Rummagene: massive mining of gene sets from supporting materials of biomedical research publications is a dataset published in Communications Biology (2024). On theSindex it has a DataRank of 0.698, placing it in the top 28.6% of the data-sharing corpus. It has been cited 26 times, with 17 citing works in its 1-hop citation network. Its calibrated FAIR score is 33/100.
Ranks in the top 29% 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.
“The Rumamgene dataset version analyzed here is available for download from: https://rummagene.com/download and from Figshare 51.”— not found in the paper; verdict downgraded
The only identifier in the body text is a URL (https://rummagene.com/download), which is not a persistent identifier scheme. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (2/5 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'
“The Rumamgene dataset version analyzed here is available for download from: https://rummagene.com/download and from Figshare 51.”— not found in the paper; verdict downgraded
Figshare is a named repository listed in the class‑1 proper nouns. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (3/5 passes agreed)]
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
“Clarke, D. J. B. et al. Rummagene gene sets with descriptions 01172024. figshare. Dataset. https://doi.org/10.6084/m9.figshare.25017023.v3 (2024).”— not found in the paper; verdict downgraded
The dataset appears as a reference-list entry with a DOI. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (3/5 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
“Data availability The Rumamgene dataset version analyzed here is available for download from: https://rummagene.com/download and from Figshare 51.”— not found in the paper; verdict downgraded
The statement names a repository (Figshare) and provides a link to the record. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (3/5 passes agreed)]
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 initial version of Rummagene contains 642,389 gene sets extracted from 121,237 articles.”
The dataset's content is described in running prose, not in an itemised inventory.
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'
“The Rumamgene dataset version analyzed here is available for download from: https://rummagene.com/download and from Figshare 51.”— not found in the paper; verdict downgraded
The statement offers a route to the data with no precondition. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (4/5 passes agreed)]
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
The paper does not label the access level with a standard vocabulary term; it only describes the action of downloading. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (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 data are not sensitive, 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 Rumamgene dataset version analyzed here is available for download from: https://rummagene.com/download and from Figshare 51.”— not found in the paper; verdict downgraded
The paper states when the data are available (now) but says nothing about how long they persist. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (3/5 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'
“The entire database is available for download as a text file, and access to the data is provided via a GraphQL API.”— not found in the paper; verdict downgraded
Text file (TXT) is an open, non‑proprietary format. [downgraded to 'partial' — no verifiable quote from the paper]
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 or metadata community standard is named for the Rummagene dataset itself. [majority verdict 'no' (4/5 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'
No identifier for any external resource that the data depends on is given in the text.
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 or terms document is named for the dataset.
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'
No version token or date is given to pin the snapshot of the data. [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'
“The Rummagene source code is available from: https://github.com/MaayanLab/rummagene and a snapshot of the source code was deposited in Figshare 52.”— not found in the paper; verdict downgraded
A code‑repository URL and a Figshare DOI are provided as machine‑resolvable locators. [downgraded to 'partial' — no verifiable quote from the paper]
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)
“This study is partially supported by NIH grants OT2OD030160, U24CA264250, RC2DK131995, and U24CA224260.”
Award numbers are given for the funding.
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
“These extractor functions include support for Excel, CSV, TSV, and inferred separator loading of TXT files, as well as a PDF table extractor based on Tabula-Py.”
Tabula‑Py is a named software tool used to produce the data. [majority verdict 'yes' (3/5 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 README, data dictionary, or codebook is said to accompany 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
0.494
From this paper's citation signal
Citation Network Contribution
0.204
From 12 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 17 citers.
U.S. Department of Health & Human Services | NIH | NIH Office of the Director
Grant: OT2OD030160
U.S. Department of Health & Human Services | NIH | National Cancer Institute
Grant: U24CA264250
U.S. Department of Health & Human Services | NIH | National Institute of Diabetes and Digestive and Kidney Diseases
Grant: RC2DK131995
U.S. Department of Health & Human Services | NIH | NCI | Division of Cancer Epidemiology and Genetics, National Cancer Institute
Grant: U24CA224260
NIH HHS
Grant: OT2 OD036435
National Institutes of Health
Grant: 1RC2DK131995-01
Diabetes Data and Hypothesis Hub (D2H2)
National Institutes of Health
Grant: 5U24CA264250-02
ARCHS4: Massive Mining of Publicly Available RNA Sequencing Data
National Institutes of Health
Grant: 5U24CA224260-05
Knowledge Management Center for Illuminating the Druggable Genome
National Institutes of Health
Grant: 3OT2OD030160-01S2
The LINCS DCIC Engagement Plan with the CFDE
FWCI
4.08
Citation Percentile
1.0%
Citation Trend
Fields of Study
MeSH Terms
Keywords