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Peng Lab: Tandem Mass Tag (TMT)
Labeled Mass Spectral Library (Version: v1)

Introduction

This page provides both human and mouse tandem mass tag (TMT) labeled spectral libraries for download. The spectra were acquired by either Q Exactive HF or Orbitrap Fusion at St. Jude Proteomics Core over years. Human and mouse libraries were derived from 16 and 26 LC-MS/MS runs, and 863 and 1,498 fractions, respectively.

Briefly, the libraries were constructed with the following four steps. (1) A protein mixture sample is prepared (digested with trypsin, desalted, labeled, and separated by chromatography); (2) The fractionated samples are analyzed by a liquid chromatography tandem mass spectrometer (LC-MS/MS; either HF or Fusion); (3) The resulting MS/MS spectra are compared to theoretical product ions and then filtered at protein FDR < 1% using JUMP program (Wang et al., 2014); (4) The identified peptides and raw MS data were used to generate the library with SpectraST (Lam et al., 2006).

Libraries

Species Library type Description Content Link for download
Human Consensus Library 546,841 spectra and 401,168 distinct peptides Human_Consensus
Library with decoys 1,093,603 spectra and 401,168 distinct peptides Human_Consensus_DECOY
Best replicate Library 546,841 spectra and 401,168 distinct peptides Human_Best_Replicate
Library with decoys 1,093,603 spectra and 401,168 distinct peptides Human_ Best_Replicate _DECOY
Mouse Consensus Library 829,323 spectra and 432,649 distinct peptides Mouse_Consensus
Library with decoys 1,658,593 spectra and 432,649 distinct peptides Mouse_Consensus_DECOY
Best replicate Library 829,324 spectra and 432,650 distinct peptides Mouse_Best_Replicate
Library with decoys 1,658,592 spectra and 432,650 distinct peptides Mouse_ Best_Replicate _DECOY

Support

Please contact Xusheng Wang and Junmin Peng for library support.