PIRSF: family classification system at the Protein Information Resource

By 陈奕欣. 2004

49 citations recorded by the source corpus.

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Citations in the corpus

SUPERFAMILY—sophisticated comparative genomics, data mining, visualization and phylogeny (2008, unknown): “The InterPro consortium integrates databases of protein families, domains and functional sites, including: Gene3D (30), PANTHER (31), Pfam (32), PIRSF (33), PRINTS (34), ProDom (35), PROSITE (36), SMART (37), SUPERFAMILY and TIGRFAMs (38).”
PIRSF Family Classification System for Protein Functional and Evolutionary Analysis (2006, background): “With experimentally verifi ed information on protein function lagging far behind, computational methods are needed for reliable and large-scale functional annotation of proteins.”
The HMMER Web Server for Protein Sequence Similarity Search (2017, methodology): “…Lewis, & Orengo, 2015); Superfamily comprises domain annotations of protein sequences predicted using the HMM libraries based on SCOP superfamilies (Wilson et al., 2009); and the PIRSF database comprises HMMs for comprehensive non-overlapping clustering of protein sequences (Wu et al., 2004).”
UniProt: the Universal Protein knowledgebase (2004, background): “New feature rules are being de®ned systematically for fully curated PIRSF families that contain at least one known 3D structure with experimentally veri®ed functional/ active/binding site information.”
The Universal Protein Resource (UniProt) 2009 (2008, methodology): “The computer-assisted annotation is created using automatically generated rules as in Spearmint (2), or manually curated rules based on protein families, including HAMAP family rules (3), RuleBase rules (4) and PIRSF classiﬁcation-based name rules and site rules (5,6).”