Skip to main content

Table 2 Comparison of the number of peptides identified by different approaches across the eight human gut metaproteomic datasets

From: Using high-abundance proteins as guides for fast and effective peptide/protein identification from human gut metaproteomic data

  HM403 HM415 HM454 HM455 HM466 HM467 HM494 HM503
  (57,835 #) (59,839) (53,937) (64,255) (60,800) (58,500) (58,109) (59,892)
HAPiID-MSGF 12,962 12,535 17,619 20,803 13,862 15,924 21,108 24,962
HAPiID-X! 12,414 12,180 17,314 21,145 13,676 16,334 21,042 24,459
MetaPro-IQ 12,606 11,562 15,446 17,868 11,302 12,380 18,562 21,879
Matched 13,156* 12,179 15,863 18,677 11,733 12,724 19,248 23,632
  1. #:Numbers in parentheses indicate the total number of spectra present in each sample. *: The highest numbers of peptides identified in each sample are highlighted in bold; HAPiID-MSGF (HAPiID using MS-GF+ as the search engine); HAPiID-X! (HAPiID using X! Tandem as the search engine); Matched: peptide identification using matched metagenome as the reference. Results for the MetaPro-IQ and matched metagenome approach were taken from [32].