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A hands-on introduction to querying evolutionary relationships across multiple data sources using SPARQL

https://doi.org/10.12688/f1000research.21027.2
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/978-1-4939-9074-0_22openalex-snapshot
Semantic Integration and Enrichment of Heterogeneous Biological Databases
inferredcites →https://doi.org/10.1016/j.drudis.2012.05.016openalex-snapshot
Open PHACTS: semantic interoperability for drug discovery
inferredcites →https://doi.org/10.1021/acs.jproteome.8b00537openalex-snapshot
Exploring the Uncharacterized Human Proteome Using neXtProt
inferredcites →https://doi.org/10.1038/nrg3456openalex-snapshot
Functional and evolutionary implications of gene orthology
inferredcites →https://doi.org/10.1093/bioinformatics/btt765openalex-snapshot
The EBI RDF platform: linked open data for the life sciences
inferredcites →https://doi.org/10.1093/database/baz041openalex-snapshot
ChlamBase: a curated model organism database for the Chlamydia research community
inferredcites →https://doi.org/10.1093/database/baz106openalex-snapshot
Enabling semantic queries across federated bioinformatics databases
inferredcites →https://doi.org/10.1093/molbev/msz150openalex-snapshot
Advances and Applications in the Quest for Orthologs
inferredcites →https://doi.org/10.1093/nar/gkp986openalex-snapshot
The European Bioinformatics Institute's data resources
inferredcites →https://doi.org/10.1093/nar/gkt1206openalex-snapshot
The European Bioinformatics Institute’s data resources 2014
inferredcites →https://doi.org/10.1093/nar/gkw1119openalex-snapshot
OrthoDB v9.1: cataloging evolutionary and functional annotations for animal, fungal, plant, archaeal, bacterial and viral orthologs
inferredcites →https://doi.org/10.1093/nar/gkx1019openalex-snapshot
The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces
inferredcites →https://doi.org/10.1093/nar/gkx1098openalex-snapshot
Ensembl 2018
inferredcites →https://doi.org/10.1093/nar/gky1054openalex-snapshot
MBGD update 2018: microbial genome database based on hierarchical orthology relations covering closely related and distantly related comparisons
inferredcites →https://doi.org/10.1186/s13326-016-0077-xopenalex-snapshot
The Orthology Ontology: development and applications
inferredcites →https://doi.org/10.1186/s13326-016-0079-8openalex-snapshot
NeuroRDF: semantic integration of highly curated data to prioritize biomarker candidates in Alzheimer's disease
inferredcites →https://doi.org/10.12688/f1000research.21508.1openalex-snapshot
Identifying orthologs with OMA: A primer
inferredcites →https://doi.org/10.1371/journal.pcbi.1004743openalex-snapshot
Ten Simple Rules for Selecting a Bio-ontology
inferredcites →https://doi.org/10.1371/journal.pone.0053786openalex-snapshot
Inferring Hierarchical Orthologous Groups from Orthologous Gene Pairs
inferredcites →https://doi.org/10.1371/journal.pone.0122802openalex-snapshot
Construction of an Ortholog Database Using the Semantic Web Technology for Integrative Analysis of Genomic Data
inferredcites →https://doi.org/10.2307/2412448openalex-snapshot
Distinguishing Homologous from Analogous Proteins

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1093/database/baab046openalex-snapshot
Functionathon: a manual data mining workflow to generate functional hypotheses for uncharacterized human proteins and its application by undergraduate students
inferred← citeshttps://doi.org/10.1093/molbev/msab098openalex-snapshot
Ten Years of Collaborative Progress in the Quest for Orthologs
inferred← citeshttps://doi.org/10.1093/nar/gkaa1007openalex-snapshot
OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more
inferred← citeshttps://doi.org/10.12688/f1000research.24904.1openalex-snapshot
Making the most of genomic data with OMA
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