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orthofisher: a broadly applicable tool for automated gene identification and retrieval

G3 Genes Genomes Genetics(2021)10.1093/g3journal/jkab250Source: DataRank Database

orthofisher: a broadly applicable tool for automated gene identification and retrieval is a research paper published in G3 Genes Genomes Genetics (2021). On theSindex it has a DataRank of 0.717. It has been cited 52 times, with 16 citing works in its 1-hop citation network.

N/A

0.717DataRank · unranked

Scored on demand from live citation data

Deposits data Open Access52 citations · 16 citing works in its network

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Linked data & code

gen gca pfam doi

Data availability

Repositories this paper deposited data in (declared in PubMed).

figshare10.6084/m9.figshare.14399150

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 (11 grants)Impact (FWCI 3.56)OA: goldTopics (44)Linked Datasets (22)DataCite Reuse (22)IDs (PubMed, PMC, OpenAlex)Annotations (4)

FAIR Checklist

Context only (not used in score)

Findable (2/2)

Has DOI
Indexed in repositories

Accessible (1/2)

Open Access

Interoperable (2/2)

DataCite relations
Linked datasets

Reusable (0/3)

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DataRank Breakdown

Base Score 83%Citation Network 17%

Base Score Contribution

0.596

From this paper's citation signal

Citation Network Contribution

0.121

From 7 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 16 citers.

Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage
BMC Biology20247 citations58 referencesContributes 0.036
The evolution of antimicrobial peptides in Chiroptera
Frontiers in Immunology20237 citations84 referencesContributes 0.025
Inferences on the evolution of the ascorbic acid synthesis pathway in insects using Phylogenetic Tree Collapser (PTC), a tool for the automated collapsing of phylogenetic trees using taxonomic information
Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics20242 citations45 referencesContributes 0.024
Amino Acid Chirality: Stereospecific Conversion and Physiological Implications
ACS Omega202434 citations165 referencesContributes 0.022
Multi-omics insights into the response of Aspergillus parasiticus to long-chain alkanes in relation to polyethylene modification
Environmental Pollution20255 citations113 referencesContributes 0.016

Authors (2)

Antonis Rokas ORCID,Jacob L. Steenwyk ORCID

Live enrichment

PubMed:34544141 PMC:PMC8496211 OpenAlex:https://openalex.org/W3184501373

National Science Foundation

Grant: DEB-1442113

National Science Foundation

Grant: DEB-2110404

National Institute of Allergy and Infectious Diseases

Grant: R56 AI146096

National Institutes of Health

Grant: 1R56AI146096-01A1

Deciphering the phenotypic and genomic traits that underlie the evolution of pathogenicity differences among Aspergillus fumigatus and its close relatives

National Science Foundation

Grant: 2110404

Collaborative Research: RoL: The Evolution of the Genotype-Phenotype Map across Budding Yeasts

National Science Foundation

Grant: 1442113

DIMENSIONS: Collaborative Research: The Making of Biodiversity Across the Yeast Subphylum

Burroughs Wellcome Fund

Howard Hughes Medical Institute

Guggenheim Foundation

National Institutes of Health

Howard Hughes Medical Institute

FWCI

3.56

Citation Percentile

0.9%

Citation Trend

2021

2022

2023

2024

2025

2026

goldLicense: cc-by

journalhttps://academic.oup.com/g3journal/article-pdf/11/9/jkab250/40519985/jkab250.pdf

publisherhttps://academic.oup.com/g3journal/article-pdf/11/9/jkab250/40519985/jkab250.pdf

publisherhttp://academic.oup.com/g3journal/advance-article-pdf/doi/10.1093/g3journal/jkab250/39743315/jkab250.pdf

publisherhttp://academic.oup.com/g3journal/article-pdf/11/9/jkab250/40519985/jkab250.pdf

journalhttps://doi.org/10.1093/g3journal/jkab250

Fields of Study

Genomics and Phylogenetic StudiesMachine Learning in BioinformaticsIdentification and Quantification in Food0301 basic medicine03 medical and health sciences0206 medical engineering02 engineering and technologyComputational BiologyGenomicsMolecular Sequence AnnotationSequence AlignmentSoftware

MeSH Terms

SoftwareSequence AlignmentComputational BiologyGenomicsMolecular Sequence Annotation

Keywords

Identification (biology)Computer scienceAnnotationComputational biologyGeneSet (abstract data type)Source codeGene predictionDocumentationGene AnnotationGenomeGeneticsBiologyArtificial intelligenceProgramming languageHomologyGene familyHidden Markov modelPhylogenomicsSequence Similarity SearchOrthologyMolecular Sequence AnnotationGenomicsQH426-470Software and Data ResourcesSequence AlignmentSoftware

Additional file 2 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 2 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 3 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 3 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 4 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 4 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 5 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 5 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 7 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

10.6084/m9.figshare.26727853.v1figshare

Additional file 7 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 8 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 8 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 9 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 9 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 11 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 11 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

10.6084/m9.figshare.26727865figshare

Additional file 10 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

10.6084/m9.figshare.26727862figshare

Additional file 10 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

10.6084/m9.figshare.26727862.v1figshare

Additional file 6 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

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Additional file 6 of Extensive remodeling of sugar metabolism through gene loss and horizontal gene transfer in a eukaryotic lineage

10.6084/m9.figshare.26727850figshare

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The Protein Data Bank

Top 1%

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orthofisher: a broadly applicable tool for automated gene identification and retrieval

FAIR Checklist

DataRank Breakdown

Top 5 citers driving the network score

Authors (2)

Funding (11 grants)

Impact

Open Access

Topics

Linked Datasets (22)

Annotations (Europe PMC)

Related Papers (6)