P
Ping Yan
Researcher at Fred Hutchinson Cancer Research Center
Publications - 17
Citations - 2564
Ping Yan is an academic researcher from Fred Hutchinson Cancer Research Center. The author has contributed to research in topics: Targeted mass spectrometry & Multiplex. The author has an hindex of 14, co-authored 17 publications receiving 2108 citations.
Papers
More filters
Journal ArticleDOI
Proteogenomics connects somatic mutations to signalling in breast cancer
Philipp Mertins,D. R. Mani,Kelly V. Ruggles,Michael A. Gillette,Michael A. Gillette,Karl R. Clauser,Pei Wang,Xianlong Wang,Jana W. Qiao,Song Cao,Francesca Petralia,Emily Kawaler,Filip Mundt,Filip Mundt,Karsten Krug,Zhidong Tu,Jonathan T. Lei,Michael L. Gatza,Matthew D. Wilkerson,Charles M. Perou,Venkata Yellapantula,Kuan-lin Huang,Chenwei Lin,Michael D. McLellan,Ping Yan,Sherri R. Davies,R. Reid Townsend,Steven J. Skates,Jing Wang,Bing Zhang,Christopher R. Kinsinger,Mehdi Mesri,Henry Rodriguez,Li Ding,Amanda G. Paulovich,David Fenyö,Matthew J. Ellis,Steven A. Carr +37 more
TL;DR: It is demonstrated that proteogenomic analysis of breast cancer elucidates functional consequences of somatic mutations, narrows candidate nominations for driver genes within large deletions and amplified regions, and identifies therapeutic targets.
Journal ArticleDOI
A targeted proteomics-based pipeline for verification of biomarkers in plasma
Jeffrey R. Whiteaker,Chenwei Lin,Jacob J. Kennedy,Liming Hou,Mary Trute,Izabela Sokal,Ping Yan,Regine M. Schoenherr,Lei Zhao,Uliana J. Voytovich,Karen S. Kelly-Spratt,Alexei L. Krasnoselsky,Philip R. Gafken,Jason M. Hogan,Lisa A. Jones,Pei Wang,Lynn M. Amon,Lewis A. Chodosh,Peter S. Nelson,Martin W. McIntosh,Christopher J. Kemp,Amanda G. Paulovich +21 more
TL;DR: The analytical performance of a biomarker identification pipeline based on targeted mass spectrometry would be sufficient for data-dependent prioritization of candidate biomarkers, de novo development of assays and multiplexed biomarker verification and should support the use of an analogous approach with human samples.
Journal ArticleDOI
Panorama: a targeted proteomics knowledge base.
Vagisha Sharma,Josh Eckels,Greg K. Taylor,Nicholas J. Shulman,Andrew B. Stergachis,Shannon A. Joyner,Ping Yan,Jeffrey R. Whiteaker,Goran N. Halusa,Birgit Schilling,Bradford W. Gibson,Christopher M. Colangelo,Amanda G. Paulovich,Steven A. Carr,Jacob D. Jaffe,Michael J. MacCoss,Brendan MacLean +16 more
TL;DR: Panorama allows laboratories to store and organize curated results contained in Skyline documents with fine-grained permissions, which facilitates distributed collaboration and secure sharing of published and unpublished data via a web-browser interface.
Journal ArticleDOI
Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins
Jacob J. Kennedy,Susan E. Abbatiello,Kyunggon Kim,Ping Yan,Jeffrey R. Whiteaker,Chenwei Lin,Jun Seok Kim,Yuzheng Zhang,Xianlong Wang,Richard G. Ivey,Lei Zhao,Hophil Min,Youngju Lee,Myeong Hee Yu,Eun Gyeong Yang,Cheolju Lee,Pei Wang,Henry Rodriguez,Youngsoo Kim,Steven A. Carr,Amanda G. Paulovich +20 more
TL;DR: Peptide measurements in breast cancer cell lines were able to discriminate among molecular subtypes and identify genome-driven changes in the cancer proteome, establishing the feasibility of a large-scale effort to develop an MRM assay resource.
Journal ArticleDOI
CPTAC Assay Portal: a repository of targeted proteomic assays
Jeffrey R. Whiteaker,Goran N. Halusa,Andrew N. Hoofnagle,Vagisha Sharma,Brendan MacLean,Ping Yan,John A. Wrobel,Jacob J. Kennedy,D. R. Mani,Lisa J. Zimmerman,Matthew R. Meyer,Mehdi Mesri,Henry Rodriguez,Amanda G. Paulovich,Susan E. Abbatiello,Emily S. Boja,Steven A. Carr,Daniel W. Chan,Xian Chen,Jing Chen,Sherri R. Davies,Matthew J. Ellis,David Fenyö,Tara Hiltke,K. A. Ketchum,Christopher R. Kinsinger,Eric Kuhn,Daniel C. Liebler,De Lin,Tao Liu,Michael Loss,Michael J. MacCoss,Wei-Jun Qian,Robert Rivers,Karin D. Rodland,Kelly V. Ruggles,Mitchell G. Scott,Richard D. Smith,Stefani N. Thomas,R. Reid Townsend,Gordon Whiteley,Chaochao Wu,Hui Zhang,Zhen Zhang +43 more
TL;DR: To address these issues, the Clinical Proteomic Tumor Analysis Consortium (CPTAC) of the National Cancer Institute has launched an Assay Portal to serve as a public repository of well-characterized quantitative, MS-based, targeted proteomic assays.