The InterPro database, an integrated documentation resource for protein families, domains and functional sites

By Rolf Apweiler, T. Attwood, Amos Bairoch, Alex Bateman, Ewan Birney, M. Biswas, Philipp Bucher, L. Cerutti, F. Corpet, M. Croning and 18 more. Nucleic Acids Res., 2001

1,112 citations recorded by the source corpus.

Subfields: Materials Chemistry, Molecular Biology, Spectroscopy

View Paper: https://www.semanticscholar.org/paper/f3cdea5fe196a7558afd9fcb8f3dacb69fdbe3d3

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Citations in the corpus

Multiplexed massively parallel SELEX for characterization of human transcription factor binding specificities. (2010, methodology): “For each protein sequence (obtained from the IPI database) (Apweiler et al. 2001) encoding a human transcription factor (Vaquerizas et al.”
Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool (2013, methodology): “Finally, the structural domains library was created from the PFAM [48] and InterPro [49] databases where the terms are structural domains and the genes/proteins are the genes containing the domains.”
Structural and Evolutionary Relationships among Protein Tyrosine Phosphatase Domains (2001, background): “Since PEST-like sequence annotation is subjective and these sequences do not correspond to conserved protein domains in the Pfam and Interpro databases (5), the functions of these PEST-like segments are most likely unrelated.”
Molecular Epidemiology of Human Coronavirus OC43 Reveals Evolution of Different Genotypes over Time and Recent Emergence of a Novel Genotype due to Natural Recombination (2011, methodology): “binding domain of spike protein was performed using InterProScan (2).”
CDART: protein homology by domain architecture. (2002, methodology): “The architectures are recorded in the CDART database along with taxonomic information taken from the NCBI En-trez Taxonomy Database (Wheeler et al. 2002)”
Protein interaction mapping: a Drosophila case study. (2005, methodology): “…in terms of structural and functional domains by use of bioinformatics algorithms: TMHMM (Krogh et al. 2001) and SignalP (Nielsen et al. 1997) for the detection of transmembrane helices and signal peptides, respectively, and IpScan for the prediction of InterPro domains (Apweiler et al. 2001).”
Characterization and Complete Genome Sequence of a Novel Coronavirus, Coronavirus HKU1, from Patients with Pneumonia (2005, methodology): “InterProScan analysis predicts it as a type I membrane glycoprotein.”
The Ensembl genome database project (2002, methodology): “These include mapview web pages, which show relationships between cytogenetic bands and the genome sequence via markers, and displays feature distribution plots; geneview web pages showing information about individual Ensembl gene with its transcripts and gene structures and proteinview web pages, s”
Protein–protein interaction and quaternary structure (2008, background): “The InterPro database, an integrated documentation resource for protein families, domains and functional sites.”
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003 (2003, methodology): “The latter contains additional cross-references linking IPI to GO (16), Genew, LocusLink (17) and InterPro (18), and identifies the chromosome on which the gene encoding each IPI entry is found.”
A census of human RNA-binding proteins (2014, background): “InterPro, and currently missed by protein domain annotations (Apweiler et al., 2001; Finn et al., 2010; Letunic et al., 2009).”
The Gene Ontology Annotation (GOA) project: implementation of GO in SWISS-PROT, TrEMBL, and InterPro. (2003, background): “The aim of the Proteome Analysis project (Apweiler et al. 2001b) is to provide proteome sets for whole genomes with comprehensive statistical and comparative analyses.”