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PXD008952 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleEvaluation of NCI-7 Cell Line Panel
DescriptionReference materials are vital to benchmarking the reproducibility of clinical tests and essential for monitoring laboratory performance for clinical proteomics. The reference material utilized for mass spectrometric analysis of the human proteome would ideally contain enough proteins to be suitably representative of the human proteome, as well as exhibit a stable protein composition in different batches of sample regeneration. Previously, The Clinical Proteomic Tumor Analysis Consortium (CPTAC) utilized PDX-derived comparative reference (CompRef) materials for the longitudinal assessment of proteomic performance, however, inherent drawbacks of PDX-derived material has resulted in efforts to identify a new source of CompRef material. In this study, we examined the utility of using a panel of seven cancer cell lines, NCI-7 Cell Line Panel, as a reference material for mass spectrometric analysis of the human proteome. Our results showed that not only is the NCI-7 material suitable for benchmarking laboratory sample preparation methods, but NCI-7 sample generation is highly reproducible at both the global and phosphoprotein levels. In addition, the predicted genomic and experimental coverage of the NCI-7 proteome suggests the NCI-7 material may also have applications as a universal standard proteomic reference.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterDavid Clark
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListPhospho; TMT6plex; Oxidation; Carbamidomethyl
InstrumentOrbitrap Fusion Lumos; Q Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02018-02-14 01:34:02ID requested
12018-05-14 03:29:49announced
Publication List
Clark DJ, Hu Y, Bocik W, Chen L, Schnaubelt M, Roberts R, Shah P, Whiteley G, Zhang H, Evaluation of NCI-7 Cell Line Panel as a Reference Material for Clinical Proteomics. J Proteome Res, 17(6):2205-2215(2018) [pubmed]
Keyword List
ProteomeXchange project tag: Reference, CPTAC Consortium
curator keyword: Biological
submitter keyword: CPTAC, NCI-7, NCI-60, proteomics reference standard
Contact List
Hui Zhang
contact affiliationClinical Chemistry Division, Department of Pathology, The Johns Hopkins University, Baltimore, MD, USA
contact emailhuizhang@jhu.edu
lab head
David Clark
contact affiliationThe Johns Hopkins University
contact emaildclark71@jhmi.edu
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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