HPAStainR: a Bioconductor and Shiny app to query protein expression patterns in the Human Protein Atlas is a dataset published in F1000Research (2021). On theSindex it has a DataRank of 0.201, placing it in the top 65.1% of the data-sharing corpus. It has been cited 2 times, with 2 citing works in its 1-hop citation network. Its calibrated FAIR score is 85/100.
Ranks in the top 65% 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.
“https://doi.org/10.7910/DVN/CL5ZTA9”
The paper provides a DOI for the dataset in the Harvard Dataverse repository.
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'
“Harvard Dataverse”
The paper explicitly names Harvard Dataverse as the repository holding the data.
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
“Nieuwenhuis OT, Halushka KM: HPAStainR – A Bioconductor and shiny app to query protein expression patterns in the Human Protein Atlas. Harvard Dataverse, V1, UNF:6:o2EDbY39avbmTP9qswinCA== [fileUNF]. 2020. http://www.doi.org/10.7910/DVN/CL5ZTA”
The dataset appears as a reference-list entry (reference 9) with a DOI.
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 are available under the terms of the Creative Commons Zero “No rights reserved” data waive r (CC0 1.0 Public domain dedication).”
The data availability statement points to a repository record (Harvard Dataverse with DOI) and includes a CC0 license. [majority verdict 'yes' (4/5 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
“This project contains the following extended data: • Extended Figure 1. ... • Extended Table 1. ...”— not found in the paper; verdict downgraded
The paper includes an itemised list of the deposited data files (Extended Figures and Tables). [downgraded to 'partial' — no verifiable quote from the paper]
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 are available under the terms of the Creative Commons Zero “No rights reserved” data waive r (CC0 1.0 Public domain dedication).”
The statement provides a route to the data with no precondition (openly available under CC0). [majority verdict 'yes' (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
“Data are available under the terms of the Creative Commons Zero “No rights reserved” data waive r (CC0 1.0 Public domain dedication).”
The paper explicitly labels the data as under CC0 1.0 Public domain dedication, which is an open access label. [majority verdict 'yes' (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 or human-subject, and no gatekeeper is named; the data are openly available.
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 in the paper states when the data become available or how long they persist. [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 paper does not name any file format for the deposited data.
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 community data or metadata standard is named in the paper.
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'
“Human Protein Atlas normal tissue and cancer tissue data was acquired from the website: https://www.proteinatlas.org/about/download”— not found in the paper; verdict downgraded
The paper provides a URL for the HPA data source, which is an identifier for an external resource. [downgraded to 'no' — no verifiable quote from the paper]
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'
“Data are available under the terms of the Creative Commons Zero “No rights reserved” data waive r (CC0 1.0 Public domain dedication).”
The data are licensed under CC0 1.0, which is an open standard licence.
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'
“V1”— not found in the paper; verdict downgraded
The dataset is identified as 'V1' in the reference entry, indicating a version token. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (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'
“Source code available from: https://github.com/tnieuwe/HPAStainR”— not found in the paper; verdict downgraded
The paper provides a machine-resolvable URL for the source code on GitHub. [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)
“1R01HL137811”
The paper includes specific award numbers for the funding sources.
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
“This analysis uses HPAStainR v.1.1.4”
The paper names the specific software version used to create the data (HPAStainR v.1.1.4). [majority verdict 'yes' (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
“Extended Table 1. The number of proteins evaluated and positively stained for each cell type.”— not found in the paper; verdict downgraded
Variable definitions are provided inside the article (Extended Table 1), but no separate documentation object shipped with the data is named. [downgraded to 'no' — no verifiable quote from the paper]
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
0.165
From this paper's citation signal
Citation Network Contribution
0.0358
From 2 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 2 citers.
National Heart, Lung, and Blood Institute
Grant: 1R01HL137811
National Institutes of Health
Grant: R01GM130564
National Institutes of Health
Grant: T32GM07814
NHLBI NIH HHS
Grant: R01 HL137811
NIGMS NIH HHS
Grant: T32 GM007814
National Institutes of Health
Grant: 5R01GM130564-03
xMD-miRNA-Seq estimates cell-specific miRNA expression
National Institutes of Health
Grant: 5T32GM007814-37
Predoctoral Training Program in Human Genetics
National Institutes of Health
Grant: 5R01HL137811-03
Fine Dissection of Atherosclerosis Microenvironment RNA Expression
Fields of Study
MeSH Terms
Keywords
Sustainable Development Goals