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51

Proteomic analysis of adducted butyrylcholinesterase for biomonitoring organophosphorus exposures

Marsillach, Judit, Hsieh, Edward J., Richter, Rebecca J., MacCoss, Michael J., Furlong, Clement E.

Journal:

Chemico-Biological Interactions

Year:

2013

Language:

english

File:

PDF, 765 KB

english, 2013

52

A Fast SEQUEST Cross Correlation Algorithm

Eng, Jimmy K., Fischer, Bernd, Grossmann, Jonas, MacCoss, Michael J.

Journal:

Journal of Proteome Research

Year:

2008

Language:

english

File:

PDF, 1.04 MB

english, 2008

53

Rapid empirical discovery of optimal peptides for targeted proteomics

Stergachis, Andrew B, MacLean, Brendan, Lee, Kristen, Stamatoyannopoulos, John A, MacCoss, Michael J

Journal:

Year:

2011

Language:

english

File:

PDF, 609 KB

english, 2011

54

Posterior Error Probabilities and False Discovery Rates: Two Sides of the Same Coin

Käll, Lukas, Storey, John D., MacCoss, Michael J., Noble, William Stafford

Journal:

Journal of Proteome Research

Year:

2008

Language:

english

File:

PDF, 275 KB

english, 2008

55

Assigning Significance to Peptides Identified by Tandem Mass Spectrometry Using Decoy Databases

Käll, Lukas, Storey, John D., MacCoss, Michael J., Noble, William Stafford

Journal:

Journal of Proteome Research

Year:

2008

Language:

english

File:

PDF, 1.06 MB

english, 2008

56

A Correlation Algorithm for the Automated Quantitative Analysis of Shotgun Proteomics Data

MacCoss, Michael J., Wu, Christine C., Liu, Hongbin, Sadygov, Rovshan, Yates, John R.

Journal:

Analytical Chemistry

Year:

2003

Language:

english

File:

PDF, 334 KB

english, 2003

57

Implementation of Statistical Process Control for Proteomic Experiments Via LC MS/MS

Bereman, Michael S., Johnson, Richard, Bollinger, James, Boss, Yuval, Shulman, Nick, MacLean, Brendan, Hoofnagle, Andrew N., MacCoss, Michael J.

Journal:

Journal of the American Society for Mass Spectrometry

Year:

2014

Language:

english

File:

PDF, 478 KB

english, 2014

58

Accounting for Population Variation in Targeted Proteomics

Fujimoto, Grant M., Monroe, Matthew E., Rodriguez, Larissa, Wu, Chaochao, MacLean, Brendan, Smith, Richard D., MacCoss, Michael J., Payne, Samuel H.

Journal:

Journal of Proteome Research

Year:

2014

Language:

english

File:

PDF, 322 KB

english, 2014

59

Divergent Effects of Age on Mitochondrial Function in Fast Twitch and Slow Twitch Skeletal Muscle

Edward Kruse, Shane, Karunadharma, Pabalu, MacCoss, Michael, Rabinovitch, Peter

Journal:

Free Radical Biology and Medicine

Year:

2013

Language:

english

File:

PDF, 76 KB

english, 2013

60

Efficient Marginalization to Compute Protein Posterior Probabilities from Shotgun Mass Spectrometry Data

Serang, Oliver, MacCoss, Michael J., Noble, William Stafford

Journal:

Journal of Proteome Research

Year:

2010

Language:

english

File:

PDF, 1.51 MB

english, 2010

61

Evaluation and Optimization of Ion-Current Ratio Measurements by Selected-Ion-Monitoring Mass Spectrometry

MacCoss, Michael J., Toth, Michael J., Matthews, Dwight E.

Journal:

Analytical Chemistry

Year:

2001

Language:

english

File:

PDF, 98 KB

english, 2001

62

Similarity among Tandem Mass Spectra from Proteomic Experiments: Detection, Significance, and Utility

Tabb, David L., MacCoss, Michael J., Wu, Christine C., Anderson, Scott D., Yates, John R.

Journal:

Analytical Chemistry

Year:

2003

Language:

english

File:

PDF, 170 KB

english, 2003

63

Quantitative MS for Proteomics: Teaching a New Dog Old Tricks

MacCoss, Michael J., Matthews, Dwight E.

Journal:

Analytical Chemistry

Year:

2005

Language:

english

File:

PDF, 684 KB

english, 2005

64

Label-Free Comparative Analysis of Proteomics Mixtures Using Chromatographic Alignment of High-Resolution μLC−MS Data

Finney, Gregory L., Blackler, Adele R., Hoopmann, Michael R., Canterbury, Jesse D., Wu, Christine C., MacCoss, Michael J.

Journal:

Analytical Chemistry

Year:

2008

Language:

english

File:

PDF, 714 KB

english, 2008

65

Effect of Collision Energy Optimization on the Measurement of Peptides by Selected Reaction Monitoring (SRM) Mass Spectrometry

MacLean, Brendan, Tomazela, Daniela M., Abbatiello, Susan E., Zhang, Shucha, Whiteaker, Jeffrey R., Paulovich, Amanda G., Carr, Steven A., MacCoss, Michael J.

Journal:

Analytical Chemistry

Year:

2010

Language:

english

File:

PDF, 2.67 MB

english, 2010

66

Crux: Rapid Open Source Protein Tandem Mass Spectrometry Analysis

McIlwain, Sean, Tamura, Kaipo, Kertesz-Farkas, Attila, Grant, Charles E., Diament, Benjamin, Frewen, Barbara, Howbert, J. Jeffry, Hoopmann, Michael R., Käll, Lukas, Eng, Jimmy K., MacCoss, Michael J.,

Journal:

Journal of Proteome Research

Year:

2014

Language:

english

File:

PDF, 627 KB

english, 2014

67

Dual-Pressure Linear Ion Trap Mass Spectrometer Improving the Analysis of Complex Protein Mixtures

Pekar Second, Tonya, Blethrow, Justin D., Schwartz, Jae C., Merrihew, Gennifer E., MacCoss, Michael J., Swaney, Danielle L., Russell, Jason D., Coon, Joshua J., Zabrouskov, Vlad

Journal:

Analytical Chemistry

Year:

2009

Language:

english

File:

PDF, 2.07 MB

english, 2009

68

Measurement of the Isotope Enrichment of Stable Isotope-Labeled Proteins Using High-Resolution Mass Spectra of Peptides

MacCoss, Michael J., Wu, Christine C., Matthews, Dwight E., Yates, John R.

Journal:

Analytical Chemistry

Year:

2005

Language:

english

File:

PDF, 163 KB

english, 2005

69

Evidence for a Post-Translational Modification, Aspartyl Aldehyde, in a Photosynthetic Membrane Protein

Anderson, Lorraine B., Ouellette, Anthony J. A., Eaton-Rye, Julian, Maderia, Melissa, MacCoss, Michael J., Yates, John R., Barry, Bridgette A.

Journal:

Journal of the American Chemical Society

Year:

2004

Language:

english

File:

PDF, 119 KB

english, 2004

70

Assessing the Dynamic Range and Peak Capacity of Nanoflow LC−FAIMS−MS on an Ion Trap Mass Spectrometer for Proteomics

Canterbury, Jesse D., Yi, Xianhua, Hoopmann, Michael R., MacCoss, Michael J.

Journal:

Analytical Chemistry

Year:

2008

Language:

english

File:

PDF, 1.09 MB

english, 2008

71

Post Analysis Data Acquisition for the Iterative MS/MS Sampling of Proteomics Mixtures

Hoopmann, Michael R., Merrihew, Gennifer E., von Haller, Priska D., MacCoss, Michael J.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.08 MB

english, 2009

72

Measurement of Homocysteine Concentrations and Stable Isotope Tracer Enrichments in Human Plasma

MacCoss, Michael J., Fukagawa, Naomi K., Matthews, Dwight E.

Journal:

Analytical Chemistry

Year:

1999

Language:

english

File:

PDF, 92 KB

english, 1999

73

Deconvolution of Mixture Spectra from Ion-Trap Data-Independent-Acquisition Tandem Mass Spectrometry

Bern, Marshall, Finney, Gregory, Hoopmann, Michael R., Merrihew, Gennifer, Toth, Michael J., MacCoss, Michael J.

Journal:

Analytical Chemistry

Year:

2010

Language:

english

File:

PDF, 1.72 MB

english, 2010

74

Effects of Modified Digestion Schemes on the Identification of Proteins from Complex Mixtures

Klammer, Aaron A., MacCoss, Michael J.

Journal:

Journal of Proteome Research

Year:

2006

Language:

english

File:

PDF, 101 KB

english, 2006

75

Evaluation of Front-End Higher Energy Collision-Induced Dissociation on a Benchtop Dual-Pressure Linear Ion Trap Mass Spectrometer for Shotgun Proteomics

Bereman, Michael S., Canterbury, Jesse D., Egertson, Jarrett D., Horner, Julie, Remes, Philip M., Schwartz, Jae, Zabrouskov, Vlad, MacCoss, Michael J.

Journal:

Analytical Chemistry

Year:

2012

Language:

english

File:

PDF, 4.18 MB

english, 2012

76

Learning Score Function Parameters for Improved Spectrum Identification in Tandem Mass Spectrometry Experiments

Spivak, Marina, Bereman, Michael S., MacCoss, Michael J., Noble, William Stafford

Journal:

Journal of Proteome Research

Year:

2012

Language:

english

File:

PDF, 1.67 MB

english, 2012

77

Code Developments to Improve the Efficiency of Automated MS/MS Spectra Interpretation

Sadygov, Rovshan G., Eng, Jimmy, Durr, Eberhard, Saraf, Anita, McDonald, Hayes, MacCoss, Michael J., Yates, John R.

Journal:

Journal of Proteome Research

Year:

2002

Language:

english

File:

PDF, 64 KB

english, 2002

78

Quantitative Comparison of Proteomic Data Quality between a 2D and 3D Quadrupole Ion Trap

Blackler, Adele R., Klammer, Aaron A., MacCoss, Michael J., Wu, Christine C.

Journal:

Analytical Chemistry

Year:

2006

Language:

english

File:

PDF, 378 KB

english, 2006

79

Precursor Charge State Prediction for Electron Transfer Dissociation Tandem Mass Spectra

Sharma, Vagisha, Eng, Jimmy K., Feldman, Sergey, von Haller, Priska D., MacCoss, Michael J., Noble, William S.

Journal:

Journal of Proteome Research

Year:

2010

Language:

english

File:

PDF, 1.04 MB

english, 2010

80

Substrate Trapping Proteomics Reveals Targets of the βTrCP2/FBXW11 Ubiquitin Ligase

Kim, Tai Young, Siesser, Priscila F., Rossman, Kent L., Goldfarb, Dennis, Mackinnon, Kathryn, Yan, Feng, Yi, XianHua, MacCoss, Michael J., Moon, Randall T., Der, Channing J., Major, Michael B.

Journal:

Molecular and Cellular Biology

Year:

2015

Language:

english

File:

PDF, 3.14 MB

english, 2015

81

Short Term Treatment with Mitochondrial Protective Peptide Reverses Cardiac Aging in Mice

Chiao, Ying Ann, Basisty, Nathan, Sonia Ting, Ying, Szeto, Hazel H, MacCoss, Michael J, Rabinovitch, Peter S

Journal:

Free Radical Biology and Medicine

Year:

2014

Language:

english

File:

PDF, 60 KB

english, 2014

82

Mass spectrometry and next-generation sequencing reveal an abundant and rapidly evolving abalone sperm protein

PALMER, MELODY R., McDOWALL, MARGO H., STEWART, LIA, OUADDI, ALEENA, MacCOSS, MICHAEL J., SWANSON, WILLIE J.

Journal:

Molecular Reproduction and Development

Year:

2013

Language:

english

File:

PDF, 868 KB

english, 2013

83

Altered proteome turnover and remodeling by short-term caloric restriction or rapamycin rejuvenate the aging heart

Dai, Dao-Fu, Karunadharma, Pabalu P., Chiao, Ying A., Basisty, Nathan, Crispin, David, Hsieh, Edward J., Chen, Tony, Gu, Haiwei, Djukovic, Danijel, Raftery, Daniel, Beyer, Richard P., MacCoss, Michael

Journal:

Year:

2014

Language:

english

File:

PDF, 1.06 MB

english, 2014

84

Distinct roles of FKF1, GIGANTEA, and ZEITLUPE proteins in the regulation of CONSTANS stability in Arabidopsis photoperiodic flowering

Song, Young Hun, Estrada, Daniel A., Johnson, Richard S., Kim, Somi K., Lee, Sang Yeol, MacCoss, Michael J., Imaizumi, Takato

Journal:

Proceedings of the National Academy of Sciences

Year:

2014

Language:

english

File:

PDF, 879 KB

english, 2014

85

Insights Into the Polerovirus– Plant Interactome Revealed by Coimmunoprecipitation and Mass Spectrometry

DeBlasio, Stacy L., Johnson, Richard, Mahoney, Jaclyn, Karasev, Alexander, Gray, Stewart M., MacCoss, Michael J., Cilia, Michelle

Journal:

Molecular Plant-Microbe Interactions

Year:

2015

Language:

english

File:

PDF, 3.45 MB

english, 2015

86

Hyaluronan enhances wound repair and increases collagen III in aged dermal wounds

Damodarasamy, Mamatha, Johnson, Richard S., Bentov, Itay, MacCoss, Michael J., Vernon, Robert B., Reed, May J.

Journal:

Wound Repair and Regeneration

Year:

2014

Language:

english

File:

PDF, 339 KB

english, 2014

87

Comparison of Data Acquisition Strategies on Quadrupole Ion Trap Instrumentation for Shotgun Proteomics

Canterbury, Jesse D., Merrihew, Gennifer E., MacCoss, Michael J., Goodlett, David R., Shaffer, Scott A.

Journal:

Journal of the American Society for Mass Spectrometry

Year:

2014

Language:

english

File:

PDF, 1.20 MB

english, 2014

88

Potato leafroll virus structural proteins manipulate overlapping, yet distinct protein interaction networks during infection

DeBlasio, Stacy L., Johnson, Richard, Sweeney, Michelle M., Karasev, Alexander, Gray, Stewart M., MacCoss, Michael J., Cilia, Michelle

Journal:

Year:

2015

Language:

english

File:

PDF, 999 KB

english, 2015

89

Multiplexed peptide analysis using data-independent acquisition and Skyline

Egertson, Jarrett D, MacLean, Brendan, Johnson, Richard, Xuan, Yue, MacCoss, Michael J

Journal:

Nature Protocols

Year:

2015

Language:

english

File:

PDF, 5.34 MB

english, 2015

90

A Deeper Look into Comet—Implementation and Features

Eng, Jimmy K., Hoopmann, Michael R., Jahan, Tahmina A., Egertson, Jarrett D., Noble, William S., MacCoss, Michael J.

Journal:

Journal of the American Society for Mass Spectrometry

Year:

2015

Language:

english

File:

PDF, 1.54 MB

english, 2015

91

Visualization and Dissemination of Multidimensional Proteomics Data Comparing Protein Abundance DuringCaenorhabditis elegansDevelopment

Riffle, Michael, Merrihew, Gennifer E., Jaschob, Daniel, Sharma, Vagisha, Davis, Trisha N., Noble, William S., MacCoss, Michael J.

Journal:

Journal of the American Society for Mass Spectrometry

Year:

2015

Language:

english

File:

PDF, 1.70 MB

english, 2015

92

Selection on Plant Male Function Genes Identifies Candidates for Reproductive Isolation of Yellow Monkeyflowers

Aagaard, Jan E., George, Renee D., Fishman, Lila, MacCoss, Michael J., Swanson, Willie J., Bomblies, Kirsten

Journal:

Year:

2013

Language:

english

File:

PDF, 1.92 MB

english, 2013

93

MS1 Peptide Ion Intensity Chromatograms in MS2 (SWATH) Data Independent Acquisitions. Improving Post Acquisition Analysis of Proteomic Experiments.

Rardin, Matthew J., Schilling, Birgit, Cheng, Lin-Yang, MacLean, Brendan X., Sorenson, Dylan J., Sahu, Alexandria K., MacCoss, Michael J., Vitek, Olga, Gibson, Bradford W.

Journal:

Molecular & Cellular Proteomics

Year:

2015

Language:

english

File:

PDF, 3.48 MB

english, 2015

94

Peptide-Centric Proteome Analysis: An Alternative Strategy for the Analysis of Tandem Mass Spectrometry Data

Ting, Ying S., Egertson, Jarrett D., Payne, Samuel H., Kim, Sangtae, MacLean, Brendan, Käll, Lukas, Aebersold, Ruedi, Smith, Richard D., Noble, William Stafford, MacCoss, Michael J.

Journal:

Molecular & Cellular Proteomics

Year:

2015

Language:

english

File:

PDF, 643 KB

english, 2015

95

High Quality Catalog of Proteotypic Peptides from Human Heart

Kline, Kelli G., Frewen, Barbara, Bristow, Michael R., MacCoss, Michael J., Wu, Christine C.

Journal:

Journal of Proteome Research

Year:

2008

Language:

english

File:

PDF, 1.93 MB

english, 2008

96

Multiplexed, scheduled high-resolution parallel reaction monitoring on a full scan QqTOF instrument with integrated data-dependent and targeted mass spectrometric workflows.

Schilling, Birgit, MacLean, Brendan, Held, Jason M, Sahu, Alexandria K, Rardin, Matthew J., Sorensen, Dylan J, Peters, Theodore, Wolfe, Alan J., Hunter, Christie L, MacCoss, Michael J., Gibson, Bradfo

Journal:

Analytical Chemistry

Year:

2015

Language:

english

File:

PDF, 774 KB

english, 2015

97

Regulation of outer kinetochore Ndc80 complex-based microtubule attachments by the central kinetochore Mis12/MIND complex

Kudalkar, Emily M., Scarborough, Emily A., Umbreit, Neil T., Zelter, Alex, Gestaut, Daniel R., Riffle, Michael, Johnson, Richard S., MacCoss, Michael J., Asbury, Charles L., Davis, Trisha N.

Journal:

Proceedings of the National Academy of Sciences

Year:

2015

Language:

english

File:

PDF, 1.34 MB

english, 2015

98

A NESTED MIXTURE MODEL FOR PROTEIN IDENTIFICATION USING MASS SPECTROMETRY

Qunhua Li, Michael J. MacCoss and Matthew Stephens

Journal:

The Annals of Applied Statistics

Year:

2010

Language:

english

File:

PDF, 2.60 MB

english, 2010

99

Garrod's fourth inborn error of metabolism solved by the identification of mutations causing pentosuria

Sarah B. Pierce, Cailyn H. Spurrell, Jessica B. Mandell, Ming K. Lee, Sharon Zeligson, Michael S. Bereman, Sunday M. Stray, Siv Fokstuen, Michael J. MacCoss, Ephrat Levy-Lahad, Mary-Claire King and Ar

Journal:

Proceedings of the National Academy of Sciences

Year:

2011

Language:

english

File:

PDF, 1.30 MB

english, 2011

100

Structure of γ-tubulin small complex based on a cryo-EM map, chemical cross-links, and a remotely related structure

Greenberg, Charles H, Kollman, Justin, Zelter, Alex, Johnson, Richard, MacCoss, Michael J., Davis, Trisha N., Agard, David A., Sali, Andrej

Journal:

Journal of Structural Biology

Year:

2016

Language:

english

File:

PDF, 3.69 MB

english, 2016