Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

Brendan MacLean, Daniela M. Tomazela, Nicholas Shulman, +7

Bioinformatics

Platform-independent and Label-free Quantitation of Proteomic Data Using MS1 Extracted Ion Chromatograms in Skyline

Birgit Schilling, Matthew J. Rardin, Brendan MacLean, +11

Molecular & Cellular Proteomics

Skyline Ms1 FilteringBiological Mass SpectrometryProteomic TechnologyBioanalysisBiostatistics +17

Quantitative Trait Loci Affecting Differences in Floral Morphology Between Two Species of Monkeyflower (Mimulus)

H. D. Bradshaw, Kevin G. Otto, Barbara Frewen, +2

Genetics

Quantitative Trait Loci and Candidate Gene Mapping of Bud Set and Bud Flush in Populus

Barbara Frewen, Glenn T. Howe, Joel Davis, +3

Genetics

Analysis of Peptide MS/MS Spectra from Large-Scale Proteomics Experiments Using Spectrum Libraries

Barbara Frewen, Gennifer E. Merrihew, Christine C. Wu, +2

Analytical Chemistry

Molecular BiologyProteomic TechnologyProteomicsTandem Mass SpectraBiochemistry +14

Expediting the Development of Targeted SRM Assays: Using Data from Shotgun Proteomics to Automate Method Development

Amol Prakash, Daniela M. Tomazela, Barbara Frewen, +4

Journal of Proteome Research

EngineeringMolecular BiologyProteomic TechnologyBioanalysisAutomate Method Development +21

Using BiblioSpec for Creating and Searching Tandem MS Peptide Libraries

Barbara Frewen, Michael J. MacCoss

Current Protocols in Bioinformatics

Peptide EngineeringMolecular BiologyBioinformatics DatabaseProteomicsTargeted Library +15

Use of shotgun proteomics for the identification, confirmation, and correction of <i>C. elegans</i> gene annotations

Gennifer E. Merrihew, Colleen Davis, Brent Ewing, +7

Genome Research

Hybrid Data Acquisition and Processing Strategies with Increased Throughput and Selectivity: pSMART Analysis for Global Qualitative and Quantitative Analysis

Amol Prakash, Scott Peterman, Shadab Ahmad, +7

Journal of Proteome Research

EngineeringData PreparationData-dependent AcquisitionData ScienceData Acquisition +20

Physiological and Genetic Approaches to Studying Endodormancy-related Traits in Populus

Glenn T. Howe, Joel Davis, Zoran Jeknić, +3

HortScience