J
Jimmy K. Eng
Researcher at University of Washington
Publications - 171
Citations - 37832
Jimmy K. Eng is an academic researcher from University of Washington. The author has contributed to research in topics: Mass spectrometry & Proteome. The author has an hindex of 77, co-authored 168 publications receiving 35701 citations. Previous affiliations of Jimmy K. Eng include Oregon Health & Science University & Fred Hutchinson Cancer Research Center.
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Journal ArticleDOI
Comet: An open-source MS/MS sequence database search tool
TL;DR: The Comet search engine is introduced, open source, freely available, and based on one of the original sequence database search tools that has been widely used for many years.
Journal ArticleDOI
Quantitative profiling of differentiation-induced microsomal proteins using isotope-coded affinity tags and mass spectrometry.
TL;DR: The method and the new software tools to support it are well suited to the large-scale, quantitative analysis of membrane proteins and other classes of proteins that have been refractory to standard proteomics technology.
Journal ArticleDOI
Overview of the HUPO Plasma Proteome Project: results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core dataset of 3020 proteins and a publicly-available database.
Gilbert S. Omenn,David J. States,Marcin Adamski,Thomas W. Blackwell,Rajasree Menon,Henning Hermjakob,Rolf Apweiler,Brian B. Haab,Richard J. Simpson,James S. Eddes,Eugene A. Kapp,Robert L. Moritz,Daniel W. Chan,Alex J. Rai,Arie Admon,Ruedi Aebersold,Ruedi Aebersold,Jimmy K. Eng,William S. Hancock,Stanley A. Hefta,Helmut E. Meyer,Young Ki Paik,Jong Shin Yoo,Peipei Ping,Joel G. Pounds,Joshua N. Adkins,Xiaohong Qian,Rong Wang,Valerie C. Wasinger,Chi Yue Wu,Xiaohang Zhao,Rong Zeng,Alexander I. Archakov,Akira Tsugita,Ilan Beer,Akhilesh Pandey,Michael Pisano,Philip C. Andrews,Harald Tammen,David W. Speicher,Samir M. Hanash,Samir M. Hanash +41 more
TL;DR: Reverse protein to DNA matching identified proteins for 118 previously unidentified ORFs in the PPP database, and the database permits examination of many other subsets, such as 1274 proteins identified with three or more peptides.
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Integrated Genomic and Proteomic Analyses of Gene Expression in Mammalian Cells
Qiang Tian,Serguei B. Stepaniants,Mao Mao,Lee Weng,Megan C. Feetham,Michelle J. Doyle,Eugene C. Yi,Hongyue Dai,Vesteinn Thorsson,Jimmy K. Eng,David R. Goodlett,Joel P. Berger,Bert Gunter,Peter S. Linseley,Roland Stoughton,Ruedi Aebersold,Steven J. Collins,William A. Hanlon,Leroy Hood +18 more
TL;DR: Although the overall pattern of protein expression is similar to that of mRNA expression, the incongruent expression between mRNAs and proteins emphasize the importance of posttranscriptional regulatory mechanisms in cellular development or perturbation that can be unveiled only through integrated analyses of both proteins and m RNAs.
Journal ArticleDOI
A common open representation of mass spectrometry data and its application to proteomics research
Patrick G. A. Pedrioli,Jimmy K. Eng,Robert Hubley,Mathijs Vogelzang,Eric W. Deutsch,Brian Raught,Brian S. Pratt,Erik Nilsson,Ruth Hogue Angeletti,Rolf Apweiler,Kei Cheung,Catherine E. Costello,Henning Hermjakob,Sequin Huang,Randall K. Julian,Eugene A. Kapp,Mark E. McComb,Stephen G. Oliver,Gilbert S. Omenn,Norman W. Paton,Richard J. Simpson,Richard D. Smith,Chris F. Taylor,Weimin Zhu,Ruedi Aebersold +24 more
TL;DR: The 'mzXML' format is introduced, an open, generic XML (extensible markup language) representation of MS data that will facilitate data management, interpretation and dissemination in proteomics research.