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A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

Genome Biology(2025)10.1186/s13059-025-03499-5Source: DataRank Database

A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients is a research paper published in Genome Biology (2025). On theSindex it has a DataRank of 0.363. It has been cited 7 times, with 6 citing works in its 1-hop citation network.

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0.363DataRank · unranked

Scored on demand from live citation data

Open Access7 citations · 6 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 (27 grants)Impact (FWCI 2.29)OA: goldTopics (64)Linked Datasets (8)DataCite Reuse (8)IDs (PubMed, PMC, OpenAlex)Annotations (2)

FAIR Checklist

Context only (not used in score)

Findable (2/2)

Has DOI
Indexed in repositories

Accessible (1/2)

Open Access

Interoperable (2/2)

DataCite relations
Linked datasets

Reusable (0/3)

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DataRank Breakdown

Base Score 86%Citation Network 14%

Base Score Contribution

0.312

From this paper's citation signal

Citation Network Contribution

0.0510

From 5 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 6 citers.

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Spatial architecture of development and disease
Nature Reviews Genetics202513 citations263 referencesContributes 0.010
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bioRxiv (Cold Spring Harbor Laboratory)20241 citations115 referencesContributes 0.006
Advanced omics approaches in liver transplant settings: current applications and future prospectives
Frontiers in Immunology20251 citations169 referencesContributes 0.004

Authors (75)

Dimitra Karagkouni ORCID,Nikolaos Kalavros ORCID,Johannes C. Melms ORCID,Sebastian Niezen ORCID,Toni Marie Delorey ORCID

Live enrichment

PubMed:40087773 PMC:PMC11907808 OpenAlex:https://openalex.org/W4408457120

U.S. Food and Drug Administration

Grant: HHSF223201810172C

Bill and Melinda Gates Foundation

Grant: INV-027498

National Cancer Institute

Grant: R01 CA258776

National Cancer Institute

Grant: R01 HL129506-07

National Blood Clot Alliance

Grant: PR200524P1

Office of Research Infrastructure Programs, National Institutes of Health

Grant: Massachusetts Life Sciences Center

National Cancer Institute

Grant: K08CA222663

National Cancer Institute

Grant: R37CA258829

National Cancer Institute

Grant: R21CA263381

National Cancer Institute

Grant: U54CA225088

NIH Support Grant

Grant: S10RR027050

National Cancer Institute

Grant: P30CA013696

NIDDK NIH HHS

Grant: R01 DK139288

NIDDK NIH HHS

Grant: P30 DK046200

NIAAA NIH HHS

Grant: R01 AA030770

NIDDK NIH HHS

Grant: P30 DK135043

NHLBI NIH HHS

Grant: U54 HL165440

National Institutes of Health

Grant: 1R01CA258776-01A1

Pan-Cancer characterization of 3’UTR somatic mutations controlling tumor immune evasion

National Institutes of Health

Grant: 7R01HL129506-06

Immune privilege of the hematopoieitic stem cell niche

National Institutes of Health

Grant: 7K08CA222663-04

Dissecting mechanisms of immunotherapy resistance in melanoma patients

National Institutes of Health

Grant: 5U54CA225088-05

Systems Pharmacology of Therapeutic and Adverse Responses to ImmuneCheckpoint and Small Molecule Drugs

National Institutes of Health

Grant: 3P30CA013696-21S1

CANCER CENTER CORE SUPPORT GRANT

National Institutes of Health

Grant: 1S10RR013039-01

MICROPLATE SCINTILLATION/LUMINESCENCE/FLOUR COUNTER

National Institutes of Health

Grant: 5R37CA258829-04

Mechanisms of liver metastasis and associated resistance to immunotherapy

National Institutes of Health

Grant: 1R21CA263381-01

Dissecting drug resistance in serial uveal melanoma biopsies using integrated, multi-modal single-cell profiling and novel machine learning tools.

National Institutes of Health

Grant: 1S10RR027050-01A1

Becton Dickinson LSR II Analytical Flow Cytometer

National Institutes of Health

Grant: 5U54HL165440-03

Multi-scale Spatial Mapping of Human Lymphatic Vessels

FWCI

2.29

Citation Percentile

0.9%

Citation Trend

2024

2025

2026

goldLicense: cc-by

journalhttps://doi.org/10.1186/s13059-025-03499-5

publisherhttps://doi.org/10.1186/s13059-025-03499-5

publisherhttps://link.springer.com/content/pdf/10.1186/s13059-025-03499-5.pdf

publisherhttps://link.springer.com/article/10.1186/s13059-025-03499-5/fulltext.html

repositoryhttps://pubmed.ncbi.nlm.nih.gov/40087773

Fields of Study

Single-cell and spatial transcriptomicsCOVID-19 Clinical Research StudiesImmune responses and vaccinations0303 health sciences03 medical and health sciencesHumansCOVID-19LiverTranscriptomeSARS-CoV-2Single-Cell AnalysisMaleHepatocytesFemaleGene Expression ProfilingMiddle AgedAged

MeSH Terms

COVID-19SARS-CoV-2AgedFemaleHumansKupffer CellsLiverMaleMiddle AgedGene Expression ProfilingHepatocytesSingle-Cell AnalysisTranscriptome

Keywords

BiologyTranscriptomePhenotypeProgenitor cellCell biologyCellContext (archaeology)NecroptosisGene expression profilingCell typePathologyStem cellGene expressionProgrammed cell deathGeneGeneticsMedicineLiverSingle-cell SequencingSpatial TranscriptomicsSingle-nucleus SequencingCovid-19Sars-cov-2MaleQH301-705.5ResearchQH426-470Middle AgedHepatocytesHumansFemaleBiology (General)Single-Cell AnalysisAged

Additional file 2 of A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

10.6084/m9.figshare.28600377.v1figshare

Additional file 2 of A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

10.6084/m9.figshare.28600377figshare

Additional file 3 of A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

10.6084/m9.figshare.28600383.v1figshare

Additional file 3 of A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

10.6084/m9.figshare.28600383figshare

Additional file 4 of A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

10.6084/m9.figshare.28600386.v1figshare

Additional file 4 of A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

10.6084/m9.figshare.28600386figshare

Additional file 1 of A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

10.6084/m9.figshare.28600371.v1figshare

Additional file 1 of A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

10.6084/m9.figshare.28600371figshare