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Systematic evaluation of chromosome conformation capture assays

Nature Methods(2021)10.1038/s41592-021-01248-7Source: DataRank Database

Systematic evaluation of chromosome conformation capture assays is a research paper published in Nature Methods (2021). On theSindex it has a DataRank of 4.8. It has been cited 274 times, with 200 citing works in its 1-hop citation network.

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4.8DataRank · unranked

Scored on demand from live citation data

Open Access274 citations · 200 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: hybridTopics (28)Linked Datasets (25)DataCite Reuse (25)IDs (PubMed, PMC)

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 18%Citation Network 82%

Base Score Contribution

0.843

From this paper's citation signal

Citation Network Contribution

4.0

From 161 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 200 citers.

HiBrowser: an interactive and dynamic browser for synchronous Hi-C data visualization
Briefings in Bioinformatics20236 citations16 referencesContributes 0.122
SARS-CoV-2 Restructures the Host Chromatin Architecture
bioRxiv (Cold Spring Harbor Laboratory)202127 citations36 referencesContributes 0.093
HiCuT: An efficient and low input method to identify protein-directed chromatin interactions
PLoS Genetics202233 citations39 referencesContributes 0.090
Region Capture Micro-C reveals coalescence of enhancers and promoters into nested microcompartments
Nature Genetics2023254 citations63 referencesContributes 0.088
Engineered model of t(7;12)(q36;p13) AML recapitulates patient-specific features and gene expression profiles
Oncogenesis202214 citations31 referencesContributes 0.087

Authors (16)

Liyan Yang ORCID,Sameer Abraham ORCID,Sergey V. Venev ORCID,Nils Krietenstein ORCID,Krishna Mohan Parsi ORCID

Live enrichment

PubMed:34480151 PMC:PMC8446342

U.S. Department of Health & Human Services | NIH | Center for Information Technology

Grant: HG003143

U.S. Department of Health & Human Services | NIH | Center for Information Technology

Grant: DK107980

Human Frontier Science Program

Grant: LT000631/2017-L

NIDDK NIH HHS

Grant: U54 DK107980

NHGRI NIH HHS

Grant: UM1 HG011536

NHGRI NIH HHS

Grant: R01 HG003143

National Institutes of Health

Grant: 5R01HG003143-13

Structural Annotation of the Human Genome

National Institutes of Health

Grant: 5UM1HG011536-03

Center for 3D Structure and Physics of the Genome

National Institutes of Health

Grant: 3U54DK107980-04S1

Center for 3D Structure and Physics of the Genome

Howard Hughes Medical Institute

hybridLicense: cc-by

publisherhttps://www.nature.com/articles/s41592-021-01248-7.pdf

publisherhttps://www.nature.com/articles/s41592-021-01248-7

repositoryhttps://escholarship.umassmed.edu/cgi/viewcontent.cgi?article=2895&context=faculty_pubs

repositoryhttps://www.ncbi.nlm.nih.gov/pmc/articles/8446342

Europe_PMChttps://europepmc.org/articles/PMC8446342

Fields of Study

0301 basic medicine0303 health sciences03 medical and health sciences

MeSH Terms

Cell LineChromosomes, HumanChromatinHumansCross-Linking ReagentsGenetic TechniquesDatabases, FactualHuman Embryonic Stem Cells

Keywords

570Databases, FactualHuman Embryonic Stem CellsBiophysicsGenetics and GenomicsGenomicsBiochemistryChromatin004Cell LineGenomic analysisCross-Linking ReagentsGenetic Techniquesand Structural BiologyChromosomes, HumanHumansAnalysis

Additional file 1 of Identifying quantitatively differential chromosomal compartmentalization changes and their biological significance from Hi-C data using DARIC

10.6084/m9.figshare.24309953.v1figshare

Additional file 1 of Identifying quantitatively differential chromosomal compartmentalization changes and their biological significance from Hi-C data using DARIC

10.6084/m9.figshare.24309953figshare

Additional file 2 of Identifying quantitatively differential chromosomal compartmentalization changes and their biological significance from Hi-C data using DARIC

10.6084/m9.figshare.24310003.v1figshare

Additional file 2 of Identifying quantitatively differential chromosomal compartmentalization changes and their biological significance from Hi-C data using DARIC

10.6084/m9.figshare.24310003figshare

Additional file 1 of Expanding the list of sequence-agnostic enzymes for chromatin conformation capture assays with S1 nuclease

10.6084/m9.figshare.26651745.v1figshare

Additional file 1 of Expanding the list of sequence-agnostic enzymes for chromatin conformation capture assays with S1 nuclease

10.6084/m9.figshare.26651745figshare

Additional file 1 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735595.v1figshare

Additional file 1 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735595figshare

Additional file 2 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735598.v1figshare

Additional file 2 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735598figshare

Additional file 3 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735601.v1figshare

Additional file 3 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735601figshare

Additional file 4 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735604.v1figshare

Additional file 4 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735604figshare

Additional file 5 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735607.v1figshare

Additional file 5 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735607figshare

Additional file 6 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735610.v1figshare

Additional file 6 of Reprogramming of 3D genome structure underlying HSPC development in zebrafish

10.6084/m9.figshare.26735610figshare

Additional file 3 of Identifying quantitatively differential chromosomal compartmentalization changes and their biological significance from Hi-C data using DARIC

10.6084/m9.figshare.26626546.v1figshare

Additional file 3 of Identifying quantitatively differential chromosomal compartmentalization changes and their biological significance from Hi-C data using DARIC

10.6084/m9.figshare.26626546figshare