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Guo, T.* ; Luna, A.* ; Rajapakse, V.N.* ; Koh, C.C.* ; Wu, Z.* ; Liu, W.* ; Sun, Y.* ; Gao, H.* ; Menden, M. ; Xu, C.* ; Calzone, L.* ; Martignetti, L.* ; Auwerx, C.* ; Buljan, M.* ; Banaei-Esfahani, A.* ; Ori, A.* ; Iskar, M.* ; Gillet, L.* ; Bi, R.* ; Zhang, J.* ; Zhang, H.* ; Yu, C.* ; Zhong, Q.* ; Varma, S.* ; Schmitt, U.* ; Qiu, P.* ; Zhang, Q.* ; Zhu, Y.* ; Wild, P.J.* ; Garnett, M.J.* ; Bork, P.* ; Beck, M.* ; Liu, K.* ; Saez-Rodriguez, J.* ; Elloumi, F.* ; Reinhold, W.C.* ; Sander, C.* ; Pommier, Y.* ; Aebersold, R.*

Quantitative proteome landscape of the NCI-60 cancer cell lines.

iScience 21, 664-680 (2019)
DOI
Creative Commons Lizenzvertrag
Open Access Gold as soon as Publ. Version/Full Text is submitted to ZB.
Here we describe a proteomic data resource for the NCI-60 cell lines generated by pressure cycling technology and SWATH mass spectrometry. We developed the DIA-expert software to curate and visualize the SWATH data, leading to reproducible detection of over 3,100 SwissProt proteotypic proteins and systematic quantification of pathway activities. Stoichiometric relationships of interacting proteins for DNA replication, repair, the chromatin remodeling NuRD complex, β-catenin, RNA metabolism, and prefoldins are more evident than that at the mRNA level. The data are available in CellMiner (discover.nci.nih.gov/cellminercdb and discover.nci.nih.gov/cellminer), allowing casual users to test hypotheses and perform integrative, cross-database analyses of multi-omic drug response correlations for over 20,000 drugs. We demonstrate the value of proteome data in predicting drug response for over 240 clinically relevant chemotherapeutic and targeted therapies. In summary, we present a novel proteome resource for the NCI-60, together with relevant software tools, and demonstrate the benefit of proteome analyses.
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Publication type Article: Journal article
Document type Scientific Article
Keywords Biological Sciences ; Cancer Systems Biology ; Proteomics ; Systems Biology
ISSN (print) / ISBN 2589-0042
e-ISSN 2589-0042
Journal iScience
Quellenangaben Volume: 21, Issue: , Pages: 664-680 Article Number: , Supplement: ,
Publisher Elsevier
Publishing Place Amsterdam ; Bosten ; London ; New York ; Oxford ; Paris ; Philadelphia ; San Diego ; St. Louis
Reviewing status Peer reviewed