Dataset Information

Quantitative Proteomics of the Cancer Cell Line Encyclopedia

ABSTRACT: The Cancer Cell Line Encyclopedia (CCLE) is a collaborative effort to generate steady-state large-scale profiling across a collection of nearly a thousand cancer cell lines. Multiple generations of this effort have resulted in a collection of many data types such as RNA expression, mutation annotation, and drug sensitivity data. Included here are whole proteome profiles for 375 cell lines in this collection collected using TMT 10-plex reagent and SPS-MS3 acquisition. They include cell lines from many tissue lineages with various underlying oncogenic mutations. The fully normalized data downstream of these raw files as well as the many other datasets in the CCLE are availble at https://depmap.org/portal/.

INSTRUMENT(S): Orbitrap Fusion Lumos, Orbitrap Fusion

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

SUBMITTER: Steven P Gygi

PROVIDER: MSV000085836 | MassIVE | Mon Jul 27 18:01:00 BST 2020

REPOSITORIES: MassIVE

ACCESS DATA

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Publications

Quantitative Proteomics of the Cancer Cell Line Encyclopedia.

Nusinow David P DP Szpyt John J Ghandi Mahmoud M Rose Christopher M CM McDonald E Robert ER Kalocsay Marian M Jané-Valbuena Judit J Gelfand Ellen E Schweppe Devin K DK Jedrychowski Mark M Golji Javad J Porter Dale A DA Rejtar Tomas T Wang Y Karen YK Kryukov Gregory V GV Stegmeier Frank F Erickson Brian K BK Garraway Levi A LA Sellers William R WR Gygi Steven P SP

Cell 20200101 2

Proteins are essential agents of biological processes. To date, large-scale profiling of cell line collections including the Cancer Cell Line Encyclopedia (CCLE) has focused primarily on genetic information whereas deep interrogation of the proteome has remained out of reach. Here, we expand the CCLE through quantitative profiling of thousands of proteins by mass spectrometry across 375 cell lines from diverse lineages to reveal information undiscovered by DNA and RNA methods. We observe unexpec ...[more]

PMID: 31978347

Similar Datasets

Project description:<p>The Human Genetic Cell Repository (HGCR) is sponsored by the <a href="http://www.nigms.nih.gov/" target="_blank">National Institute of General Medical Sciences (NIGMS)</a> with the mission of supplying scientists with the materials for accelerating disease gene discovery and functional studies. The resources available include highly-characterized, contaminant-free fibroblast cell lines, transformed lymphoblastoid cell lines (LCLs), and DNA samples derived from these cultures. While the Repository has a major emphasis on inherited diseases, it also contains large collections of cell lines gathered from populations around the world that are intended for use in facilitating the understanding of human variation. Prominent among these resources is the CEPH Reference Family collection contributed by the Centre d'Etude du Polymorphisme Humain (<a href="http://landru.cephb.fr/" target="_blank">CEPH</a>), Foundation Jean Dausset, Paris, France. The CEPH collection includes families collected by R. White (Utah), J. Dausset (French), J. Gusella (Venezuelan), and J. Egeland (Amish). There are a total of 809 individuals accounting for 832 pedigree positions in the reference families. Family relationships for the 61 reference families were verified at Coriell and approved by CEPH. In an effort to enhance the value of this cell culture resource available from the Repository, the Coriell Genotyping and Microarray Center used the Affymetrix Genome-Wide Human SNP Array 6.0 platform to genotype 181 samples from the NIGMS HGCR CEPH collection. Included are thirteen families from the United States (Amish Pedigree 884 and Utah Pedigrees 1331, 1356, 1400, 1416, 1424, 1427, 1477, and 1582), France (Pedigrees 35 and 66), and Venezuela (Pedigrees 102 and 104). Twelve of the families consist of 3 generations and one family consists of 2 generations. Pedigree charts and sample descriptions are available on the Repository catalog website (see below).</p>