Supplement for : Domain prediction with proba - bilistic directional context
نویسندگان
چکیده
Pfam 30 (16,306 HMMs) provides the PfamA.full.uniprot file that corresponds to UniProt 2016_02 (46,974,580 proteins). This file was used to obtain dPUC2’s observed family pair counts, CODD’s list of certified domain pairs [1], and DAMA’s domain information and observed architectures [2]. We used the HMMER 3.1b2 version of hmmscan to predict domains (this version is required by Pfam 30). We downloaded the newest UniRef50 version (dated 2017-02-27, 20,905,476 proteins) and randomly selected a subset of 1,000,000 proteins to use in the Pfam 30 version of the RevSeq FDR test, which is otherwise as before [3]. All domain prediction methods were run as described in the main text.
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