PDXNet portal: patient-derived Xenograft model, data, workflow and tool discovery is a dataset published in NAR Cancer (2022). On theSindex it has a DataRank of 0.652, placing it in the top 30.5% of the data-sharing corpus. It has been cited 22 times, with 10 citing works in its 1-hop citation network. Its calibrated FAIR score is 44/100.
Ranks in the top 31% 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 PDXNet portal is a publicly accessible website ( https://portal.pdxnetwork.org/ )”
The portal URL is a web address, not a persistent identifier scheme like DOI or repository accession. [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'
“Tissue samples of these models were deposited in the NCI’s Patient-Derived Model Repository (PDMR) for public access.”
PDMR is a named 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
“We created the PDX Network (PDXNet) portal ( https://portal.pdxnetwork.org/ ) to centralize access”
The dataset's identifier (portal URL) appears only in the body text, not in the reference list. [majority verdict 'partial' (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
“Each PDXNet portal data tab allows users to download metadata. Data for smaller data types such as tumor volume data and computed metrics (e.g. HRD and TMB) can be downloaded directly from the portal. For larger data types, please request data from the PDXNet Portal’s Contact page. We will coordinate with PDTCs to make data available either directly or through dbGaP as required by the PDXNet data sharing agreement.”
The statement points to the portal for download and to a request process for larger data, not to a repository record with a specific accession.
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 3. Sequencing data files generated by PDX Development and Trial Centers”
Table 3 is an itemised inventory of sequencing files, a structural description artefact.
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'
“which are hosted on the Cancer Genomics Cloud powered by Seven Bridges and the NCI Cancer Data Service for long-term storage and access with dbGaP permissions”
dbGaP permissions are a precondition for accessing the sequencing data, so the route is not unconditional. [majority verdict 'partial' (3/5 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
“Tissue samples of these models were deposited in the NCI’s Patient-Derived Model Repository (PDMR) for public access.”
The paper states 'public access' for the PDMR models, which is an explicit access-level 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
“access with dbGaP permissions”
dbGaP is a controlled-access repository with a Data Access Committee, an institutional gatekeeper.
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
“which are hosted on the Cancer Genomics Cloud powered by Seven Bridges and the NCI Cancer Data Service for long-term storage and access with dbGaP permissions”
'long-term storage' is a persistence commitment for the data. [majority verdict 'yes' (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'
No file format is named for the released data; only 'sequencing files' is mentioned.
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
“the PDX minimal information standard (PDX-MI)”— not found in the paper; verdict downgraded
PDX-MI is a community standard for PDX model metadata. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (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 (accession, DOI, RRID) for an external resource used by the data is given; only URLs and paper references. [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 licence is stated for the data; the CC-BY licence applies to the article only.
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'
“Data collection, PDMR This sub-tab summarizes sequencing data transferred from the PDMR FTP server to the CGC as of December 2021”
A date ('as of December 2021') pins the snapshot. [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'
“The PDXNet Portal source code will not be made publicly available for security reasons”
The study's own code for the portal is explicitly not made available, and no other code is offered via a followable route. [majority verdict 'no' (3/5 passes agreed)]
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 Institutes of Health [NCI U24-CA224067, NCI U54-CA224083, NCI U54-CA224070, NCI U54-CA224065, NCI U54-CA224076, NCI U54-CA233223, NCI U54-CA233306]”
Specific grant numbers are given.
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, kits, or software versions used to produce the data; it only describes generic processes. [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
“The PDXNet Portal currently supports 43 metadata fields that data submitters can populate upon submission (See Supplementary Table S1 for the complete list).”
Variable definitions are provided in a supplementary table inside the article, not as a separate documentation object accompanying the data. [majority verdict 'partial' (3/5 passes agreed)]
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
0.470
From this paper's citation signal
Citation Network Contribution
0.181
From 9 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 10 citers.
National Institutes of Health
Grant: NCI U24-CA224067
National Institutes of Health
Grant: NCI U54-CA224083
National Institutes of Health
Grant: NCI U54-CA224070
National Institutes of Health
Grant: NCI U54-CA224065
National Institutes of Health
Grant: NCI U54-CA224076
National Institutes of Health
Grant: NCI U54-CA233223
National Institutes of Health
Grant: NCI U54-CA233306
National Institutes of Health
Grant: HHSN261201400008C
National Institutes of Health
Grant: HHSN261201500003I
NCI NIH HHS
Grant: P30 CA010815
NCI NIH HHS
Grant: P50 CA221703
NCI NIH HHS
Grant: U54 CA224065
NCI NIH HHS
Grant: U54 CA224070
NCI NIH HHS
Grant: P30 CA093373
NCI NIH HHS
Grant: R50 CA211199
NCI NIH HHS
Grant: U24 CA224067
NCI NIH HHS
Grant: U54 CA224076
National Institutes of Health
Grant: 3U54CA224070-04S2
Rational approaches to melanoma therapy (PDXNet Administrative Supplement to R01CA241148)
National Institutes of Health
Grant: 3U54CA224083-04S1
Washington University PDX Development and Trial Center - Evaluation of Abemaciclib in Combination with Olaparib in Ovarian Cancer and Breast Cancer Patient-derived Xenograft Models
National Institutes of Health
Grant: 1U54CA233306-01
University of California Minority Patient-Derived Xenograft (PDX) Development and Trial Center (UCaMP) to Reduce Cancer Health Disparities
National Institutes of Health
Grant: 3U54CA224076-01S2
PDX Trial Center for Breast Cancer Therapy
National Institutes of Health
Grant: 5U24CA224067-06
PDXNet Data Commons and Coordinating Center
National Institutes of Health
Grant: 3U54CA233223-01S1
Minority PDX Development and Trial Center: Baylor College of Medicine and MD Anderson Cancer Center Collaboration on Mechanistic Studies to Dissect and Combat Health Disparities in Cancer
National Institutes of Health
Grant: 1U54CA224065-01
University of Texas PDX Development and Trial Center
NCI NIH HHS
Grant: U54 CA233223
NCI NIH HHS
Grant: U54 CA233306
NCI NIH HHS
Grant: U54 CA224083
NCI NIH HHS
Grant: HHSN261201500003C
National Cancer Institute
FWCI
1.77
Citation Percentile
0.9%
Citation Trend
Fields of Study
Keywords
Sustainable Development Goals