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PED in 2021: a major update of the protein ensemble database for intrinsically disordered proteins

Nucleic Acids Research(2020)10.1093/nar/gkaa1021Source: DataRank Database

PED in 2021: a major update of the protein ensemble database for intrinsically disordered proteins is a dataset published in Nucleic Acids Research (2020). 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 154 times, with 100 citing works in its 1-hop citation network.

Top 6%percentile

3.5DataRank

Ranks in the top 6% for downstream scientific impact

Data paper Open Access154 citations · 100 citing works in its network

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Linked data & code

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DataRank reads this dataset's downstream impact straight off the citation graph — no black box, no proprietary weighting. How is this computed?

›Methodology & internals

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Pipeline:MetadataData-paper checkEnrichmentCitation networkScoring

Enrichment:Funding (16 grants)Impact (FWCI 7.69)OA: goldTopics (52)IDs (PubMed, PMC, OpenAlex)Annotations (3)SDGs (1)

FAIR Checklist

Context only (not used in score)

Findable (1/2)

Has DOI

Accessible (1/2)

Open Access

Interoperable (0/2)

Reusable (1/3)

Dataset classification

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DataRank Breakdown

Base Score 22%Citation Network 78%

Base Score Contribution

0.757

From this paper's citation signal

Citation Network Contribution

2.7

From 92 citing papers with measurable signal

Learn more about DataRank methodology →

Top 5 citers driving the network score

Ranked by each citer's contribution to N(p) — log1p(C_q) divided by its reference count — out of 100 citers.

Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures
Nucleic Acids Research20211,189 citations35 referencesContributes 0.202
An ETL pipeline to construct the Intrinsically Disordered Proteins Knowledge Graph (IDP-KG) using Bioschemas JSON-LD data dumps
20223 citations8 referencesContributes 0.173
Distance-AF: Modifying Predicted Protein Structure Models by Alphafold2 with User-Specified Distance Constraints
bioRxiv (Cold Spring Harbor Laboratory)202313 citations25 referencesContributes 0.106
AlphaFold Prediction of Structural Ensembles of Disordered Proteins
bioRxiv (Cold Spring Harbor Laboratory)202323 citations32 referencesContributes 0.099
The structural context of posttranslational modifications at a proteome-wide scale
PLoS Biology2022130 citations55 referencesContributes 0.089

Authors (40)

Elizabeth Martínez‐Pérez ORCID,Federica Quaglia ORCID,András Hatos ORCID,Lucía B. Chemes ORCID,Javier Iserte ORCID

Live enrichment

PubMed:33305318 PMC:PMC7778965 OpenAlex:https://openalex.org/W3112873140

Italian Ministry of University and Research

Grant: 2017483NH8

Horizon 2020

Grant: 778247

Driving the functional characterization of intrinsically disordered proteins

Horizon 2020

Grant: 871037

Infrastructure for transnational access and discovery in structural biology

Hungarian Scientific Research Fund

Grant: K124670

Hungarian Scientific Research Fund

Grant: K131702

Universidad Nacional de Quilmes

Grant: PUNQ 1309/19

National Agency for the Promotion of Science and Technology

Grant: PICT-2014-3430

LBC

Grant: PICT-2017-1924

Fondation pour la Recherche Médicale

Grant: DBI20141231336

Natural Sciences and Engineering Research Council of Canada

Grant: RGPIN 2017-0603

Agence Nationale de la Recherche

Grant: ANR-10-LABX-12-01

National Institutes of Health

Grant: 5R01GM127627-03

Calculating Dynamic Ensembles of Intrinsically Disordered Proteins

German Ministry of Science and Education

Grant: 16QK10A

Vrije Universiteit Brussel

Grant: SRP51

NIGMS NIH HHS

Grant: R01 GM127627

Natural Sciences and Engineering Research Council of Canada

Grant: unidentified

unidentified

FWCI

7.69

Citation Percentile

1.0%

Citation Trend

2020

2021

2022

2023

2024

2025

2026

goldLicense: cc-by-nc

journalhttps://academic.oup.com/nar/article-pdf/49/D1/D404/41025719/gkaa1021.pdf

publisherhttps://academic.oup.com/nar/article-pdf/49/D1/D404/41025719/gkaa1021.pdf

publisherhttp://academic.oup.com/nar/article-pdf/49/D1/D404/41025719/gkaa1021.pdf

journalhttps://doi.org/10.1093/nar/gkaa1021

repositoryhttps://pubmed.ncbi.nlm.nih.gov/33305318

Fields of Study

Protein Structure and DynamicsBioinformatics and Genomic NetworksAdvanced Proteomics Techniques and Applications0301 basic medicine03 medical and health sciences0303 health sciences

MeSH Terms

HumansTumor Suppressor Protein p53Databases, ProteinSearch EngineIntrinsically Disordered Proteins

Keywords

BiologyComputational biologyIntrinsically disordered proteinsDatabaseBiochemistryComputer scienceDISORDER570MESH: Search EnginePROTEINS[SDV.BBM.BS] Life Sciences [q-bio]/Biochemistry, Molecular Biology/Structural Biology [q-bio.BM][SDV]Life Sciences [q-bio]Bioinformatics and Computational BiologyENSEMBLEIDP530MESH: Databases[SDV.BBM.BS]Life Sciences [q-bio]/BiochemistryDatabasesInformation and Computing Scienceshttps://purl.org/becyt/ford/1.6Database IssueHumansMESH: Tumor Suppressor Protein p53https://purl.org/becyt/ford/1Databases, ProteinMESH: Intrinsically Disordered ProteinsMESH: Humans[SDV.BIBS] Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]Molecular Biology/Structural Biology [q-bio.BM]ProteinBiological Sciences[SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]004Environmental sciences[SDV] Life Sciences [q-bio]Search EngineChemical sciencesGeneric health relevanceTumor Suppressor Protein p53Developmental Biology

Sustainable Development Goals

SDG 3: 3. Good health