An integrated map of structural variation in 2,504 human genomes is a dataset published in Nature (2015). On theSindex it has a DataRank of 9.1, placing it in the top 1.6% of the data-sharing corpus. It has been cited 2,686 times, with 100 citing works in its 1-hop citation network. Its calibrated FAIR score is 54/100.
Ranks in the top 2% for downstream scientific impact
Linked data & code
DataRank reads this dataset's downstream impact straight off the citation graph — no black box, no proprietary weighting. How is this computed?
FAIR checklist signals are shown for context only and do not affect DataRank scoring.
Full FAIR picture · advisory
The headline score is computed from the scored criteria — the fact-shaped checks (a repository, an accession, a licence) that two independent models agree on. The advisory criteria below are real FAIR guidance but rest on judgment calls that models read differently, so they inform without moving the number.
“Data deposits Sequencing data, archive accessions and supporting datasets including GRCh37 variant call files comprising the extended SV Analysis Group release set, a ‘readme’ describing differences to the phase 3 marker paper variant release 16 , and a GRCh38 version of our callset, are available at http://www.1000genomes.org/phase-3-structural-variant-dataset . DGV archive accession: estd219.”
The strongest identifier is a web URL (http://www.1000genomes.org/phase-3-structural-variant-dataset) which is not a persistent identifier scheme; the DGV accession is not in the accepted PID list. [majority verdict 'partial' (4/5 passes agreed)]
RDA-F1-01D — FAIR Data Maturity Model: 'Data is identified by a persistent identifier' (priorit · RDA-F1-02D — FAIR Data Maturity Model: 'Data is identified by a globally unique identifier' · FsF-F1-02D — F-UJI/FAIRsFAIR: 'Data is assigned a persistent identifier'
“Data deposits Sequencing data, archive accessions and supporting datasets including GRCh37 variant call files comprising the extended SV Analysis Group release set, a ‘readme’ describing differences to the phase 3 marker paper variant release 16 , and a GRCh38 version of our callset, are available at http://www.1000genomes.org/phase-3-structural-variant-dataset . DGV archive accession: estd219.”
The paper names DGV (Database of Genomic Variants) as the archive repository, which is a recognised curated repository.
RDA-F4-01M — FAIR Data Maturity Model: metadata is offered so it can be harvested and indexed ( · NIH DMS Policy Element 4 (NOT-OD-21-014) — name the repository where data will be archived · NSTC Desirable Characteristics of Data Repositories (2022) — 'Long-Term Sustainability', 'Reten
“Data deposits Sequencing data, archive accessions and supporting datasets including GRCh37 variant call files comprising the extended SV Analysis Group release set, a ‘readme’ describing differences to the phase 3 marker paper variant release 16 , and a GRCh38 version of our callset, are available at http://www.1000genomes.org/phase-3-structural-variant-dataset . DGV archive accession: estd219.”
The dataset identifier (DGV accession and URL) appears only in the body text, not as a reference-list entry.
FORCE11 Joint Declaration of Data Citation Principles (2014) — data should be cited as a first- · RDA-F3-01M — metadata clearly and explicitly includes the identifier of the data it describes · FsF-F3-01M — F-UJI: 'Metadata includes the identifier of the data it describes'
Advisory · not in the published score
“Data deposits Sequencing data, archive accessions and supporting datasets including GRCh37 variant call files comprising the extended SV Analysis Group release set, a ‘readme’ describing differences to the phase 3 marker paper variant release 16 , and a GRCh38 version of our callset, are available at http://www.1000genomes.org/phase-3-structural-variant-dataset . DGV archive accession: estd219.”
The statement points to a repository record (DGV accession) and a URL, matching Colavizza category 3.
Colavizza, Hrynaszkiewicz, Staden, Whitaker & McGillivray (2020), 'The citation advantage of li · Springer Nature research data policy — Data Availability Statements: standard statement templat · RDA-F3-01M — metadata clearly and explicitly includes the identifier of the data it describes
“Table 1 Phase 3 extended SV release”
The paper contains an itemised inventory of the dataset in Table 1, which lists SV classes, counts, and sizes.
RDA-F2-01M — 'Rich metadata is provided to allow discovery' (priority Essential) · FsF-F2-01M — F-UJI: 'Metadata includes descriptive core elements to support data findability' · FsF-R1-01MD — F-UJI: 'Metadata specifies the content of the data'
“Data deposits Sequencing data, archive accessions and supporting datasets including GRCh37 variant call files comprising the extended SV Analysis Group release set, a ‘readme’ describing differences to the phase 3 marker paper variant release 16 , and a GRCh38 version of our callset, are available at http://www.1000genomes.org/phase-3-structural-variant-dataset . DGV archive accession: estd219.”
The text gives a direct route to the data with no stated precondition; the data are publicly available.
RDA-A1.1-01D — 'Data is accessible through a free access protocol' · FsF-A1-01M — F-UJI: 'Metadata contains access level and access conditions of the data' · NSTC Desirable Characteristics of Data Repositories (2022) — 'Free and Easy Access'
Advisory · not in the published score
“Data deposits Sequencing data, archive accessions and supporting datasets including GRCh37 variant call files comprising the extended SV Analysis Group release set, a ‘readme’ describing differences to the phase 3 marker paper variant release 16 , and a GRCh38 version of our callset, are available at http://www.1000genomes.org/phase-3-structural-variant-dataset . DGV archive accession: estd219.”
The paper describes the action of accessing the data via URL and accession but does not use an explicit access-level label like 'open access'.
FsF-A1-01M — F-UJI: 'Metadata contains access level and access conditions of the data' · RDA-A1-01M — metadata contains information to enable the user to get access to the data · COAR Controlled Vocabularies — Access Rights v1.0 (open / embargoed / restricted / metadata-onl
The data are human-subject but are stated to be publicly available with no named gatekeeper; no gatekeeper clause exists.
NIH Genomic Data Sharing Policy (NOT-OD-14-124) — controlled-access via a Data Access Committee · RDA-A1.2-01D — 'Data is accessible through an access protocol that supports authentication and · NIH DMS Policy Element 5 (NOT-OD-21-014) — Access, Distribution, or Reuse Considerations (conse
No sentence states when the data become available or how long they persist; no temporal commitment is made. [majority verdict 'no' (4/5 passes agreed)]
NIH DMS Plan Element 4 (NOT-OD-21-014) — Data Preservation, Access, and Associated Timelines · NSTC Desirable Characteristics (2022), Organizational Infrastructure: 'Retention Policy' · RDA-A2-01M — 'Metadata is guaranteed to remain available after data is no longer available'
No specific file format token (e.g., VCF, BAM) is named for the released data; 'variant call files' is a generic description.
FsF-R1.3-02D — F-UJI: 'Data is available in a file format recommended by the target research co · RDA-R1.3-02D — data is expressed in a machine-understandable community standard · RDA-I1-01D — data uses a knowledge representation expressed in a standardised format
Advisory · not in the published score
No data/metadata community standard (e.g., MIAME, BIDS, ontology) is named; the reference assembly GRCh37 is a reference genome, not a data standard.
RDA-R1.3-01M — 'Metadata complies with a community standard' (priority Essential) · RDA-R1.3-01D — 'Data complies with a community standard' · RDA-I2-01M — '(Meta)data use vocabularies that follow FAIR principles'
No identifier (accession, DOI, RRID) is given for any external resource that the data depend on. [majority verdict 'no' (4/5 passes agreed)]
RDA-I3-01M — '(meta)data include references to other (meta)data' · RDA-I3-03M — 'metadata includes qualified references to other metadata' · FsF-I3-01M — F-UJI: 'Metadata includes links between the data and its related entities'
No license is explicitly attached to the data; the Creative Commons license applies to the article, not the dataset. [majority verdict 'no' (4/5 passes agreed)]
RDA-R1.1-01M — 'Metadata includes information about the licence under which the data can be reu · RDA-R1.1-02M — 'Metadata refers to a standard reuse licence' · RDA-R1.1-03M — 'Metadata refers to a machine-understandable reuse licence'
“1000 Genomes Project phase 3 whole-genome sequencing (WGS) data”
The paper uses 'phase 3' as a version token to identify the snapshot of the data. [majority verdict 'yes' (4/5 passes agreed)]
DataCite Metadata Schema 4.6 — the 'Version' property · RDA-R1.2-01M — provenance information (which version was used is provenance) · NSTC Desirable Characteristics of Data Repositories (2022) — 'Provenance', 'Retention Policy'
No code repository or locator is mentioned; only third-party tools are named.
NIH DMS Policy Element 2 (NOT-OD-21-014) — 'Related Tools, Software and/or Code' · FAIR4RS Principles v1.0 (Chue Hong et al., 2022; RDA/FORCE11/ReSA) — FAIR Principles for Resear · FORCE11 Software Citation Principles (Smith, Katz & Niemeyer, 2016, PeerJ CS 2:e86)
“Funding for this research project came from the following grants: NIH U41HG007497 (to C.L., E.E.E., J.O.K., M.A.B., M.G., S.A.M., R.E.M. and J.S.), RO1GM59290 (M.A.B.), R01HG002898 (S.E.D.) and R01CA166661 (S.E.D.), P01HG007497 (to E.E.E.), R01HG007068 (to R.E.M.), RR19895 and RR029676-01 (to M.B.G.), Wellcome Trust WT085532/Z/08/Z and WT104947/Z/14/Z (to P.F.), an Emmy Noether Grant from the German Research Foundation (KO4037/1-1, to J.O.K.) and the European Molecular Biology Laboratory.”
The paper lists specific grant numbers (e.g., NIH U41HG007497) attached to named funders. [majority verdict 'yes' (4/5 passes agreed)]
DataCite Metadata Schema 4.6 — 'FundingReference' property (funderName, funderIdentifier, award · Crossref Funder Registry — canonical funder identifiers for funding metadata · RDA-F2-01M — rich metadata provided to allow discovery (funding is part of the descriptive reco
Advisory · not in the published score
“using two independent mapping algorithms—BWA and mrsFAST—and performed SV discovery and genotyping using an ensemble of nine different algorithms”— not found in the paper; verdict downgraded
The text names specific tools and algorithms (BWA, mrsFAST) used to produce the data. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (4/5 passes agreed)]
RDA-R1.2-01M — 'Metadata includes provenance information according to community- specific standa · FsF-R1.2-01M — F-UJI: 'Metadata includes provenance information about data creation or generati · W3C PROV-O (W3C Recommendation, 2013) — the entity/activity/agent model of provenance
“a ‘readme’ describing differences to the phase 3 marker paper variant release”
A documentation object (readme) is named as accompanying the data deposit.
RDA-R1-01M — '(Meta)data are richly described with a plurality of accurate and relevant attribu · FsF-R1-01MD — F-UJI: 'Metadata specifies the content of the data' · NIH DMS Policy Element 3 (NOT-OD-21-014) — Standards (documentation and metadata to accompany t
Calibrated FAIR score — a parallel quality metric, independent of the DataRank citation score. See the full evaluation →
Base Score Contribution
1.2
From this paper's citation signal
Citation Network Contribution
7.9
From 100 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 100 citers.
NHGRI NIH HHS
Grant: P01HG007497
NHGRI NIH HHS
Grant: U41HG007497
NHGRI NIH HHS
Grant: R01HG007068
Wellcome Trust
Grant: WT085532/Z/08/Z
Wellcome Trust
Grant: WT104947/Z/14/Z
Wellcome Trust
Grant: 104947
The International Genome Sample Resource.
NCI NIH HHS
Grant: R01CA166661
NIGMS NIH HHS
Grant: R01GM59290
NHGRI NIH HHS
Grant: U24 HG007497
NCRR NIH HHS
Grant: S10 RR019895
NIGMS NIH HHS
Grant: R01 GM059290
NHGRI NIH HHS
Grant: R01 HG002898
NCRR NIH HHS
Grant: S10 RR029676
Wellcome Trust
Grant: 085532
Trace Archive and 1KG DCC.
NCRR NIH HHS
Grant: RR029676-01
NCRR NIH HHS
Grant: RR19895
National Institutes of Health
Grant: 3U41HG007497-04S1
An Integrative Analysis of Structural Variation for the 1000 Genomes Project
National Institutes of Health
Grant: 4R01CA166661-05
Natural mutagenesis of human genomes by endogenous retrotransposons
National Institutes of Health
Grant: 5R01HG002898-03
Natural genetic variation in the human genome
National Institutes of Health
Grant: 1R01HG007068-01A1
Discovery and analysis of structural variation in whole genome sequences
FWCI
151.41
Citation Percentile
1.0%
Citation Trend
Fields of Study
MeSH Terms
Keywords
Sustainable Development Goals
Additional file 2 of Placenta mediates the effect of maternal hypertension polygenic score on offspring birth weight: a study of birth cohort with fetal growth velocity data
Additional file 2 of Placenta mediates the effect of maternal hypertension polygenic score on offspring birth weight: a study of birth cohort with fetal growth velocity data
Additional file 2 of Copy number variation in human genomes from three major ethno-linguistic groups in Africa
Additional file 2 of Copy number variation in human genomes from three major ethno-linguistic groups in Africa
Additional file 1 of Knowledge-based analyses reveal new candidate genes associated with risk of hepatitis B virus related hepatocellular carcinoma
Additional file 1 of Knowledge-based analyses reveal new candidate genes associated with risk of hepatitis B virus related hepatocellular carcinoma
Additional file 1 of A pipeline for complete characterization of complex germline rearrangements from long DNA reads
Additional file 1 of A pipeline for complete characterization of complex germline rearrangements from long DNA reads
Additional file 1 of Long-read-based human genomic structural variation detection with cuteSV
Additional file 1 of Long-read-based human genomic structural variation detection with cuteSV
Additional file 2 of Long-read-based human genomic structural variation detection with cuteSV
Additional file 2 of Long-read-based human genomic structural variation detection with cuteSV
Additional file 2 of An integrated peach genome structural variation map uncovers genes associated with fruit traits
Additional file 2 of An integrated peach genome structural variation map uncovers genes associated with fruit traits
Additional file 3 of An integrated peach genome structural variation map uncovers genes associated with fruit traits
Additional file 3 of An integrated peach genome structural variation map uncovers genes associated with fruit traits
Additional file 1 of Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel
Additional file 1 of Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel
Additional file 3 of Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel
Additional file 3 of Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel