Integration of spatial and single-cell transcriptomics localizes epithelial cell–immune cross-talk in kidney injury is a dataset published in JCI Insight (2021). On theSindex it has a DataRank of 4.5, placing it in the top 4.9% of the data-sharing corpus. It has been cited 199 times, with 100 citing works in its 1-hop citation network. Its calibrated FAIR score is 58/100.
Ranks in the top 5% 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.
“Spatial transcriptomic data are archived in GEO (GSE171406).”
The paper provides GEO accession numbers (GSE171406, GSE154107, GSE171639), which are persistent identifiers. [majority verdict 'yes' (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'
“Spatial transcriptomic data are archived in GEO (GSE171406).”
The repository is explicitly named as GEO (Gene Expression Omnibus), a curated archive. [majority verdict 'yes' (4/5 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
“Spatial transcriptomic data are archived in GEO (GSE171406).”
The dataset identifier appears only in the body text (Data and materials availability), 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
“Data and materials availability. Spatial transcriptomic data are archived in GEO (GSE171406). Single-cell sequencing data are archived in GEO (GSE154107 and GSE171639).”
The statement points to a repository record with accession numbers (Colavizza category 3). [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
“The result of the spatial transcriptomic mapping was a set of “spots” (55 μm in diameter), each with its own expression signature.”
The dataset is described in running prose, but there is no itemised inventory (section, table, or list) of files or variables. [majority verdict 'partial' (4/5 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'
“Spatial transcriptomic data are archived in GEO (GSE171406).”
The data are deposited in a public repository with no stated precondition, implying open access. [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
“Spatial transcriptomic data are archived in GEO (GSE171406).”
The paper describes the action of archiving in GEO, from which open access can be inferred, but no explicit access-level label is used for the data. [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 data are not described as sensitive, and no gatekeeper is named; the data are deposited in a public repository.
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 statement regarding how long the data will be available or when they become accessible. [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 file format for the released data is mentioned in the text. [majority verdict 'no' (4/5 passes agreed)]
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 (e.g., MIAME, MINSEQE, or an ontology).
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'
“Publicly available snDrop-Seq RNA-Seq data were acquired ... (Gene Expression Omnibus [GEO], GSE121862).”— not found in the paper; verdict downgraded
The paper provides an accession (GSE121862) for a third-party dataset used in the analysis. [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 license is stated for the data; the article's CC BY 4.0 license applies to the paper, not the data.
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 provided for the dataset; the GEO accession points to a specific deposit but the paper does not mention version or release date.
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 availability statement is provided; only third-party tools are mentioned.
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)
“Support for this work was provided by the NIH/National Institute of Diabetes and Digestive and Kidney Diseases K08DK107864 (MTE); Indiana Grand Challenge Precision Health fund (RMF); R01DK099345 (TAS).”
Award numbers (K08DK107864, R01DK099345) are given for specific 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
“Sequencing was performed on the Illumina NovaSeq 6000 with 28 bp + 120 bp paired-end sequencing mode.”— not found in the paper; verdict downgraded
The paper names the specific instrument and sequencing mode used to produce the data. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (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
“the full set is in Supplemental Table 1”
Variable-level definitions (marker genes) are provided in a table inside the article (Supplemental Table 1), but no documentation object is stated to accompany the deposited 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
0.795
From this paper's citation signal
Citation Network Contribution
3.8
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 Institute of Diabetes and Digestive and Kidney Diseases
Grant: K08DK107864
NIDDK NIH HHS
Grant: R01 DK099345
NIAID NIH HHS
Grant: R01 AI148282
NIDDK NIH HHS
Grant: K08 DK113223
BLRD VA
Grant: I01 BX003935
NIDDK NIH HHS
Grant: P30 DK079312
NIDDK NIH HHS
Grant: R01 DK111651
BLRD VA
Grant: I01 BX002901
National Institutes of Health
Grant: 5K08DK107864-05
Acute inhibition of renal gene expression to prevent nephrotoxicity.
National Institutes of Health
Grant: 5R01DK099345-04
Modifying kidney injury through p53 signaling.
FWCI
10.84
Citation Percentile
1.0%
Citation Trend
Fields of Study
MeSH Terms
Keywords
Sustainable Development Goals
Additional file 1 of Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney
Additional file 1 of Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney
Additional file 1 of Evaluating spatially variable gene detection methods for spatial transcriptomics data
Additional file 1 of Evaluating spatially variable gene detection methods for spatial transcriptomics data
Additional file 2 of Evaluating spatially variable gene detection methods for spatial transcriptomics data
Additional file 2 of Evaluating spatially variable gene detection methods for spatial transcriptomics data
Additional file 1 of Single-cell RNA sequencing for the study of kidney disease
Additional file 1 of Single-cell RNA sequencing for the study of kidney disease
Additional file 2 of Deciphering the molecular and cellular atlas of immune cells in septic patients with different bacterial infections
Additional file 2 of Deciphering the molecular and cellular atlas of immune cells in septic patients with different bacterial infections
Additional file 1 of Deciphering the molecular and cellular atlas of immune cells in septic patients with different bacterial infections
Additional file 1 of Deciphering the molecular and cellular atlas of immune cells in septic patients with different bacterial infections
Additional file 2 of Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney
Additional file 4 of Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney
Additional file 3 of Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney
Additional file 4 of Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney
Additional file 2 of Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney
Additional file 3 of Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney