

National Institutes of Health

Grant: 5U24NS072026-03

National Brain and Tissue Resource for Parkinson's Disease and Related Disorders

National Science Foundation

Grant: 1945971

EAGER: IIBR Informatics: A reinforced imputation framework for accurate gene expression recovery from single-cell RNA-seq data

National Institutes of Health

Grant: 5R35GM126985-04

Interpretable and extendable deep learning model for biological sequence analysis and prediction

greenLicense: cc-by-nc-nd

repositoryhttps://www.biorxiv.org/content/biorxiv/early/2021/07/16/2021.07.08.451210.full.pdf

publisherhttps://syndication.highwire.org/content/doi/10.1101/2021.07.08.451210

https://doi.org/10.1101/2021.07.08.451210

https://doi.org/10.1016/j.csbj.2022.08.029

https://pubmed.ncbi.nlm.nih.gov/36090815

Fields of Study

0301 basic medicine03 medical and health sciences

Keywords

570Spatial transcriptomics610Deep learningTissue architecture visualization and identificationTP248.13-248.65BiotechnologyResearch Article

Sustainable Development Goals

SDG 3: 3. Good health

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