The UCSC Genome Browser database: 2025 update is a dataset published in Nucleic Acids Research (2024). On theSindex it has a DataRank of 3.5, placing it in the top 6.4% of the data-sharing corpus. It has been cited 588 times, with 100 citing works in its 1-hop citation network. Its calibrated FAIR score is 10/100.
Ranks in the top 6% for downstream scientific impact
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.
“All users can use the UCSC Genome Browser (https://genome.ucsc.edu/) freely”— not found in the paper; verdict downgraded
The paper gives a web address (https://genome.ucsc.edu) for the data, not a persistent identifier scheme. [downgraded to 'no' — no verifiable quote from the paper]
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'
“The UCSC Genome Browser (https://genome.ucsc.edu) is a widely utilized web-based tool for visualization and analysis of genomic data”— not found in the paper; verdict downgraded
The holder is the UCSC Genome Browser itself, which is not a repository listed in re3data/FAIRsharing. [downgraded to 'no' — no verifiable quote from the paper]
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
“All users can use the UCSC Genome Browser (https://genome.ucsc.edu/) freely”— not found in the paper; verdict downgraded
The dataset's URL appears only in the body text, not as a reference-list entry. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (4/5 passes agreed)]
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
“All users can use the UCSC Genome Browser (https://genome.ucsc.edu/) freely but with exceptions to the source code for the Blat utility, liftOver utility and other utilities which are free for non-profit academic research and for personal use.”— not found in the paper; verdict downgraded
The statement points to a website rather than a repository record with an accession. [downgraded to 'no' — no verifiable quote from the paper]
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
“The UCSC Genome Browser (https://genome.ucsc.edu) is a widely utilized web-based tool for visualization and analysis of genomic data, encompassing over 4000 assemblies from diverse organisms.”— not found in the paper; verdict downgraded
The dataset's scope is described in running prose, without an itemised inventory. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (3/5 passes agreed)]
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'
“All users can use the UCSC Genome Browser (https://genome.ucsc.edu/) freely but with exceptions to the source code for the Blat utility, liftOver utility and other utilities which are free for non-profit academic research and for personal use.”— not found in the paper; verdict downgraded
The data (the database) are stated to be freely usable without any precondition such as registration or embargo. [downgraded to 'partial' — no verifiable quote from the paper]
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
“All users can use the UCSC Genome Browser freely”— not found in the paper; verdict downgraded
The paper labels the data as 'freely' available in the data availability statement. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (4/5 passes agreed)]
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 paper does not mention any sensitive or human-subject data, and no gatekeeper is named.
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
The paper states neither a retention period nor an availability timing for the data.
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 file format token for the released data is named anywhere in the text.
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
“A RefSeq Historical track has been added for the hg38 assembly, enabling the search of previous RefSeq transcript versions, including NM_ accessions and HGVS searches.”— not found in the paper; verdict downgraded
HGVS is a community standard for variant nomenclature applied to the data. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (2/5 passes agreed)]
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'
The paper references external resources with identifiers, such as the gnomAD dataset and GRCh38 assembly. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (3/5 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 licence is named for the data; the CC BY licence applies only to the article.
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'
The paper does not provide a version token for the entire database; only track versions are mentioned. [majority verdict 'no' (2/5 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'
“All users can use the UCSC Genome Browser (https://genome.ucsc.edu/) freely but with exceptions to the source code for the Blat utility, liftOver utility and other utilities which are free for non-profit academic research and for personal use.”— not found in the paper; verdict downgraded
The paper mentions the source code but does not provide a machine-resolvable locator (e.g., repository URL or DOI).
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)
“National Human Genome Research Institute [U24HG002371 to G.P., G.P.B., J.C., H.C., M.D., C.F., J.N.G., A.S.H., C.M.L., L.R.N., B.J.R., M.L.S., M.J.v., C.J.V., D.H., W.J.K., M.H., U41HG010972 to B.J.R., M.H., U24HG007234 to M.D., R01HG010329 to M.D., D.H., R01HG010485 to M.D., D.H., U41HG010972 to B.J.R., D.H., RM1HG011543 to D.H.]”— not found in the paper; verdict downgraded
Multiple award/grant numbers are given with named funders. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (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
The paper does not name specific instruments or software used to generate the data. [majority verdict 'no' (2/5 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
No documentation object (README, codebook) is named as accompanying the data.
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
0.957
From this paper's citation signal
Citation Network Contribution
2.5
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.
National Human Genome Research Institute
Grant: U24HG002371
National Human Genome Research Institute
Grant: U41HG010972
National Human Genome Research Institute
Grant: U24HG007234
National Human Genome Research Institute
Grant: R01HG010329
National Human Genome Research Institute
Grant: R01HG010485
National Human Genome Research Institute
Grant: RM1HG011543
National Institute of Mental Health
Grant: R01MH120295
National Institute of Mental Health
Grant: RF1MH132662
National Institute of Mental Health
Grant: U24MH132628
NIH Office of the Director
Grant: OT2OD033761
California Department of Public Health
Grant: 20-11088
California Institute for Regenerative Medicine
Grant: DISC0-14514
Centers for Disease Control and Prevention
Grant: 75D30121C11554
U.S. Department of Health and Human Services
Grant: 6NU50CK000539-02-11
NCEZID CDC HHS
Grant: U01 CK000539
NHGRI NIH HHS
Grant: U41 HG007234
National Institutes of Health
Grant: 1R01MH120295-01A1
Dissecting the role of NOTCH2NL genes in human brain development and neurological disorders associated with chromosome 1q21.1 distal duplications and deletions.
National Institutes of Health
Grant: 1OT2OD033761-01
Computational tools for uniform processing and integration of human reference atlas data [2 of 5]
National Institutes of Health
Grant: 5U41HG010972-02
The WashU-UCSC-EBI Human Genome Reference Center
National Institutes of Health
Grant: 1R01HG010329-01
Evolution of new regulatory networks via genetic arms races between KRAB zinc finger proteins and retrotransposons
National Institutes of Health
Grant: 1U24MH132628-01
Data Resource and Administrative Coordination Center for the Scalable and Systematic Neurobiology of Psychiatric and Neurodevelopmental Disorder Risk Genes Consortium
National Institutes of Health
Grant: 2U24HG007234-09
GENCODE: comprehensive reference genome annotation for human and mouse
National Institutes of Health
Grant: 1RF1MH132662-01
A visualization interface for BRAIN single cell data, integrating transcriptomics, epigenomics and spatial assays
National Institutes of Health
Grant: 1R01HG010485-01A1
Enabling Comparative Pangenomics
National Institutes of Health
Grant: 5RM1HG011543-05
Center for Live Cell Genomics
National Institutes of Health
Grant: 5U24HG002371-25
The UCSC Genome Browser
FWCI
97.48
Citation Percentile
1.0%
Citation Trend
Fields of Study
MeSH Terms
Keywords