Jimmy K Eng

发表

XLink-DB: database and software tools for storing and visualizing protein interaction topology data.

Vagisha Sharma, Xia Wu, Chunxiang Zheng, 2013, Journal of proteome research.

Andrew Keller, Juan D Chavez, Jimmy K Eng, 2018, Journal of proteome research.

An evaluation, comparison, and accurate benchmarking of several publicly available MS/MS search algorithms: Sensitivity and specificity analysis

Gilbert S Omenn, Richard J Simpson, Jimmy K Eng, 2005, Proteomics.

A Mass Spectrometry Proteomics Data Management Platform*

Michael Riffle, Vagisha Sharma, Jimmy K Eng, 2012, Molecular & Cellular Proteomics.

Fast parallel tandem mass spectral library searching using GPU hardware acceleration.

Jimmy K Eng, Lydia Ashleigh Baumgardner, Avinash Kumar Shanmugam, 2011, Journal of proteome research.

The standard protein mix database: a diverse data set to assist in the production of improved Peptide and protein identification software tools.

Ruedi Aebersold, Jimmy K Eng, Parag Mallick, 2008, Journal of proteome research.

Proteomics data repositories

Michael Riffle, Jimmy K Eng, J. Eng, 2009, Proteomics.

Extending Comet for Global Amino Acid Variant and Post‐Translational Modification Analysis Using the PSI Extended FASTA Format

Eric W Deutsch, Jimmy K Eng, J. Eng, 2020, Proteomics.

Building consensus spectral libraries for peptide identification in proteomics

Ruedi Aebersold, Eric W Deutsch, Stephen E Stein, 2008, Nature Methods.

Protein Identification Using TurboSEQUEST

Jimmy K Eng, David K Han, Deborah H Lundgren, 2005, Current protocols in bioinformatics.

Installation and Use of LabKey Server for Proteomics

Jonathan Katz, Adam Rauch, Wendy Law, 2011, Current protocols in bioinformatics.

Full-featured, real-time database searching platform enables fast and accurate multiplexed quantitative proteomics.

Ramin Rad, Devin K Schweppe, Qing Yu, 2020, Journal of proteome research.

Proteomics Standards Initiative Extended FASTA Format (PEFF)

Harald Barsnes, Martin Eisenacher, Yasset Perez-Riverol, 2019, bioRxiv.

Quantification of the compositional information provided by immonium ions on a quadrupole-time-of-flight mass spectrometer.

Olga Vitek, Jimmy K Eng, Daniel B Martin, 2008, Analytical chemistry.

Quantitative Proteomics Based on Optimized Data-Independent Acquisition in Plasma Analysis.

Ziding Feng, Jimmy K Eng, Qingxiang Yan, 2017, Journal of proteome research.

Initial Proteome Analysis of Model Microorganism Haemophilus influenzae Strain Rd KW20

Alexey I Nesvizhskii, Michael Y. Galperin, Andrew Keller, 2003, Journal of bacteriology.

Cross-linking measurements of the Potato leafroll virus reveal protein interaction topologies required for virion stability, aphid transmission, and virus-plant interactions.

Chad R Weisbrod, Juan D Chavez, Jimmy K Eng, 2012, Journal of proteome research.

MaRiMba: a software application for spectral library-based MRM transition list assembly.

Luis Mendoza, Ruedi Aebersold, Eric W Deutsch, 2009, Journal of proteome research.

Quality control metrics for LC-MS feature detection tools demonstrated on Saccharomyces cerevisiae proteomic profiles.

Jeffrey Whiteaker, Heidi Zhang, Pei Wang, 2006, Journal of proteome research.

Quantitative phosphoproteome analysis using a dendrimer conjugation chemistry and tandem mass spectrometry

Ruedi Aebersold, Bernd Wollscheid, Leroy Hood, 2005, Nature Methods.

A Deeper Look into Comet—Implementation and Features

Michael J MacCoss, William Stafford Noble, William S Noble, 2015, Journal of The American Society for Mass Spectrometry.

Global Survey of Human T Leukemic Cells by Integrating Proteomics and Transcriptomics Profiling*S

Mark Gerstein, Jimmy K Eng, Linfeng Wu, 2007, Molecular & Cellular Proteomics.

In vivo protein interaction network analysis reveals porin-localized antibiotic inactivation in Acinetobacter baumannii strain AB5075

Devin K Schweppe, Chunxiang Zheng, Chad R Weisbrod, 2016, Nature Communications.

In vivo protein interaction network identified with a novel real-time cross-linked peptide identification strategy.

Li Yang, Chunxiang Zheng, Chad R Weisbrod, 2013, Journal of proteome research.

Mango: A General Tool for Collision Induced Dissociation-Cleavable Cross-Linked Peptide Identification.

Juan D Chavez, Jimmy K Eng, James E Bruce, 2018, Analytical chemistry.

Cross-linking Measurements of In Vivo Protein Complex Topologies*

Michael R Hoopmann, Chunxiang Zheng, Chad R Weisbrod, 2011, Molecular & Cellular Proteomics.

Precursor charge state prediction for electron transfer dissociation tandem mass spectra.

Michael J MacCoss, Sergey Feldman, Vagisha Sharma, 2010, Journal of proteome research.

Probing the protein interaction network of Pseudomonas aeruginosa cells by chemical cross-linking mass spectrometry.

Chunxiang Zheng, Chad R Weisbrod, Juan D Chavez, 2015, Structure.

Integrated pipeline for mass spectrometry-based discovery and confirmation of biomarkers demonstrated in a mouse model of breast cancer.

Heidi Zhang, Pei Wang, Jeffrey R. Whiteaker, 2007, Journal of proteome research.

Protein Interactions, Post-translational Modifications and Topologies in Human Cells*

Chunxiang Zheng, Chad R Weisbrod, Juan D Chavez, 2013, Molecular & Cellular Proteomics.

Sites of ubiquitin attachment in Saccharomyces cerevisiae

Jimmy K Eng, Stanley Fields, S. Fields, 2012, Proteomics.

Spectral Library Searching To Identify Cross-Linked Peptides.

Devin K Schweppe, Juan D Chavez, Jimmy K Eng, 2016, Journal of proteome research.

An integrated chemical, mass spectrometric and computational strategy for (quantitative) phosphoproteomics: application to Drosophila melanogaster Kc167 cells.

Ruedi Aebersold, Jimmy K Eng, Bernd Bodenmiller, 2007, Molecular bioSystems.

An alternative sampling algorithm for use in liquid chromatography/tandem mass spectrometry experiments.

Jimmy K Eng, Roger M Nitsch, Uwe Konietzko, 2005, Rapid communications in mass spectrometry : RCM.

Trans‐Proteomic Pipeline supports and improves analysis of electron transfer dissociation data sets

Luis Mendoza, Ruedi Aebersold, Eric W Deutsch, 2010, Proteomics.

Investigation of neutral loss during collision-induced dissociation of peptide ions.

Alexey I Nesvizhskii, Ruedi Aebersold, Jimmy K Eng, 2005, Analytical chemistry.

A Tandem Mass Spectrometry Sequence Database Search Method for Identification of O-Fucosylated Proteins by Mass Spectrometry.

Luis Mendoza, Eric W Deutsch, Robert L Moritz, 2018, Journal of proteome research.

In Vivo Conformational Dynamics of Hsp90 and Its Interactors.

Devin K Schweppe, Juan D Chavez, Jimmy K Eng, 2016, Cell chemical biology.