Premium
Performance of super‐SILAC based quantitative proteomics for comparison of different acute myeloid leukemia (AML) cell lines
Author(s) -
Aasebø Elise,
Vaudel Marc,
Mjaavatten Olav,
Gausdal Gro,
Burgh Arthur,
Gjertsen Bjørn Tore,
Døskeland Stein Ove,
Bruserud Øystein,
Berven Frode S.,
Selheim Frode
Publication year - 2014
Publication title -
proteomics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.26
H-Index - 167
eISSN - 1615-9861
pISSN - 1615-9853
DOI - 10.1002/pmic.201300448
Subject(s) - stable isotope labeling by amino acids in cell culture , myeloid leukemia , proteomics , quantitative proteomics , computational biology , myeloid , cancer research , biology , genetics , gene
As a direct consequence of the high diversity of the aggressive blood cancer acute myeloid leukemia (AML), proteomic samples from patients are strongly heterogeneous, rendering their accurate relative quantification challenging. In the present study, we investigated the benefits of using a super-SILAC mix of AML derived cell lines as internal standard (IS) for quantitative shotgun studies. The Molm-13, NB4, MV4-11, THP-1, and OCI-AML3 cell lines were selected for their complementarity with regard to clinical, cytogenetic, and molecular risk factors used for prognostication of AML patients. The resulting IS presents a high coverage of the AML proteome compared to single cell lines allied with high technical reproducibility, thus enabling its use for AML patient comparison. This was confirmed by comparing the protein regulation between the five cell lines and by applying the IS to patient material; hence, we were able to reproduce specific functional regulations known to be related to disease progression and molecular genetic abnormalities. The MS proteomics data have been deposited to the ProteomeXchange Consortium (http://proteomecentral.proteomexchange.org) via the PRIDE partner repository with the dataset identifier PXD000441.