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Utilization of high‐accuracy FTICR‐MS data in protein quantitation experiments
Author(s) -
Strohalm Martin,
Novak Petr,
Pompach Petr,
Man Petr,
Kavan Daniel,
Witt Matthias,
Dzubak Petr,
Hajduch Marian,
Havlicek Vladimir
Publication year - 2009
Publication title -
journal of mass spectrometry
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.475
H-Index - 121
eISSN - 1096-9888
pISSN - 1076-5174
DOI - 10.1002/jms.1602
Subject(s) - chemistry , stable isotope labeling by amino acids in cell culture , mass spectrometry , isobaric labeling , tandem mass spectrometry , chromatography , peptide , computational biology , fourier transform ion cyclotron resonance , proteomics , biochemistry , protein mass spectrometry , biology , gene
Human acute T‐lymphoblastic leukemia cell line (CEM) treated with cisplatin, and the stable isotope labeling by amino acids in cell culture (SILAC) strategy were used to present an improved method of data processing in high‐accuracy mass spectrometry (MS). By using peptide mass fingerprinting with low mass tolerance, we were able to utilize far more data retained in MS scans which would normally be missed by a standard processing method. This new way of data interpretation results in an improvement of the relevance of quantitation experiments and enabled us to search and quantify different types of posttranslational modifications. Furthermore, we used this technique to distinguish among different protein isoforms, commonly returned by Mascot search engine. Copyright © 2009 John Wiley & Sons, Ltd.