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netNMF-sc: leveraging gene–gene interactions for imputation and dimensionality reduction in single-cell expression analysis

Genome Research(2020)10.1101/gr.251603.119Source: DataRank Database

netNMF-sc: leveraging gene–gene interactions for imputation and dimensionality reduction in single-cell expression analysis is a research paper published in Genome Research (2020). On theSindex it has a DataRank of 3.5. It has been cited 121 times, with 102 citing works in its 1-hop citation network.

N/A

3.5DataRank · unranked

Scored on demand from live citation data

Open Access121 citations · 102 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 (12 grants)OA: hybridTopics (21)Linked Datasets (16)DataCite Reuse (16)IDs (PubMed, PMC)Annotations (1)

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 20%Citation Network 80%

Base Score Contribution

0.721

From this paper's citation signal

Citation Network Contribution

2.8

From 79 citing papers with measurable signal

Learn more about DataRank methodology →

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 102 citers.

Fast and interpretable non-negative matrix factorization for atlas-scale single cell data
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An optimized graph-based structure for single-cell RNA-seq cell-type classification based on non-linear dimension reduction
BMC Genomics202323 citations30 referencesContributes 0.106
scRecover: Discriminating true and false zeros in single-cell RNA-seq data for imputation
bioRxiv (Cold Spring Harbor Laboratory)201923 citations33 referencesContributes 0.096
scGNN is a novel graph neural network framework for single-cell RNA-Seq analyses
Nature Communications2021472 citations66 referencesContributes 0.093
scGraph: a graph neural network-based approach to automatically identify cell types
Bioinformatics202233 citations40 referencesContributes 0.088

Authors (4)

Bianca Dumitrascu ORCID,Barbara E. Engelhardt ORCID,Benjamin J. Raphael ORCID,Rebecca Elyanow ORCID

Live enrichment

PubMed:31992614 PMC:PMC7050525

Chan Zuckerberg Initiative Donor-Advised Fund

Grant: 2018-182608

Chan Zuckerberg Initiative Donor-Advised Fund

Grant: 1005664

Chan Zuckerberg Initiative Donor-Advised Fund

Grant: 1005667

National Science Foundation

Grant: 1750729

CAREER: Recovering complex associations from high-dimensional genomic data

National Human Genome Research Institute

Grant: R01HL133218

NSF

Grant: CCF-1053753

NIH, NHGRI

Grant: R01HG007069

National Institutes of Health

Grant: 5R01HL133218-03

Epigenetic fine-mapping of cardiometabolic disease loci in the human liver

National Science Foundation

Grant: 1053753

CAREER: Algorithms for Next-Generation Genomics

National Institutes of Health

Grant: 7R01HG007069-04

Computational Characterization of Genetic Heterogeneity

Silicon Valley Community Foundation

National Institutes of Health (NIH),

hybridLicense: CC BY NC

publisherhttps://syndication.highwire.org/content/doi/10.1101/gr.251603.119

Unpaywallhttps://genome.cshlp.org/content/30/2/195.full.pdf

Europe_PMChttps://europepmc.org/articles/PMC7050525

Europe_PMChttps://europepmc.org/articles/PMC7050525?pdf=render

https://doi.org/10.1101/544346

Fields of Study

0301 basic medicine03 medical and health sciences0206 medical engineering02 engineering and technology

MeSH Terms

HumansCluster AnalysisGene Expression ProfilingEpistasis, GeneticSoftwareSingle-Cell AnalysisRNA-SeqExome Sequencing

Keywords

Gene Expression ProfilingExome SequencingMethodCluster AnalysisHumansEpistasis, GeneticRNA-SeqSingle-Cell AnalysisSoftware

Additional file 2 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551945.v1figshare

Additional file 2 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551945figshare

Additional file 3 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551948.v1figshare

Additional file 3 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551948figshare

Additional file 6 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551957.v1figshare

Additional file 6 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551957figshare

Additional file 8 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551966figshare

Additional file 8 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551966.v1figshare

Additional file 5 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551954figshare

Additional file 1 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551942.v1figshare

Additional file 4 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551951figshare

Additional file 7 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551960.v1figshare

Additional file 7 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551960figshare

Additional file 4 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551951.v1figshare

Additional file 1 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551942figshare

Additional file 5 of A Poisson reduced-rank regression model for association mapping in sequencing data

10.6084/m9.figshare.26551954.v1figshare

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netNMF-sc: leveraging gene–gene interactions for imputation and dimensionality reduction in single-cell expression analysis

FAIR Checklist

DataRank Breakdown

Top 5 citers driving the network score

Authors (4)

Funding (12 grants)

Open Access

Topics

Linked Datasets (16)

Annotations (Europe PMC)

Related Papers (10)