Transcriptome-based database increases PSM rate and protein sequence length

Association·arcadia

Claim that using the new transcriptome-based protein database allows identification of ~9% more PSMs and detection of longer protein sequences.

Confidence

80%

active

Evidence Quote

“New database increased peptide-spectrum match rate by ~9% and favored longer protein sequences”

Relationship

Reference protein database increases Peptide-spectrum match (PSM) rate

Arguments

Reference protein databasesubject

Peptide-spectrum match (PSM) rateobject

Connections (3)

Transcriptome-enabled proteomics for non-model organismsInferenceChain

Petabase-scale sequence alignment increases viral discoveryAssociation

Longer protein sequences detectedFactor

Evidence

“Reference for CD-HIT clustering and comparison of large sets of sequences.”

Li W & Godzik A (2006). Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences doi:10.1093/bioinformatics/btl158 ↗

“Reference for CD-HIT acceleration for clustering next-generation sequencing data.”

Fu L et al. (2012). CD-HIT: accelerated for clustering the next-generation sequencing data doi:10.1093/bioinformatics/bts565 ↗