Matthew C Chambers
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Explore the profile of Matthew C Chambers including associated specialties, affiliations and a list of published articles.
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29
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3830
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Recent Articles
1.
Kumar P, Johnson J, McGowan T, Chambers M, Heydarian M, Mehta S, et al.
Methods Mol Biol
. 2024 Oct;
2859:109-128.
PMID: 39436599
Proteogenomics is a growing "multi-omics" research area that combines mass spectrometry-based proteomics and high-throughput nucleotide sequencing technologies. Proteogenomics has helped in genomic annotation for organisms whose complete genome sequences became...
2.
Thangudu R, Holck M, Singhal D, Pilozzi A, Edwards N, Rudnick P, et al.
Cancer Res Commun
. 2024 Sep;
4(9):2480-2488.
PMID: 39225545
Significance: The Proteomic Data Commons (PDC) plays a crucial role in advancing cancer research by providing a centralized repository of high-quality cancer proteomic data, enriched with extensive clinical annotations. By...
3.
Reiter K, Zelter A, Janowska M, Riffle M, Shulman N, MacLean B, et al.
Structure
. 2022 Jun;
30(9):1269-1284.e6.
PMID: 35716664
RING-between-RING (RBR) E3 ligases mediate ubiquitin transfer through an obligate E3-ubiquitin thioester intermediate prior to substrate ubiquitination. Although RBRs share a conserved catalytic module, substrate recruitment mechanisms remain enigmatic, and...
4.
Vasaikar S, Huang C, Wang X, Petyuk V, Savage S, Wen B, et al.
Cell
. 2019 Apr;
177(4):1035-1049.e19.
PMID: 31031003
We performed the first proteogenomic study on a prospectively collected colon cancer cohort. Comparative proteomic and phosphoproteomic analysis of paired tumor and normal adjacent tissues produced a catalog of colon...
5.
Wang X, Codreanu S, Wen B, Li K, Chambers M, Liebler D, et al.
Mol Cell Proteomics
. 2017 Dec;
17(3):422-430.
PMID: 29222161
Alternative splicing dramatically increases transcriptome complexity but its contribution to proteome diversity remains controversial. Exon-exon junction spanning peptides provide direct evidence for the translation of specific splice isoforms and are...
6.
Chambers M, Jagtap P, Johnson J, McGowan T, Kumar P, Onsongo G, et al.
Cancer Res
. 2017 Nov;
77(21):e43-e46.
PMID: 29092937
Proteogenomics has emerged as a valuable approach in cancer research, which integrates genomic and transcriptomic data with mass spectrometry-based proteomics data to directly identify expressed, variant protein sequences that may...
7.
Wang J, Mouradov D, Wang X, Jorissen R, Chambers M, Zimmerman L, et al.
Gastroenterology
. 2017 Jun;
153(4):1082-1095.
PMID: 28625833
Background And Aims: Proteomics holds promise for individualizing cancer treatment. We analyzed to what extent the proteomic landscape of human colorectal cancer (CRC) is maintained in established CRC cell lines...
8.
Kochen M, Chambers M, Holman J, Nesvizhskii A, Weintraub S, Belisle J, et al.
Anal Chem
. 2016 May;
88(11):5733-41.
PMID: 27186799
Lipid identification from data produced with high-throughput technologies is essential to the elucidation of the roles played by lipids in cellular function and disease. Software tools for identifying lipids from...
9.
Wang X, Slebos R, Chambers M, Tabb D, Liebler D, Zhang B
Mol Cell Proteomics
. 2015 Dec;
15(3):1164-75.
PMID: 26657539
To facilitate genome-based representation and analysis of proteomics data, we developed a new bioinformatics framework, proBAMsuite, in which a central component is the protein BAM (proBAM) file format for organizing...
10.
Tabb D, Wang X, Carr S, Clauser K, Mertins P, Chambers M, et al.
J Proteome Res
. 2015 Dec;
15(3):691-706.
PMID: 26653538
The NCI Clinical Proteomic Tumor Analysis Consortium (CPTAC) employed a pair of reference xenograft proteomes for initial platform validation and ongoing quality control of its data collection for The Cancer...