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Ruedi Aebersold

This is a preview profile on BiomedExperts - the first literature-based scientific social network. It brings the right researchers together and allows them to collaborate online. Collexis and Dell provide the BiomedExperts network of +1.5 Million pre-calculated profiles free of charge to researchers worldwide.

Research Profile (preview)

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Proteomics

Chemicals & Drugs

Genes & Molecular Sequences

Amino Acid Sequence

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Phenomena

Phosphorylation

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Anatomy

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Publications

TOP 3
Goetze Sandra; Qeli Ermir; Mosimann Christian; Staes An; Gerrits Bertran; Roschitzki Bernd; Mohanty Sonali; Niederer Eva M; Laczko Endre; Timmerman Evy; Lange Vinzenz; Hafen Ernst; Aebersold Ruedi; Vandekerckhove Joël; Basler Konrad; Ahrens Christian H; Gevaert Kris; Brunner Erich
Identification and functional characterization of N-terminally acetylated proteins in Drosophila melanogaster.
Beck Martin; Malmström Johan A; Lange Vinzenz; Schmidt Alexander; Deutsch Eric W; Aebersold Ruedi
Visual proteomics of the human pathogen Leptospira interrogans.
Sherwood Carly A; Eastham Ashley; Lee Lik Wee; Peterson Amelia; Eng Jimmy K; Shteynberg David; Mendoza Luis; Deutsch Eric W; Risler Jenni; Tasman Natalie; Aebersold Ruedi; Lam Henry; Martin Daniel B
MaRiMba: a software application for spectral library-based MRM transition list assembly.

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All Publications

2009: Goetze Sandra; Qeli Ermir; Mosimann Christian; Staes An; Gerrits Bertran; Roschitzki Bernd; Mohanty Sonali; Niederer Eva M; Laczko Endre; Timmerman Evy; Lange Vinzenz; Hafen Ernst; Aebersold Ruedi; Vandekerckhove Joël; Basler Konrad; Ahrens Christian H; Gevaert Kris; Brunner Erich
Identification and functional characterization of N-terminally acetylated proteins in Drosophila melanogaster.
PLoS biology 2009;7(11):e1000236.
2009: Beck Martin; Malmström Johan A; Lange Vinzenz; Schmidt Alexander; Deutsch Eric W; Aebersold Ruedi
Visual proteomics of the human pathogen Leptospira interrogans.
Nature methods 2009;6(11):817-23.
2009: Sherwood Carly A; Eastham Ashley; Lee Lik Wee; Peterson Amelia; Eng Jimmy K; Shteynberg David; Mendoza Luis; Deutsch Eric W; Risler Jenni; Tasman Natalie; Aebersold Ruedi; Lam Henry; Martin Daniel B
MaRiMba: a software application for spectral library-based MRM transition list assembly.
Journal of proteome research 2009;8(10):4396-405.
2009: Gstaiger Matthias; Aebersold Ruedi
Applying mass spectrometry-based proteomics to genetics, genomics and network biology.
Nature reviews. Genetics 2009;10(9):617-27.
2009: Huber Alexandre; Bodenmiller Bernd; Uotila Aino; Stahl Michael; Wanka Stefanie; Gerrits Bertran; Aebersold Ruedi; Loewith Robbie
Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.
Genes & development 2009;23(16):1929-43.
2009: Picotti Paola; Bodenmiller Bernd; Mueller Lukas N; Domon Bruno; Aebersold Ruedi
Full dynamic range proteome analysis of S. cerevisiae by targeted proteomics.
Cell 2009;138(4):795-806.
2009: Eisenacher Martin; Martens Lennart; Hardt Tanja; Kohl Michael; Barsnes Harald; Helsens Kenny; Häkkinen Jari; Levander Fredrik; Aebersold Ruedi; Vandekerckhove Joël; Dunn Michael J; Lisacek Frederique; Siepen Jennifer A; Hubbard Simon J; Binz Pierre-Alain; Blüggel Martin; Thiele Herbert; Cottrell John; Meyer Helmut E; Apweiler Rolf; Stephan Christian
Getting a grip on proteomics data - Proteomics Data Collection (ProDaC).
Proteomics 2009;9(15):3928-33.
2009: Malmström Johan; Beck Martin; Schmidt Alexander; Lange Vinzenz; Deutsch Eric W; Aebersold Ruedi
Proteome-wide cellular protein concentrations of the human pathogen Leptospira interrogans.
Nature 2009;460(7256):762-5.
2009: Mirzaei Hamid; Brusniak Mi-Youn; Mueller Lukas N; Letarte Simon; Watts Julian D; Aebersold Ruedi
Halogenated peptides as internal standards (H-PINS): introduction of an MS-based internal standard set for liquid chromatography-mass spectrometry.
Molecular & cellular proteomics : MCP 2009;8(8):1934-46.
2009: Jeong Seul-Ki; Kwon Min-Seok; Lee Eun-Young; Lee Hyoung-Joo; Cho Sang Yun; Kim Hoguen; Yoo Jong Shin; Omenn Gilbert S; Aebersold Ruedi; Hanash Sam; Paik Young-Ki
BiomarkerDigger: a versatile disease proteome database and analysis platform for the identification of plasma cancer biomarkers.
Proteomics 2009;9(14):3729-40.
2009: Claassen Manfred; Aebersold Ruedi; Buhmann Joachim M
Proteome coverage prediction with infinite Markov models.
Bioinformatics (Oxford, England) 2009;25(12):i154-60.
2009: Aebersold Ruedi
A stress test for mass spectrometry-based proteomics.
Nature methods 2009;6(6):411-2.
2009: Domon Bruno; Bodenmiller Bernd; Carapito Christine; Hao Zhiqi; Huehmer Andreas; Aebersold Ruedi
Electron transfer dissociation in conjunction with collision activation to investigate the Drosophila melanogaster phosphoproteome.
Journal of proteome research 2009;8(6):2633-9.
2009: Carapito Christine; Klemm Clementine; Aebersold Ruedi; Domon Bruno
Systematic LC-MS analysis of labile post-translational modifications in complex mixtures.
Journal of proteome research 2009;8(5):2608-14.
2009: Anderson N Leigh; Anderson Norman G; Pearson Terry W; Borchers Christoph H; Paulovich Amanda G; Patterson Scott D; Gillette Michael; Aebersold Ruedi; Carr Steven A
A human proteome detection and quantitation project.
Molecular & cellular proteomics : MCP 2009;8(5):883-6.
2009: Pan Sheng; Chen Ru; Reimel Beth Ann; Crispin David A; Mirzaei Hamid; Cooke Kelly; Coleman Joshua F; Lane Zhaoli; Bronner Mary P; Goodlett David R; McIntosh Martin W; Traverso William; Aebersold Ruedi; Brentnall Teresa A
Quantitative proteomics investigation of pancreatic intraepithelial neoplasia.
Electrophoresis 2009;30(7):1132-44.
2009: Wollscheid Bernd; Bausch-Fluck Damaris; Henderson Christine; O'Brien Robert; Bibel Miriam; Schiess Ralph; Aebersold Ruedi; Watts Julian D
Mass-spectrometric identification and relative quantification of N-linked cell surface glycoproteins.
Nature biotechnology 2009;27(4):378-86.
2009: Schiess Ralph; Mueller Lukas N; Schmidt Alexander; Mueller Markus; Wollscheid Bernd; Aebersold Ruedi
Analysis of cell surface proteome changes via label-free, quantitative mass spectrometry.
Molecular & cellular proteomics : MCP 2009;8(4):624-38.
2009: Schrimpf Sabine P; Weiss Manuel; Reiter Lukas; Ahrens Christian H; Jovanovic Marko; Malmström Johan; Brunner Erich; Mohanty Sonali; Lercher Martin J; Hunziker Peter E; Aebersold Ruedi; von Mering Christian; Hengartner Michael O
Comparative functional analysis of the Caenorhabditis elegans and Drosophila melanogaster proteomes.
PLoS biology 2009;7(3):e48.
2009: Wepf Alexander; Glatter Timo; Schmidt Alexander; Aebersold Ruedi; Gstaiger Matthias
Quantitative interaction proteomics using mass spectrometry.
Nature methods 2009;6(3):203-5.
2009: Leidel Sebastian; Pedrioli Patrick G A; Bucher Tamara; Brost Renée; Costanzo Michael; Schmidt Alexander; Aebersold Ruedi; Boone Charles; Hofmann Kay; Peter Matthias
Ubiquitin-related modifier Urm1 acts as a sulphur carrier in thiolation of eukaryotic transfer RNA.
Nature 2009;458(7235):228-32.
2009: Gehlenborg Nils; Yan Wei; Lee Inyoul Y; Yoo Hyuntae; Nieselt Kay; Hwang Daehee; Aebersold Ruedi; Hood Leroy
Prequips--an extensible software platform for integration, visualization and analysis of LC-MS/MS proteomics data.
Bioinformatics (Oxford, England) 2009;25(5):682-3.
2009: Schiess Ralph; Wollscheid Bernd; Aebersold Ruedi
Targeted proteomic strategy for clinical biomarker discovery.
Molecular oncology 2009;3(1):33-44.
2009: Yan Wei; Aebersold Ruedi; Raines Elaine W
Evolution of organelle-associated protein profiling.
Journal of proteomics 2009;72(1):4-11.
2009: Pan Sheng; Aebersold Ruedi; Chen Ru; Rush John; Goodlett David R; McIntosh Martin W; Zhang Jing; Brentnall Teresa A
Mass spectrometry based targeted protein quantification: methods and applications.
Journal of proteome research 2009;8(2):787-97.
2009: Ulintz Peter J; Yocum Anastasia K; Bodenmiller Bernd; Aebersold Ruedi; Andrews Philip C; Nesvizhskii Alexey I
Comparison of MS(2)-only, MSA, and MS(2)/MS(3) methodologies for phosphopeptide identification.
Journal of proteome research 2009;8(2):887-99.
2009: Omenn Gilbert S; Aebersold Ruedi; Paik Young-Ki
7(th) HUPO World Congress of Proteomics: launching the second phase of the HUPOPlasma Proteome Project (PPP-2) 16-20 August 2008, Amsterdam, The Netherlands.
Proteomics 2009;9(1):4-6.
2009: Urwyler Simon; Nyfeler Yves; Ragaz Curdin; Lee Hookeun; Mueller Lukas N; Aebersold Ruedi; Hilbi Hubert
Proteome analysis of Legionella vacuoles purified by magnetic immunoseparation reveals secretory and endosomal GTPases.
Traffic (Copenhagen, Denmark) 2009;10(1):76-87.
2009: Goudreault Marilyn; D'Ambrosio Lisa M; Kean Michelle J; Mullin Michael J; Larsen Brett G; Sanchez Amy; Chaudhry Sidharth; Chen Ginny I; Sicheri Frank; Nesvizhskii Alexey I; Aebersold Ruedi; Raught Brian; Gingras Anne-Claude
A PP2A phosphatase high density interaction network identifies a novel striatin-interacting phosphatase and kinase complex linked to the cerebral cavernous malformation 3 (CCM3) protein.
Molecular & cellular proteomics : MCP 2009;8(1):157-71.
2009: Tan Chris Soon Heng; Bodenmiller Bernd; Pasculescu Adrian; Jovanovic Marko; Hengartner Michael O; Jørgensen Claus; Bader Gary D; Aebersold Ruedi; Pawson Tony; Linding Rune
Comparative analysis reveals conserved protein phosphorylation networks implicated in multiple diseases.
Science signaling 2009;2(81):ra39.
2009: Loevenich Sandra N; Brunner Erich; King Nichole L; Deutsch Eric W; Stein Stephen E; Aebersold Ruedi; Hafen Ernst
The Drosophila melanogaster PeptideAtlas facilitates the use of peptide data for improved fly proteomics and genome annotation.
BMC bioinformatics 2009;10():59.
2009: Glatter Timo; Wepf Alexander; Aebersold Ruedi; Gstaiger Matthias
An integrated workflow for charting the human interaction proteome: insights into the PP2A system.
Molecular systems biology 2009;5():237.
2008: Bodenmiller Bernd; Campbell David; Gerrits Bertran; Lam Henry; Jovanovic Marko; Picotti Paola; Schlapbach Ralph; Aebersold Ruedi
PhosphoPep--a database of protein phosphorylation sites in model organisms.
Nature biotechnology 2008;26(12):1339-40.
2008: Gavin Anne-Claude; Aebersold Ruedi; Heck Albert J R
Meeting report on the 7th World Congress of the Human Proteome Organization (HUPO) in Amsterdam: Proteome Biology.
Molecular & cellular proteomics : MCP 2008;7(11):2288-91.
2008: Picotti Paola; Lam Henry; Campbell David; Deutsch Eric W; Mirzaei Hamid; Ranish Jeff; Domon Bruno; Aebersold Ruedi
A database of mass spectrometric assays for the yeast proteome.
Nature methods 2008;5(11):913-4.
2008: Hwang Daehee; Zhang Ning; Lee Hookeun; Yi Eugene; Zhang Hui; Lee Inyoul Y; Hood Leroy; Aebersold Ruedi
MS-BID: a Java package for label-free LC-MS-based comparative proteomic analysis.
Bioinformatics (Oxford, England) 2008;24(22):2641-2.
2008: Schmidt Alexander; Gehlenborg Nils; Bodenmiller Bernd; Mueller Lukas N; Campbell Dave; Mueller Markus; Aebersold Ruedi; Domon Bruno
An integrated, directed mass spectrometric approach for in-depth characterization of complex peptide mixtures.
Molecular & cellular proteomics : MCP 2008;7(11):2138-50.
2008: Lam Henry; Deutsch Eric W; Eddes James S; Eng Jimmy K; Stein Stephen E; Aebersold Ruedi
Building consensus spectral libraries for peptide identification in proteomics.
Nature methods 2008;5(10):873-5.
2008: Taylor Chris F; Binz Pierre-Alain; Aebersold Ruedi; Affolter Michel; Barkovich Robert; Deutsch Eric W; Horn David M; Hühmer Andreas; Kussmann Martin; Lilley Kathryn; Macht Marcus; Mann Matthias; Müller Dieter; Neubert Thomas A; Nickson Janice; Patterson Scott D; Raso Roberto; Resing Kathryn; Seymour Sean L; Tsugita Akira; Xenarios Ioannis; Zeng Rong; Julian Randall K
Guidelines for reporting the use of mass spectrometry in proteomics.
Nature biotechnology 2008;26(8):860-1.
2008: Lange Vinzenz; Malmström Johan A; Didion John; King Nichole L; Johansson Björn P; Schäfer Juliane; Rameseder Jonathan; Wong Chee-Hong; Deutsch Eric W; Brusniak Mi-Youn; Bühlmann Peter; Björck Lars; Domon Bruno; Aebersold Ruedi
Targeted quantitative analysis of Streptococcus pyogenes virulence factors by multiple reaction monitoring.
Molecular & cellular proteomics : MCP 2008;7(8):1489-500.
2008: Rubio Eric D; Reiss David J; Welcsh Piri L; Disteche Christine M; Filippova Galina N; Baliga Nitin S; Aebersold Ruedi; Ranish Jeffrey A; Krumm Anton
CTCF physically links cohesin to chromatin.
Proceedings of the National Academy of Sciences of the United States of America 2008;105(24):8309-14.
2008: Deutsch Eric W; Lam Henry; Aebersold Ruedi
PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows.
EMBO reports 2008;9(5):429-34.
2008: Soltermann Alex; Ossola Reto; Kilgus-Hawelski Sandra; von Eckardstein Arnold; Suter Tobias; Aebersold Ruedi; Moch Holger
N-glycoprotein profiling of lung adenocarcinoma pleural effusions by shotgun proteomics.
Cancer 2008;114(2):124-33.
2008: Rinner Oliver; Seebacher Jan; Walzthoeni Thomas; Mueller Lukas N; Beck Martin; Schmidt Alexander; Mueller Markus; Aebersold Ruedi
Identification of cross-linked peptides from large sequence databases.
Nature methods 2008;5(4):315-8.
2008: Mirzaei Hamid; McBee Joshua K; Watts Julian; Aebersold Ruedi
Comparative evaluation of current peptide production platforms used in absolute quantification in proteomics.
Molecular & cellular proteomics : MCP 2008;7(4):813-23.
2008: Deutsch Eric W; Lam Henry; Aebersold Ruedi
Data analysis and bioinformatics tools for tandem mass spectrometry in proteomics.
Physiological genomics 2008;33(1):18-25.
2008: Qi Yingchuan; Ranish Jeffrey A; Zhu Xiaoyan; Krones Anna; Zhang Jie; Aebersold Ruedi; Rose David W; Rosenfeld Michael G; Carrière Catherine
Atbf1 is required for the Pit1 gene early activation.
Proceedings of the National Academy of Sciences of the United States of America 2008;105(7):2481-6.
2008: Zou Zhiqing; Ibisate Marta; Zhou Yong; Aebersold Ruedi; Xia Younan; Zhang Hui
Synthesis and evaluation of superparamagnetic silica particles for extraction of glycopeptides in the microtiter plate format.
Analytical chemistry 2008;80(4):1228-34.
2008: Pflieger Delphine; Jünger Martin A; Müller Markus; Rinner Oliver; Lee Hookeun; Gehrig Peter M; Gstaiger Matthias; Aebersold Ruedi
Quantitative proteomic analysis of protein complexes: concurrent identification of interactors and their state of phosphorylation.
Molecular & cellular proteomics : MCP 2008;7(2):326-46.
2008: Mueller Lukas N; Brusniak Mi-Youn; Mani D R; Aebersold Ruedi
An assessment of software solutions for the analysis of mass spectrometry based quantitative proteomics data.
Journal of proteome research 2008;7(1):51-61.
2008: Ulintz Peter J; Bodenmiller Bernd; Andrews Philip C; Aebersold Ruedi; Nesvizhskii Alexey I
Investigating MS2/MS3 matching statistics: a model for coupling consecutive stage mass spectrometry data for increased peptide identification confidence.
Molecular & cellular proteomics : MCP 2008;7(1):71-87.
2008: Klimek John; Eddes James S; Hohmann Laura; Jackson Jennifer; Peterson Amelia; Letarte Simon; Gafken Philip R; Katz Jonathan E; Mallick Parag; Lee Hookeun; Schmidt Alexander; Ossola Reto; Eng Jimmy K; Aebersold Ruedi; Martin Daniel B
The standard protein mix database: a diverse data set to assist in the production of improved Peptide and protein identification software tools.
Journal of proteome research 2008;7(1):96-103.
2008: Brusniak Mi-Youn; Bodenmiller Bernd; Campbell David; Cooke Kelly; Eddes James; Garbutt Andrew; Lau Hollis; Letarte Simon; Mueller Lukas N; Sharma Vagisha; Vitek Olga; Zhang Ning; Aebersold Ruedi; Watts Julian D
Corra: Computational framework and tools for LC-MS discovery and targeted mass spectrometry-based proteomics.
BMC bioinformatics 2008;9():542.
2008: Tress Michael L; Bodenmiller Bernd; Aebersold Ruedi; Valencia Alfonso
Proteomics studies confirm the presence of alternative protein isoforms on a large scale.
Genome biology 2008;9(11):R162.
2008: Lange Vinzenz; Picotti Paola; Domon Bruno; Aebersold Ruedi
Selected reaction monitoring for quantitative proteomics: a tutorial.
Molecular systems biology 2008;4():222.
2008: Zhang Qing; Menon Rajasree; Deutsch Eric W; Pitteri Sharon J; Faca Vitor M; Wang Hong; Newcomb Lisa F; Depinho Ronald A; Bardeesy Nabeel; Dinulescu Daniela; Hung Kenneth E; Kucherlapati Raju; Jacks Tyler; Politi Katerina; Aebersold Ruedi; Omenn Gilbert S; States David J; Hanash Samir M
A mouse plasma peptide atlas as a resource for disease proteomics.
Genome biology 2008;9(6):R93.
2008: Yan Wei; Hwang Daehee; Aebersold Ruedi
Quantitative proteomic analysis to profile dynamic changes in the spatial distribution of cellular proteins.
Methods in molecular biology (Clifton, N.J.) 2008;432():389-401.
2007: Djouder Nabil; Metzler Stefan Christian; Schmidt Alexander; Wirbelauer Christiane; Gstaiger Matthias; Aebersold Ruedi; Hess Daniel; Krek Wilhelm
S6K1-mediated disassembly of mitochondrial URI/PP1gamma complexes activates a negative feedback program that counters S6K1 survival signaling.
Molecular cell 2007;28(1):28-40.
2007: Jones Andrew R; Miller Michael; Aebersold Ruedi; Apweiler Rolf; Ball Catherine A; Brazma Alvis; Degreef James; Hardy Nigel; Hermjakob Henning; Hubbard Simon J; Hussey Peter; Igra Mark; Jenkins Helen; Julian Randall K; Laursen Kent; Oliver Stephen G; Paton Norman W; Sansone Susanna-Assunta; Sarkans Ugis; Stoeckert Christian J; Taylor Chris F; Whetzel Patricia L; White Joseph A; Spellman Paul; Pizarro Angel
The Functional Genomics Experiment model (FuGE): an extensible framework for standards in functional genomics.
Nature biotechnology 2007;25(10):1127-33.
2007: Kim Bong; Nesvizhskii Alexey I; Rani P Geetha; Hahn Steven; Aebersold Ruedi; Ranish Jeffrey A
The transcription elongation factor TFIIS is a component of RNA polymerase II preinitiation complexes.
Proceedings of the National Academy of Sciences of the United States of America 2007;104(41):16068-73.
2007: Nesvizhskii Alexey I; Vitek Olga; Aebersold Ruedi
Analysis and validation of proteomic data generated by tandem mass spectrometry.
Nature methods 2007;4(10):787-97.
2007: Mueller Lukas N; Rinner Oliver; Schmidt Alexander; Letarte Simon; Bodenmiller Bernd; Brusniak Mi-Youn; Vitek Olga; Aebersold Ruedi; Müller Markus
SuperHirn - a novel tool for high resolution LC-MS-based peptide/protein profiling.
Proteomics 2007;7(19):3470-80.
2007: Noll Hans; Alcedo Joy; Daube Michael; Frei Erich; Schiltz Emile; Hunt John; Humphries Tom; Matranga Valeria; Hochstrasser Martin; Aebersold Ruedi; Lee Hookeun; Noll Markus
The toposome, essential for sea urchin cell adhesion and development, is a modified iron-less calcium-binding transferrin.
Developmental biology 2007;310(1):54-70.
2007: Stahl-Zeng Jianru; Lange Vinzenz; Ossola Reto; Eckhardt Katrin; Krek Wilhelm; Aebersold Ruedi; Domon Bruno
High sensitivity detection of plasma proteins by multiple reaction monitoring of N-glycosites.
Molecular & cellular proteomics : MCP 2007;6(10):1809-17.
2007: Prakash Amol; Piening Brian; Whiteaker Jeff; Zhang Heidi; Shaffer Scott A; Martin Daniel; Hohmann Laura; Cooke Kelly; Olson James M; Hansen Stacey; Flory Mark R; Lee Hookeun; Watts Julian; Goodlett David R; Aebersold Ruedi; Paulovich Amanda; Schwikowski Benno
Assessing bias in experiment design for large scale mass spectrometry-based quantitative proteomics.
Molecular & cellular proteomics : MCP 2007;6(10):1741-8.
2007: Picotti Paola; Aebersold Ruedi; Domon Bruno
The implications of proteolytic background for shotgun proteomics.
Molecular & cellular proteomics : MCP 2007;6(9):1589-98.
2007: Demers Celina; Chaturvedi Chandra-Prakash; Ranish Jeffrey A; Juban Gaetan; Lai Patrick; Morle Francois; Aebersold Ruedi; Dilworth F Jeffrey; Groudine Mark; Brand Marjorie
Activator-mediated recruitment of the MLL2 methyltransferase complex to the beta-globin locus.
Molecular cell 2007;27(4):573-84.
2007: Malmström Johan; Lee Hookeun; Aebersold Ruedi
Advances in proteomic workflows for systems biology.
Current opinion in biotechnology 2007;18(4):378-84.
2007: Taylor Chris F; Paton Norman W; Lilley Kathryn S; Binz Pierre-Alain; Julian Randall K; Jones Andrew R; Zhu Weimin; Apweiler Rolf; Aebersold Ruedi; Deutsch Eric W; Dunn Michael J; Heck Albert J R; Leitner Alexander; Macht Marcus; Mann Matthias; Martens Lennart; Neubert Thomas A; Patterson Scott D; Ping Peipei; Seymour Sean L; Souda Puneet; Tsugita Akira; Vandekerckhove Joel; Vondriska Thomas M; Whitelegge Julian P; Wilkins Marc R; Xenarios Ioannnis; Yates John R; Hermjakob Henning
The minimum information about a proteomics experiment (MIAPE).
Nature biotechnology 2007;25(8):887-93.
2007: Gingras Anne-Claude; Gstaiger Matthias; Raught Brian; Aebersold Ruedi
Analysis of protein complexes using mass spectrometry.
Nature reviews. Molecular cell biology 2007;8(8):645-54.
2007: Zhou Yong; Aebersold Ruedi; Zhang Hui
Isolation of N-linked glycopeptides from plasma.
Analytical chemistry 2007;79(15):5826-37.
2007: Chen Ru; Brentnall Teresa A; Pan Sheng; Cooke Kelly; Moyes Kara White; Lane Zhaoli; Crispin David A; Goodlett David R; Aebersold Ruedi; Bronner Mary P
Quantitative proteomics analysis reveals that proteins differentially expressed in chronic pancreatitis are also frequently involved in pancreatic cancer.
Molecular & cellular proteomics : MCP 2007;6(8):1331-42.
2007: Lessard Julie; Wu Jiang I; Ranish Jeffrey A; Wan Mimi; Winslow Monte M; Staahl Brett T; Wu Hai; Aebersold Ruedi; Graef Isabella A; Crabtree Gerald R
An essential switch in subunit composition of a chromatin remodeling complex during neural development.
Neuron 2007;55(2):201-15.
2007: Au Edmund; Richter Miranda W; Vincent Adele J; Tetzlaff Wolfram; Aebersold Ruedi; Sage E Helene; Roskams A Jane
SPARC from olfactory ensheathing cells stimulates Schwann cells to promote neurite outgrowth and enhances spinal cord repair.
The Journal of neuroscience : the official journal of the Society for Neuroscience 2007;27(27):7208-21.
2007: Ahrens Christian H; Brunner Erich; Hafen Ernst; Aebersold Ruedi; Basler Konrad
A proteome catalog of Drosophila melanogaster: an essential resource for targeted quantitative proteomics.
Fly 2007;1(3):182-6.
2007: Brunner Erich; Ahrens Christian H; Mohanty Sonali; Baetschmann Hansruedi; Loevenich Sandra; Potthast Frank; Deutsch Eric W; Panse Christian; de Lichtenberg Ulrik; Rinner Oliver; Lee Hookeun; Pedrioli Patrick G A; Malmstrom Johan; Koehler Katja; Schrimpf Sabine; Krijgsveld Jeroen; Kregenow Floyd; Heck Albert J R; Hafen Ernst; Schlapbach Ralph; Aebersold Ruedi
A high-quality catalog of the Drosophila melanogaster proteome.
Nature biotechnology 2007;25(5):576-83.
2007: Bodenmiller Bernd; Mueller Lukas N; Pedrioli Patrick G A; Pflieger Delphine; Jünger Martin A; Eng Jimmy K; Aebersold Ruedi; Tao W Andy
An integrated chemical, mass spectrometric and computational strategy for (quantitative) phosphoproteomics: application to Drosophila melanogaster Kc167 cells.
Molecular bioSystems 2007;3(4):275-86.
2007: Wang Pei; Tang Hua; Fitzgibbon Matthew P; McIntosh Martin; Coram Marc; Zhang Hui; Yi Eugene; Aebersold Ruedi
A statistical method for chromatographic alignment of LC-MS data.
Biostatistics (Oxford, England) 2007;8(2):357-67.
2007: Rinner Oliver; Mueller Lukas N; Hubálek Martin; Müller Markus; Gstaiger Matthias; Aebersold Ruedi
An integrated mass spectrometric and computational framework for the analysis of protein interaction networks.
Nature biotechnology 2007;25(3):345-52.
2007: Lam Henry; Deutsch Eric W; Eddes James S; Eng Jimmy K; King Nichole; Stein Stephen E; Aebersold Ruedi
Development and validation of a spectral library searching method for peptide identification from MS/MS.
Proteomics 2007;7(5):655-67.
2007: Bodenmiller Bernd; Mueller Lukas N; Mueller Markus; Domon Bruno; Aebersold Ruedi
Reproducible isolation of distinct, overlapping segments of the phosphoproteome.
Nature methods 2007;4(3):231-7.
2007: Jasavala Rohini; Martinez Harryl; Thumar Jaykumar; Andaya Armann; Gingras Anne-Claude; Eng Jimmy K; Aebersold Ruedi; Han David K; Wright Michael E
Identification of putative androgen receptor interaction protein modules: cytoskeleton and endosomes modulate androgen receptor signaling in prostate cancer cells.
Molecular & cellular proteomics : MCP 2007;6(2):252-71.
2007: Chen Ru; Pan Sheng; Cooke Kelly; Moyes Kara White; Bronner Mary P; Goodlett David R; Aebersold Ruedi; Brentnall Teresa A
Comparison of pancreas juice proteins from cancer versus pancreatitis using quantitative proteomic analysis.
Pancreas 2007;34(1):70-9.
2007: Mallick Parag; Schirle Markus; Chen Sharon S; Flory Mark R; Lee Hookeun; Martin Daniel; Ranish Jeffrey; Raught Brian; Schmitt Robert; Werner Thilo; Kuster Bernhard; Aebersold Ruedi
Computational prediction of proteotypic peptides for quantitative proteomics.
Nature biotechnology 2007;25(1):125-31.
2007: Zhang Hui; Liu Alvin Y; Loriaux Paul; Wollscheid Bernd; Zhou Yong; Watts Julian D; Aebersold Ruedi
Mass spectrometric detection of tissue proteins in plasma.
Molecular & cellular proteomics : MCP 2007;6(1):64-71.
2007: Bodenmiller Bernd; Malmstrom Johan; Gerrits Bertran; Campbell David; Lam Henry; Schmidt Alexander; Rinner Oliver; Mueller Lukas N; Shannon Paul T; Pedrioli Patrick G; Panse Christian; Lee Hoo-Keun; Schlapbach Ralph; Aebersold Ruedi
PhosphoPep--a phosphoproteome resource for systems biology research in Drosophila Kc167 cells.
Molecular systems biology 2007;3():139.
2007: Lu Yu; Bottari Patricia; Aebersold Ruedi; Turecek Frantisek; Gelb Michael H
Absolute quantification of specific proteins in complex mixtures using visible isotope-coded affinity tags.
Methods in molecular biology (Clifton, N.J.) 2007;359():159-76.
2007: Ranish Jeffrey A; Brand Marjorie; Aebersold Ruedi
Using stable isotope tagging and mass spectrometry to characterize protein complexes and to detect changes in their composition.
Methods in molecular biology (Clifton, N.J.) 2007;359():17-35.
2007: Tian Yuan; Zhou Yong; Elliott Sarah; Aebersold Ruedi; Zhang Hui
Solid-phase extraction of N-linked glycopeptides.
Nature protocols 2007;2(2):334-9.
2007: Pan Sheng; Aebersold Ruedi
Quantitative proteomics by stable isotope labeling and mass spectrometry.
Methods in molecular biology (Clifton, N.J.) 2007;367():209-18.
2006: Flory Mark R; Lee Hookeun; Bonneau Richard; Mallick Parag; Serikawa Kyle; Morris David R; Aebersold Ruedi
Quantitative proteomic analysis of the budding yeast cell cycle using acid-cleavable isotope-coded affinity tag reagents.
Proteomics 2006;6(23):6146-57.
2006: Domon Bruno; Aebersold Ruedi
Challenges and opportunities in proteomics data analysis.
Molecular & cellular proteomics : MCP 2006;5(10):1921-6.
2006: Seebacher Jan; Mallick Parag; Zhang Ning; Eddes James S; Aebersold Ruedi; Gelb Michael H
Protein cross-linking analysis using mass spectrometry, isotope-coded cross-linkers, and integrated computational data processing.
Journal of proteome research 2006;5(9):2270-82.
2006: Malmström Johan; Lee Hookeun; Nesvizhskii Alexey I; Shteynberg David; Mohanty Sonali; Brunner Erich; Ye Mingliang; Weber Gerhard; Eckerskorn Christoph; Aebersold Ruedi
Optimized peptide separation and identification for mass spectrometry based proteomics via free-flow electrophoresis.
Journal of proteome research 2006;5(9):2241-9.
2006: Rundle Natalie T; Nelson Jim; Flory Mark R; Joseph Jomon; Th'ng John; Aebersold Ruedi; Dasso Mary; Andersen Raymond J; Roberge Michel
An ent-kaurene that inhibits mitotic chromosome movement and binds the kinetochore protein ran-binding protein 2.
ACS chemical biology 2006;1(7):443-50.
2006: Pedrioli Patrick G A; Raught Brian; Zhang Xiang-Dong; Rogers Richard; Aitchison John; Matunis Michael; Aebersold Ruedi
Automated identification of SUMOylation sites using mass spectrometry and SUMmOn pattern recognition software.
Nature methods 2006;3(7):533-9.
2006: Chen Ru; Pan Sheng; Yi Eugene C; Donohoe Samuel; Bronner Mary P; Potter John D; Goodlett David R; Aebersold Ruedi; Brentnall Teresa A
Quantitative proteomic profiling of pancreatic cancer juice.
Proteomics 2006;6(13):3871-9.
2006: Gupta Neetu; Wollscheid Bernd; Watts Julian D; Scheer Barbara; Aebersold Ruedi; DeFranco Anthony L
Quantitative proteomic analysis of B cell lipid rafts reveals that ezrin regulates antigen receptor-mediated lipid raft dynamics.
Nature immunology 2006;7(6):625-33.
2006: Gan Rueichi R; Yi Eugene C; Chiu Yulun; Lee Hookeun; Kao Yu-Chieh P; Wu Timothy H; Aebersold Ruedi; Goodlett David R; Ng Wailap Victor
Proteome analysis of Halobacterium sp. NRC-1 facilitated by the biomodule analysis tool BMSorter.
Molecular & cellular proteomics : MCP 2006;5(6):987-97.
2006: Bradshaw Ralph A; Burlingame Alma L; Carr Steven; Aebersold Ruedi
Reporting protein identification data: the next generation of guidelines.
Molecular & cellular proteomics : MCP 2006;5(5):787-8.
2006: Domon Bruno; Aebersold Ruedi
Mass spectrometry and protein analysis.
Science (New York, N.Y.) 2006;312(5771):212-7.
2006: Hardwidge Philip R; Donohoe Sam; Aebersold Ruedi; Finlay B Brett
Proteomic analysis of the binding partners to enteropathogenic Escherichia coli virulence proteins expressed in Saccharomyces cerevisiae.
Proteomics 2006;6(7):2174-9.
2006: Maccarana Marco; Olander Benny; Malmström Johan; Tiedemann Kerstin; Aebersold Ruedi; Lindahl Ulf; Li Jin-Ping; Malmström Anders
Biosynthesis of dermatan sulfate: chondroitin-glucuronate C5-epimerase is identical to SART2.
The Journal of biological chemistry 2006;281(17):11560-8.
2006: Nesvizhskii Alexey I; Roos Franz F; Grossmann Jonas; Vogelzang Mathijs; Eddes James S; Gruissem Wilhelm; Baginsky Sacha; Aebersold Ruedi
Dynamic spectrum quality assessment and iterative computational analysis of shotgun proteomic data: toward more efficient identification of post-translational modifications, sequence polymorphisms, and novel peptides.
Molecular & cellular proteomics : MCP 2006;5(4):652-70.
2006: Prakash Amol; Mallick Parag; Whiteaker Jeffrey; Zhang Heidi; Paulovich Amanda; Flory Mark; Lee Hookeun; Aebersold Ruedi; Schwikowski Benno
Signal maps for mass spectrometry-based comparative proteomics.
Molecular & cellular proteomics : MCP 2006;5(3):423-32.
2006: Shiio Yuzuru; Rose David W; Aur Radin; Donohoe Sam; Aebersold Ruedi; Eisenman Robert N
Identification and characterization of SAP25, a novel component of the mSin3 corepressor complex.
Molecular and cellular biology 2006;26(4):1386-97.
2006: Orchard Sandra; Hermjakob Henning; Taylor Chris; Binz Pierre-Alain; Hoogland Christine; Julian Randall; Garavelli John S; Aebersold Ruedi; Apweiler Rolf
Autumn 2005 Workshop of the Human Proteome Organisation Proteomics Standards Initiative (HUPO-PSI) Geneva, September, 4-6, 2005.
Proteomics 2006;6(3):738-41.
2006: Shiio Yuzuru; Suh Kwang S; Lee Hookeun; Yuspa Stuart H; Eisenman Robert N; Aebersold Ruedi
Quantitative proteomic analysis of myc-induced apoptosis: a direct role for Myc induction of the mitochondrial chloride ion channel, mtCLIC/CLIC4.
The Journal of biological chemistry 2006;281(5):2750-6.
2006: Desiere Frank; Deutsch Eric W; King Nichole L; Nesvizhskii Alexey I; Mallick Parag; Eng Jimmy; Chen Sharon; Eddes James; Loevenich Sandra N; Aebersold Ruedi
The PeptideAtlas project.
Nucleic acids research 2006;34(Database issue):D655-8.
2006: Shiio Yuzuru; Aebersold Ruedi
Quantitative proteome analysis using isotope-coded affinity tags and mass spectrometry.
Nature protocols 2006;1(1):139-45.
2006: Schmidt Alexander; Aebersold Ruedi
High-accuracy proteome maps of human body fluids.
Genome biology 2006;7(11):242.
2006: King Nichole L; Deutsch Eric W; Ranish Jeffrey A; Nesvizhskii Alexey I; Eddes James S; Mallick Parag; Eng Jimmy; Desiere Frank; Flory Mark; Martin Daniel B; Kim Bong; Lee Hookeun; Raught Brian; Aebersold Ruedi
Analysis of the Saccharomyces cerevisiae proteome with PeptideAtlas.
Genome biology 2006;7(11):R106.
2006: Zhang Hui; Loriaux Paul; Eng Jimmy; Campbell David; Keller Andrew; Moss Pat; Bonneau Richard; Zhang Ning; Zhou Yong; Wollscheid Bernd; Cooke Kelly; Yi Eugene C; Lee Hookeun; Peskind Elaine R; Zhang Jing; Smith Richard D; Aebersold Ruedi
UniPep--a database for human N-linked glycosites: a resource for biomarker discovery.
Genome biology 2006;7(8):R73.
2006: Taylor Chris F; Hermjakob Henning; Julian Randall K; Garavelli John S; Aebersold Ruedi; Apweiler Rolf
The work of the Human Proteome Organisation's Proteomics Standards Initiative (HUPO PSI).
Omics : a journal of integrative biology 2006;10(2):145-51.
2006: Zhang Hui; Aebersold Ruedi
Isolation of glycoproteins and identification of their N-linked glycosylation sites.
Methods in molecular biology (Clifton, N.J.) 2006;328():177-85.
2005: Orchard Sandra; Hermjakob Henning; Taylor Chris; Aebersold Ruedi; Apweiler Rolf
Human Proteome Organisation Proteomics Standards Initiative. Pre-Congress Initiative.
Proteomics 2005;5(18):4651-2.
2005: Chen Sharon S; Aebersold Ruedi
LC-MS solvent composition monitoring and chromatography alignment using mobile phase tracer molecules.
Journal of chromatography. B, Analytical technologies in the biomedical and life sciences 2005;829(1-2):107-14.
2005: Heller Manfred; Ye Mingliang; Michel Philippe E; Morier Patrick; Stalder Daniel; Jünger Martin A; Aebersold Ruedi; Reymond Frédéric; Rossier Joël S
Added value for tandem mass spectrometry shotgun proteomics data validation through isoelectric focusing of peptides.
Journal of proteome research 2005;4(6):2273-82.
2005: Chen Sharon S; Deutsch Eric W; Yi Eugene C; Li Xiao-jun; Goodlett David R; Aebersold Ruedi
Improving mass and liquid chromatography based identification of proteins using bayesian scoring.
Journal of proteome research 2005;4(6):2174-84.
2005: Zhang Ning; Li Xiao-jun; Ye Mingliang; Pan Sheng; Schwikowski Benno; Aebersold Ruedi
ProbIDtree: an automated software program capable of identifying multiple peptides from a single collision-induced dissociation spectrum collected by a tandem mass spectrometer.
Proteomics 2005;5(16):4096-106.
2005: Gingras Anne-Claude; Caballero Michael; Zarske Marcel; Sanchez Amy; Hazbun Tony R; Fields Stanley; Sonenberg Nahum; Hafen Ernst; Raught Brian; Aebersold Ruedi
A novel, evolutionarily conserved protein phosphatase complex involved in cisplatin sensitivity.
Molecular & cellular proteomics : MCP 2005;4(11):1725-40.
2005: Chen Ru; Yi Eugene C; Donohoe Samuel; Pan Sheng; Eng Jimmy; Cooke Kelly; Crispin David A; Lane Zhaoli; Goodlett David R; Bronner Mary P; Aebersold Ruedi; Brentnall Teresa A
Pancreatic cancer proteome: the proteins that underlie invasion, metastasis, and immunologic escape.
Gastroenterology 2005;129(4):1187-97.
2005: Shih Judy L; Reck-Peterson Samara L; Newitt Rick; Mooseker Mark S; Aebersold Ruedi; Herskowitz Ira
Cell polarity protein Spa2P associates with proteins involved in actin function in Saccharomyces cerevisiae.
Molecular biology of the cell 2005;16(10):4595-608.
2005: Nesvizhskii Alexey I; Aebersold Ruedi
Interpretation of shotgun proteomic data: the protein inference problem.
Molecular & cellular proteomics : MCP 2005;4(10):1419-40.
2005: Toigo Marco; Donohoe Samuel; Sperrazzo Gina; Jarrold Bradley; Wang Feng; Hinkle Richard; Dolan Elizabeth; Isfort Robert J; Aebersold Ruedi
ICAT-MS-MS time course analysis of atrophying mouse skeletal muscle cytosolic subproteome.
Molecular bioSystems 2005;1(3):229-41.
2005: Bradshaw Ralph A; Burlingame Alma L; Carr Steve; Aebersold Ruedi
Protein identification: the good, the bad, and the ugly.
Molecular & cellular proteomics : MCP 2005;4(9):1221-2.
2005: Li Xiao-jun; Yi Eugene C; Kemp Christopher J; Zhang Hui; Aebersold Ruedi
A software suite for the generation and comparison of peptide arrays from sets of data collected by liquid chromatography-mass spectrometry.
Molecular & cellular proteomics : MCP 2005;4(9):1328-40.
2005: Tao W Andy; Wollscheid Bernd; O'Brien Robert; Eng Jimmy K; Li Xiao-jun; Bodenmiller Bernd; Watts Julian D; Hood Leroy; Aebersold Ruedi
Quantitative phosphoproteome analysis using a dendrimer conjugation chemistry and tandem mass spectrometry.
Nature methods 2005;2(8):591-8.
2005: Martin Daniel B; Eng Jimmy K; Nesvizhskii Alexey I; Gemmill Andrew; Aebersold Ruedi
Investigation of neutral loss during collision-induced dissociation of peptide ions.
Analytical chemistry 2005;77(15):4870-82.
2005: Deutsch Eric W; Eng Jimmy K; Zhang Hui; King Nichole L; Nesvizhskii Alexey I; Lin Biaoyang; Lee Hookeun; Yi Eugene C; Ossola Reto; Aebersold Ruedi
Human Plasma PeptideAtlas.
Proteomics 2005;5(13):3497-500.
2005: Aebersold Ruedi; Anderson Leigh; Caprioli Richard; Druker Brian; Hartwell Leland; Smith Richard
Perspective: a program to improve protein biomarker discovery for cancer.
Journal of proteome research 2005;4(4):1104-9.
2005: Schrimpf Sabine P; Meskenaite Virginia; Brunner Erich; Rutishauser Dorothea; Walther Pascal; Eng Jimmy; Aebersold Ruedi; Sonderegger Peter
Proteomic analysis of synaptosomes using isotope-coded affinity tags and mass spectrometry.
Proteomics 2005;5(10):2531-41.
2005: Kuster Bernhard; Schirle Markus; Mallick Parag; Aebersold Ruedi
Scoring proteomes with proteotypic peptide probes.
Nature reviews. Molecular cell biology 2005;6(7):577-83.
2005: Zhang Jing; Goodlett Dave R; Quinn Joseph F; Peskind Elaine; Kaye Jeffrey A; Zhou Yong; Pan Catherine; Yi Eugene; Eng Jimmy; Wang Qin; Aebersold Ruedi H; Montine Thomas J
Quantitative proteomics of cerebrospinal fluid from patients with Alzheimer disease.
Journal of Alzheimer's disease : JAD 2005;7(2):125-33; discussion 173-80.
2005: Wright Michael E; Han David K; Aebersold Ruedi
Mass spectrometry-based expression profiling of clinical prostate cancer.
Molecular & cellular proteomics : MCP 2005;4(4):545-54.
2005: Chen Ru; Pan Sheng; Brentnall Teresa A; Aebersold Ruedi
Proteomic profiling of pancreatic cancer for biomarker discovery.
Molecular & cellular proteomics : MCP 2005;4(4):523-33.
2005: Yi Eugene C; Li Xiao-Jun; Cooke Kelly; Lee Hookeun; Raught Brian; Page Andrew; Aneliunas Victoria; Hieter Phil; Goodlett David R; Aebersold Ruedi
Increased quantitative proteome coverage with (13)C/(12)C-based, acid-cleavable isotope-coded affinity tag reagent and modified data acquisition scheme.
Proteomics 2005;5(2):380-7.
2005: Pan Sheng; Zhang Hui; Rush John; Eng Jimmy; Zhang Ning; Patterson Dale; Comb Michael J; Aebersold Ruedi
High throughput proteome screening for biomarker detection.
Molecular & cellular proteomics : MCP 2005;4(2):182-90.
2005: Gingras Anne-Claude; Aebersold Ruedi; Raught Brian
Advances in protein complex analysis using mass spectrometry.
The Journal of physiology 2005;563(Pt 1):11-21.
2005: Zhang Hui; Yi Eugene C; Li Xiao-jun; Mallick Parag; Kelly-Spratt Karen S; Masselon Christophe D; Camp David G; Smith Richard D; Kemp Christopher J; Aebersold Ruedi
High throughput quantitative analysis of serum proteins using glycopeptide capture and liquid chromatography mass spectrometry.
Molecular & cellular proteomics : MCP 2005;4(2):144-55.
2005: Zhang Jing; Goodlett David R; Peskind Elaine R; Quinn Joseph F; Zhou Yong; Wang Qin; Pan Catherine; Yi Eugene; Eng Jimmy; Aebersold Ruedi H; Montine Thomas J
Quantitative proteomic analysis of age-related changes in human cerebrospinal fluid.
Neurobiology of aging 2005;26(2):207-27.
2005: Keller Andrew; Eng Jimmy; Zhang Ning; Li Xiao-jun; Aebersold Ruedi
A uniform proteomics MS/MS analysis platform utilizing open XML file formats.
Molecular systems biology 2005;1():2005.0017.
2005: Corthals Garry L; Aebersold Reudi; Goodlett David R
Identification of phosphorylation sites using microimmobilized metal affinity chromatography.
Methods in enzymology 2005;405():66-81.
2004: Marelli Marcello; Smith Jennifer J; Jung Sunhee; Yi Eugene; Nesvizhskii Alexey I; Christmas Rowan H; Saleem Ramsey A; Tam Yuen Yi C; Fagarasanu Andrei; Goodlett David R; Aebersold Ruedi; Rachubinski Richard A; Aitchison John D
Quantitative mass spectrometry reveals a role for the GTPase Rho1p in actin organization on the peroxisome membrane.
The Journal of cell biology 2004;167(6):1099-112.
2004: Chen Xueyan; Chi Yong; Bloecher Andrew; Aebersold Ruedi; Clurman Bruce E; Roberts James M
N-acetylation and ubiquitin-independent proteasomal degradation of p21(Cip1).
Molecular cell 2004;16(5):839-47.
2004: Kao Wei-Chun; Chen Yet-Ran; Yi Eugene C; Lee Hookeun; Tian Qiang; Wu Keh-Ming; Tsai Shih-Feng; Yu Steve S-F; Chen Yu-Ju; Aebersold Ruedi; Chan Sunney I
Quantitative proteomic analysis of metabolic regulation by copper ions in Methylococcus capsulatus (Bath).
The Journal of biological chemistry 2004;279(49):51554-60.
2004: Flory Mark R; Carson Andrew R; Muller Eric G; Aebersold Ruedi
An SMC-domain protein in fission yeast links telomeres to the meiotic centrosome.
Molecular cell 2004;16(4):619-30.
2004: Pedrioli Patrick G A; Eng Jimmy K; Hubley Robert; Vogelzang Mathijs; Deutsch Eric W; Raught Brian; Pratt Brian; Nilsson Erik; Angeletti Ruth H; Apweiler Rolf; Cheung Kei; Costello Catherine E; Hermjakob Henning; Huang Sequin; Julian Randall K; Kapp Eugene; McComb Mark E; Oliver Stephen G; Omenn Gilbert; Paton Norman W; Simpson Richard; Smith Richard; Taylor Chris F; Zhu Weimin; Aebersold Ruedi
A common open representation of mass spectrometry data and its application to proteomics research.
Nature biotechnology 2004;22(11):1459-66.
2004: Nakamura Kazuyuki; Aebersold Ruedi; Bairoch Amos; Dunn Michael; Celis Julio; Hanash Samir; Hochstrasser Denis; Humphrey-Smith Ian; James Peter; Klose Joachim; LaBaer Joshua; Langen Hanno; Mann Matthias; Parekh Raj; Patterson Scott; Pearce Christopher; Poepstorff Peter; Simpson Richard J; Tomlinson Ian; Tsugita Akira; Yates John
[From genome to proteome--aim of human proteomics]
Seikagaku. The Journal of Japanese Biochemical Society 2004;76(10):1271-4.
2004: Tian Qiang; Feetham Megan C; Tao W Andy; He Xi C; Li Linheng; Aebersold Ruedi; Hood Leroy
Proteomic analysis identifies that 14-3-3zeta interacts with beta-catenin and facilitates its activation by Akt.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(43):15370-5.
2004: Yan Wei; Lee Hookeun; Deutsch Eric W; Lazaro Catherine A; Tang Weiliang; Chen Eric; Fausto Nelson; Katze Michael G; Aebersold Ruedi
A dataset of human liver proteins identified by protein profiling via isotope-coded affinity tag (ICAT) and tandem mass spectrometry.
Molecular & cellular proteomics : MCP 2004;3(10):1039-41.
2004: Tian Qiang; Stepaniants Serguei B; Mao Mao; Weng Lee; Feetham Megan C; Doyle Michelle J; Yi Eugene C; Dai Hongyue; Thorsson Vesteinn; Eng Jimmy; Goodlett David; Berger Joel P; Gunter Bert; Linseley Peter S; Stoughton Roland B; Aebersold Ruedi; Collins Steven J; Hanlon William A; Hood Leroy E
Integrated genomic and proteomic analyses of gene expression in Mammalian cells.
Molecular & cellular proteomics : MCP 2004;3(10):960-9.
2004: Trushina Eugenia; Dyer Roy B; Badger John D; Ure Daren; Eide Lars; Tran David D; Vrieze Brent T; Legendre-Guillemin Valerie; McPherson Peter S; Mandavilli Bhaskar S; Van Houten Bennett; Zeitlin Scott; McNiven Mark; Aebersold Ruedi; Hayden Michael; Parisi Joseph E; Seeberg Erling; Dragatsis Ioannis; Doyle Kelly; Bender Anna; Chacko Celin; McMurray Cynthia T
Mutant huntingtin impairs axonal trafficking in mammalian neurons in vivo and in vitro.
Molecular and cellular biology 2004;24(18):8195-209.
2004: Zhou Yong; Gu Guangyu; Goodlett David R; Zhang Terry; Pan Catherine; Montine Thomas J; Montine Kathleen S; Aebersold Ruedi H; Zhang Jing
Analysis of alpha-synuclein-associated proteins by quantitative proteomics.
The Journal of biological chemistry 2004;279(37):39155-64.
2004: Lu Yu; Bottari Patricia; Turecek Frantisek; Aebersold Ruedi; Gelb Michael H
Absolute quantification of specific proteins in complex mixtures using visible isotope-coded affinity tags.
Analytical chemistry 2004;76(14):4104-11.
2004: Li Xiao-jun; Pedrioli Patrick G A; Eng Jimmy; Martin Dan; Yi Eugene C; Lee Hookeun; Aebersold Ruedi
A tool to visualize and evaluate data obtained by liquid chromatography-electrospray ionization-mass spectrometry.
Analytical chemistry 2004;76(13):3856-60.
2004: Giglia-Mari Giuseppina; Coin Frederic; Ranish Jeffrey A; Hoogstraten Deborah; Theil Arjan; Wijgers Nils; Jaspers Nicolaas G J; Raams Anja; Argentini Manuela; van der Spek P J; Botta Elena; Stefanini Miria; Egly Jean-Marc; Aebersold Ruedi; Hoeijmakers Jan H J; Vermeulen Wim
A new, tenth subunit of TFIIH is responsible for the DNA repair syndrome trichothiodystrophy group A.
Nature genetics 2004;36(7):714-9.
2004: Ranish Jeffrey A; Hahn Steven; Lu Yu; Yi Eugene C; Li Xiao-jun; Eng Jimmy; Aebersold Ruedi
Identification of TFB5, a new component of general transcription and DNA repair factor IIH.
Nature genetics 2004;36(7):707-13.
2004: Wollscheid Bernd; Watts Julian D; Aebersold Ruedi
Proteomics/genomics and signaling in lymphocytes.
Current opinion in immunology 2004;16(3):337-44.
2004: Carr Steven; Aebersold Ruedi; Baldwin Michael; Burlingame Al; Clauser Karl; Nesvizhskii Alexey;
The need for guidelines in publication of peptide and protein identification data: Working Group on Publication Guidelines for Peptide and Protein Identification Data.
Molecular & cellular proteomics : MCP 2004;3(6):531-3.
2004: Hardwidge Philip R; Rodriguez-Escudero Isabel; Goode David; Donohoe Sam; Eng Jimmy; Goodlett David R; Aebersold Reudi; Finlay B Brett
Proteomic analysis of the intestinal epithelial cell response to enteropathogenic Escherichia coli.
The Journal of biological chemistry 2004;279(19):20127-36.
2004: MacKay Vivian L; Li Xiaohong; Flory Mark R; Turcott Eileen; Law G Lynn; Serikawa Kyle A; Xu X L; Lee Hookeun; Goodlett David R; Aebersold Ruedi; Zhao Lue Ping; Morris David R
Gene expression analyzed by high-resolution state array analysis and quantitative proteomics: response of yeast to mating pheromone.
Molecular & cellular proteomics : MCP 2004;3(5):478-89.
2004: Shumaker-Parry Jennifer S; Aebersold Ruedi; Campbell Charles T
Parallel, quantitative measurement of protein binding to a 120-element double-stranded DNA array in real time using surface plasmon resonance microscopy.
Analytical chemistry 2004;76(7):2071-82.
2004: Lee Hookeun; Yi Eugene C; Wen Bo; Reily Timothy P; Pohl Lance; Nelson Sidney; Aebersold Ruedi; Goodlett David R
Optimization of reversed-phase microcapillary liquid chromatography for quantitative proteomics.
Journal of chromatography. B, Analytical technologies in the biomedical and life sciences 2004;803(1):101-10.
2004: Mayer Melanie L; Pot Isabelle; Chang Michael; Xu Hong; Aneliunas Victoria; Kwok Teresa; Newitt Rick; Aebersold Ruedi; Boone Charles; Brown Grant W; Hieter Philip
Identification of protein complexes required for efficient sister chromatid cohesion.
Molecular biology of the cell 2004;15(4):1736-45.
2004: Bottari Patricia; Aebersold Ruedi; Turecek Frantisek; Gelb Michael H
Design and synthesis of visible isotope-coded affinity tags for the absolute quantification of specific proteins in complex mixtures.
Bioconjugate chemistry 2004;15(2):380-8.
2004: Himeda Charis L; Ranish Jeffrey A; Angello John C; Maire Pascal; Aebersold Ruedi; Hauschka Stephen D
Quantitative proteomic identification of six4 as the trex-binding factor in the muscle creatine kinase enhancer.
Molecular and cellular biology 2004;24(5):2132-43.
2004: Zhang Hui; Yan Wei; Aebersold Ruedi
Chemical probes and tandem mass spectrometry: a strategy for the quantitative analysis of proteomes and subproteomes.
Current opinion in chemical biology 2004;8(1):66-75.
2004: Shumaker-Parry Jennifer S; Zareie M Hadi; Aebersold Ruedi; Campbell Charles T
Microspotting streptavidin and double-stranded DNA arrays on gold for high-throughput studies of protein-DNA interactions by surface plasmon resonance microscopy.
Analytical chemistry 2004;76(4):918-29.
2004: Nesvizhskii Alexey I; Aebersold Ruedi
Analysis, statistical validation and dissemination of large-scale proteomics datasets generated by tandem MS.
Drug discovery today 2004;9(4):173-81.
2004: Sozio Margaret S; Mathis Meredith A; Young Jennifer A; Wälchli Sebastien; Pitcher Lisa A; Wrage Philip C; Bartók Beatrix; Campbell Amanda; Watts Julian D; Aebersold Ruedi; Hooft van Huijsduijnen Rob; van Oers Nicolai S C
PTPH1 is a predominant protein-tyrosine phosphatase capable of interacting with and dephosphorylating the T cell receptor zeta subunit.
The Journal of biological chemistry 2004;279(9):7760-9.
2004: Camacho-Carvajal Margarita M; Wollscheid Bernd; Aebersold Ruedi; Steimle Viktor; Schamel Wolfgang W A
Two-dimensional Blue native/SDS gel electrophoresis of multi-protein complexes from whole cellular lysates: a proteomics approach.
Molecular & cellular proteomics : MCP 2004;3(2):176-82.
2004: Martin Daniel B; Gifford David R; Wright Michael E; Keller Andrew; Yi Eugene; Goodlett David R; Aebersold Reudi; Nelson Peter S
Quantitative proteomic analysis of proteins released by neoplastic prostate epithelium.
Cancer research 2004;64(1):347-55.
2004: Brand Marjorie; Ranish Jeffrey A; Kummer Nicolas T; Hamilton Joan; Igarashi Kazuhiko; Francastel Claire; Chi Tian H; Crabtree Gerald R; Aebersold Ruedi; Groudine Mark
Dynamic changes in transcription factor complexes during erythroid differentiation revealed by quantitative proteomics.
Nature structural & molecular biology 2004;11(1):73-80.
2004: Schmidt Frank; Donahoe Samuel; Hagens Kristine; Mattow Jens; Schaible Ulrich E; Kaufmann Stefan H E; Aebersold Ruedi; Jungblut Peter R
Complementary analysis of the Mycobacterium tuberculosis proteome by two-dimensional electrophoresis and isotope-coded affinity tag technology.
Molecular & cellular proteomics : MCP 2004;3(1):24-42.
2004: Wollscheid Bernd; von Haller Priska D; Yi Eugene; Donohoe Samuel; Vaughn Kelly; Keller Andrew; Nesvizhskii Alexey I; Eng Jimmy; Li Xiao-jun; Goodlett David R; Aebersold Ruedi; Watts Julian D
Lipid raft proteins and their identification in T lymphocytes.
Sub-cellular biochemistry 2004;37():121-52.
2004: Yan Wei; Lee Hookeun; Yi Eugene C; Reiss David; Shannon Paul; Kwieciszewski Bartlomiej K; Coito Carlos; Li Xiao-jun; Keller Andrew; Eng Jimmy; Galitski Timothy; Goodlett David R; Aebersold Ruedi; Katze Michael G
System-based proteomic analysis of the interferon response in human liver cells.
Genome biology 2004;5(8):R54.
2004: Zhou Huilin; Boyle Rosemary; Aebersold Ruedi
Quantitative protein analysis by solid phase isotope tagging and mass spectrometry.
Methods in molecular biology (Clifton, N.J.) 2004;261():511-8.
2003: Li Xiao-Jun; Zhang Hui; Ranish Jeffrey A; Aebersold Ruedi
Automated statistical analysis of protein abundance ratios from data generated by stable-isotope dilution and tandem mass spectrometry.
Analytical chemistry 2003;75(23):6648-57.
2003: Haendeler Judith; Yin Guoyong; Hojo Yukihiro; Saito Yuji; Melaragno Matthew; Yan Chen; Sharma Virendra K; Heller Manfred; Aebersold Ruedi; Berk Bradford C
GIT1 mediates Src-dependent activation of phospholipase Cgamma by angiotensin II and epidermal growth factor.
The Journal of biological chemistry 2003;278(50):49936-44.
2003: Nesvizhskii Alexey I; Keller Andrew; Kolker Eugene; Aebersold Ruedi
A statistical model for identifying proteins by tandem mass spectrometry.
Analytical chemistry 2003;75(17):4646-58.
2003: Wright Michael E; Tsai Ming-Jer; Aebersold Ruedi
Androgen receptor represses the neuroendocrine transdifferentiation process in prostate cancer cells.
Molecular endocrinology (Baltimore, Md.) 2003;17(9):1726-37.
2003: Goo Young Ah; Yi Eugene C; Baliga Nitin S; Tao Weiguo A; Pan Min; Aebersold Ruedi; Goodlett David R; Hood Leroy; Ng Wailap V
Proteomic analysis of an extreme halophilic archaeon, Halobacterium sp. NRC-1.
Molecular & cellular proteomics : MCP 2003;2(8):506-24.
2003: Hu Shen; Le Zhang; Newitt Richard; Aebersold Ruedi; Kraly James R; Jones Megan; Dovichi Norman J
Identification of proteins in single-cell capillary electrophoresis fingerprints based on comigration with standard proteins.
Analytical chemistry 2003;75(14):3502-5.
2003: Guina Tina; Wu Manhong; Miller Samuel I; Purvine Samuel O; Yi Eugene C; Eng Jimmy; Goodlett David R; Aebersold Ruedi; Ernst Robert K; Lee Kimberly A
Proteomic analysis of Pseudomonas aeruginosa grown under magnesium limitation.
Journal of the American Society for Mass Spectrometry 2003;14(7):742-51.
2003: Shiio Yuzuru; Eisenman Robert N; Yi Eugene C; Donohoe Sam; Goodlett David R; Aebersold Ruedi
Quantitative proteomic analysis of chromatin-associated factors.
Journal of the American Society for Mass Spectrometry 2003;14(7):696-703.
2003: Aebersold Ruedi
A mass spectrometric journey into protein and proteome research.
Journal of the American Society for Mass Spectrometry 2003;14(7):685-95.
2003: von Haller Priska D; Yi Eugene; Donohoe Samuel; Vaughn Kelly; Keller Andrew; Nesvizhskii Alexey I; Eng Jimmy; Li Xiao-jun; Goodlett David R; Aebersold Ruedi; Watts Julian D
The application of new software tools to quantitative protein profiling via isotope-coded affinity tag (ICAT) and tandem mass spectrometry: II. Evaluation of tandem mass spectrometry methodologies for large-scale protein analysis, and the application of statistical tools for data analysis and interpretation.
Molecular & cellular proteomics : MCP 2003;2(7):428-42.
2003: von Haller Priska D; Yi Eugene; Donohoe Samuel; Vaughn Kelly; Keller Andrew; Nesvizhskii Alexey I; Eng Jimmy; Li Xiao-jun; Goodlett David R; Aebersold Ruedi; Watts Julian D
The application of new software tools to quantitative protein profiling via isotope-coded affinity tag (ICAT) and tandem mass spectrometry: I. Statistically annotated datasets for peptide sequences and proteins identified via the application of ICAT and tandem mass spectrometry to proteins copurifying with T cell lipid rafts.
Molecular & cellular proteomics : MCP 2003;2(7):426-7.
2003: Aebersold Ruedi
Quantitative proteome analysis: methods and applications.
The Journal of infectious diseases 2003;187 Suppl 2():S315-20.
2003: Zhang Hui; Li Xiao-Jun; Martin Daniel B; Aebersold Ruedi
Identification and quantification of N-linked glycoproteins using hydrazide chemistry, stable isotope labeling and mass spectrometry.
Nature biotechnology 2003;21(6):660-6.
2003: Seward Robert J; von Haller Priska D; Aebersold Ruedi; Huber Brigitte T
Phosphorylation of the pro-apoptotic protein Bim in lymphocytes is associated with protection from apoptosis.
Molecular immunology 2003;39(16):983-93.
2003: Ha Seon-Ah; Torabinejad Javad; DeWald Daryll B; Wenk Markus R; Lucast Louise; De Camilli Pietro; Newitt Richard A; Aebersold Ruedi; Nothwehr Steven F
The synaptojanin-like protein Inp53/Sjl3 functions with clathrin in a yeast TGN-to-endosome pathway distinct from the GGA protein-dependent pathway.
Molecular biology of the cell 2003;14(4):1319-33.
2003: Chikamori Kenichi; Grabowski Dale R; Kinter Michael; Willard Belinda B; Yadav Satya; Aebersold Ruedi H; Bukowski Ronald M; Hickson Ian D; Andersen Anni H; Ganapathi Ram; Ganapathi Mahrukh K
Phosphorylation of serine 1106 in the catalytic domain of topoisomerase II alpha regulates enzymatic activity and drug sensitivity.
The Journal of biological chemistry 2003;278(15):12696-702.
2003: Aebersold Ruedi; Mann Matthias
Mass spectrometry-based proteomics.
Nature 2003;422(6928):198-207.
2003: Aebersold Ruedi
Constellations in a cellular universe.
Nature 2003;422(6928):115-6.
2003: Taylor Chris F; Paton Norman W; Garwood Kevin L; Kirby Paul D; Stead David A; Yin Zhikang; Deutsch Eric W; Selway Laura; Walker Janet; Riba-Garcia Isabel; Mohammed Shabaz; Deery Michael J; Howard Julie A; Dunkley Tom; Aebersold Ruedi; Kell Douglas B; Lilley Kathryn S; Roepstorff Peter; Yates John R; Brass Andy; Brown Alistair J P; Cash Phil; Gaskell Simon J; Hubbard Simon J; Oliver Stephen G
A systematic approach to modeling, capturing, and disseminating proteomics experimental data.
Nature biotechnology 2003;21(3):247-54.
2003: Patterson Scott D; Aebersold Ruedi H
Proteomics: the first decade and beyond.
Nature genetics 2003;33 Suppl():311-23.
2003: Guina Tina; Purvine Samuel O; Yi Eugene C; Eng Jimmy; Goodlett David R; Aebersold Ruedi; Miller Samuel I
Quantitative proteomic analysis indicates increased synthesis of a quinolone by Pseudomonas aeruginosa isolates from cystic fibrosis airways.
Proceedings of the National Academy of Sciences of the United States of America 2003;100(5):2771-6.
2003: Ranish Jeffrey A; Yi Eugene C; Leslie Deena M; Purvine Samuel O; Goodlett David R; Eng Jimmy; Aebersold Ruedi
The study of macromolecular complexes by quantitative proteomics.
Nature genetics 2003;33(3):349-55.
2003: Griffin Timothy J; Lock Chris M; Li Xiao-jun; Patel Alpesh; Chervetsova Iryna; Lee Hookeun; Wright Michael E; Ranish Jeffrey A; Chen Sharon S; Aebersold Ruedi
Abundance ratio-dependent proteomic analysis by mass spectrometry.
Analytical chemistry 2003;75(4):867-74.
2003: Tao W Andy; Aebersold Ruedi
Advances in quantitative proteomics via stable isotope tagging and mass spectrometry.
Current opinion in biotechnology 2003;14(1):110-8.
2003: Wright Michael E; Eng Jimmy; Sherman James; Hockenbery David M; Nelson Peter S; Galitski Timothy; Aebersold Ruedi
Identification of androgen-coregulated protein networks from the microsomes of human prostate cancer cells.
Genome biology 2003;5(1):R4.
2003: Flory Mark R; Aebersold Ruedi
Proteomic approaches for the identification of cell cycle-related drug targets.
Progress in cell cycle research 2003;5():167-71.
2003: Yi Eugene C; Lee Hookeun; Aebersold Ruedi; Goodlett David R
A microcapillary trap cartridge-microcapillary high-performance liquid chromatography electrospray ionization emitter device capable of peptide tandem mass spectrometry at the attomole level on an ion trap mass spectrometer with automated routine operation.
Rapid communications in mass spectrometry : RCM 2003;17(18):2093-8.
2002: Flory Mark R; Griffin Timothy J; Martin Daniel; Aebersold Ruedi
Advances in quantitative proteomics using stable isotope tags.
Trends in biotechnology 2002;20(12 Suppl):S23-9.
2002: Aebersold Ruedi; Cravatt Benjamin F
Proteomics--advances, applications and the challenges that remain.
Trends in biotechnology 2002;20(12 Suppl):S1-2.
2002: Baliga Nitin S; Pan Min; Goo Young Ah; Yi Eugene C; Goodlett David R; Dimitrov Krassen; Shannon Paul; Aebersold Ruedi; Ng Wailap Victor; Hood Leroy
Coordinate regulation of energy transduction modules in Halobacterium sp. analyzed by a global systems approach.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(23):14913-8.
2002: Zhang Ning; Aebersold Ruedi; Schwikowski Benno
ProbID: a probabilistic algorithm to identify peptides through sequence database searching using tandem mass spectral data.
Proteomics 2002;2(10):1406-12.
2002: Keller Andrew; Nesvizhskii Alexey I; Kolker Eugene; Aebersold Ruedi
Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search.
Analytical chemistry 2002;74(20):5383-92.
2002: Shiio Yuzuru; Donohoe Sam; Yi Eugene C; Goodlett David R; Aebersold Ruedi; Eisenman Robert N
Quantitative proteomic analysis of Myc oncoprotein function.
The EMBO journal 2002;21(19):5088-96.
2002: Yi Eugene C; Marelli Marcello; Lee Hookeun; Purvine Samuel O; Aebersold Ruedi; Aitchison John D; Goodlett David R
Approaching complete peroxisome characterization by gas-phase fractionation.
Electrophoresis 2002;23(18):3205-16.
2002: Lee Hookeun; Griffin Timothy J; Gygi Steven P; Rist Beate; Aebersold Ruedi
Development of a multiplexed microcapillary liquid chromatography system for high-throughput proteome analysis.
Analytical chemistry 2002;74(17):4353-60.
2002: Yang Tong; Espenshade Peter J; Wright Michael E; Yabe Daisuke; Gong Yi; Aebersold Ruedi; Goldstein Joseph L; Brown Michael S
Crucial step in cholesterol homeostasis: sterols promote binding of SCAP to INSIG-1, a membrane protein that facilitates retention of SREBPs in ER.
Cell 2002;110(4):489-500.
2002: Aebersold Ruedi; Watts Julian D
The need for national centers for proteomics.
Nature biotechnology 2002;20(7):651.
2002: James Eric A; Gygi Steven P; Adams Michael L; Pierce Robert H; Fausto Nelson; Aebersold Ruedi H; Nelson Sidney D; Bruschi Sam A
Mitochondrial aconitase modification, functional inhibition, and evidence for a supramolecular complex of the TCA cycle by the renal toxicant S-(1,1,2,2-tetrafluoroethyl)-L-cysteine.
Biochemistry 2002;41(21):6789-97.
2002: Zhou Huilin; Ranish Jeffrey A; Watts Julian D; Aebersold Ruedi
Quantitative proteome analysis by solid-phase isotope tagging and mass spectrometry.
Nature biotechnology 2002;20(5):512-5.
2002: Rabilloud Thierry; Heller Manfred; Gasnier Francoise; Luche Sylvie; Rey Catherine; Aebersold Ruedi; Benahmed Mohamed; Louisot Pierre; Lunardi Joel
Proteomics analysis of cellular response to oxidative stress. Evidence for in vivo overoxidation of peroxiredoxins at their active site.
The Journal of biological chemistry 2002;277(22):19396-401.
2002: Griffin Timothy J; Gygi Steven P; Ideker Trey; Rist Beate; Eng Jimmy; Hood Leroy; Aebersold Ruedi
Complementary profiling of gene expression at the transcriptome and proteome levels in Saccharomyces cerevisiae.
Molecular & cellular proteomics : MCP 2002;1(4):323-33.
2002: Marotti Louis A; Newitt Rick; Wang Yuqi; Aebersold Ruedi; Dohlman Henrik G
Direct identification of a G protein ubiquitination site by mass spectrometry.
Biochemistry 2002;41(16):5067-74.
2002: Kabak Shara; Skaggs Brian J; Gold Michael R; Affolter Michael; West Kelly L; Foster Mark S; Siemasko Karyn; Chan Andrew C; Aebersold Ruedi; Clark Marcus R
The direct recruitment of BLNK to immunoglobulin alpha couples the B-cell antigen receptor to distal signaling pathways.
Molecular and cellular biology 2002;22(8):2524-35.
2002: Hamerman Jessica A; Hayashi Fumitaka; Schroeder Lea A; Gygi Steven P; Haas Arthur L; Hampson Lynne; Coughlin Paul; Aebersold Ruedi; Aderem Alan
Serpin 2a is induced in activated macrophages and conjugates to a ubiquitin homolog.
Journal of immunology (Baltimore, Md. : 1950) 2002;168(5):2415-23.
2002: Dramsi Shaynoor; Scheid Michael P; Maiti Arpita; Hojabrpour Payman; Chen Xianming; Schubert Kathryn; Goodlett David R; Aebersold Ruedi; Duronio Vincent
Identification of a novel phosphorylation site, Ser-170, as a regulator of bad pro-apoptotic activity.
The Journal of biological chemistry 2002;277(8):6399-405.
2002: Gygi Steven P; Rist Beate; Griffin Timothy J; Eng Jimmy; Aebersold Ruedi
Proteome analysis of low-abundance proteins using multidimensional chromatography and isotope-coded affinity tags.
Journal of proteome research 2002;1(1):47-54.
2002: Smolka Marcus; Zhou Huilin; Aebersold Ruedi
Quantitative protein profiling using two-dimensional gel electrophoresis, isotope-coded affinity tag labeling, and mass spectrometry.
Molecular & cellular proteomics : MCP 2002;1(1):19-29.
2001: Griffin T J; Han D K; Gygi S P; Rist B; Lee H; Aebersold R; Parker K C
Toward a high-throughput approach to quantitative proteomic analysis: expression-dependent protein identification by mass spectrometry.
Journal of the American Society for Mass Spectrometry 2001;12(12):1238-46.
2001: Griffin T J; Aebersold R
Advances in proteome analysis by mass spectrometry.
The Journal of biological chemistry 2001;276(49):45497-500.
2001: Rabilloud T; Heller M; Rigobello M P; Bindoli A; Aebersold R; Lunardi J
The mitochondrial antioxidant defence system and its response to oxidative stress.
Proteomics 2001;1(9):1105-10.
2001: von Haller P D; Donohoe S; Goodlett D R; Aebersold R; Watts J D
Mass spectrometric characterization of proteins extracted from Jurkat T cell detergent-resistant membrane domains.
Proteomics 2001;1(8):1010-21.
2001: Ideker T; Thorsson V; Ranish J A; Christmas R; Buhler J; Eng J K; Bumgarner R; Goodlett D R; Aebersold R; Hood L
Integrated genomic and proteomic analyses of a systematically perturbed metabolic network.
Science (New York, N.Y.) 2001;292(5518):929-34.
2001: Zhou H; Watts J D; Aebersold R
A systematic approach to the analysis of protein phosphorylation.
Nature biotechnology 2001;19(4):375-8.
2001: Liu Y; Ranish J A; Aebersold R; Hahn S
Yeast nuclear extract contains two major forms of RNA polymerase II mediator complexes.
The Journal of biological chemistry 2001;276(10):7169-75.
2001: Griffin T J; Gygi S P; Rist B; Aebersold R; Loboda A; Jilkine A; Ens W; Standing K G
Quantitative proteomic analysis using a MALDI quadrupole time-of-flight mass spectrometer.
Analytical chemistry 2001;73(5):978-86.
2001: Heller M; Watts J D; Aebersold R
CD28 stimulation regulates its association with N-ethylmaleimide-sensitive fusion protein and other proteins involved in vesicle sorting.
Proteomics 2001;1(1):70-8.
2001: Goodlett D R; Keller A; Watts J D; Newitt R; Yi E C; Purvine S; Eng J K; von Haller P; Aebersold R; Kolker E
Differential stable isotope labeling of peptides for quantitation and de novo sequence derivation.
Rapid communications in mass spectrometry : RCM 2001;15(14):1214-21.
2000: Katze M G; Kwieciszewski B; Goodlett D R; Blakely C M; Neddermann P; Tan S L; Aebersold R
Ser(2194) is a highly conserved major phosphorylation site of the hepatitis C virus nonstructural protein NS5A.
Virology 2000;278(2):501-13.
2000: Haynes P A; Aebersold R
Simultaneous detection and identification of O-GlcNAc-modified glycoproteins using liquid chromatography-tandem mass spectrometry.
Analytical chemistry 2000;72(21):5402-10.
2000: Morrison D L; Yee A; Paddon H B; Vilimek D; Aebersold R; Pelech S L
Regulation of the meiosis-inhibited protein kinase, a p38(MAPK) isoform, during meiosis and following fertilization of seastar oocytes.
The Journal of biological chemistry 2000;275(44):34236-44.
2000: Gygi S P; Aebersold R
Mass spectrometry and proteomics.
Current opinion in chemical biology 2000;4(5):489-94.
2000: Mikheev A M; Mikheev S A; Zhang Y; Aebersold R; Zarbl H
CArG binding factor A (CBF-A) is involved in transcriptional regulation of the rat Ha-ras promoter.
Nucleic acids research 2000;28(19):3762-70.
2000: Gygi S P; Rist B; Aebersold R
Measuring gene expression by quantitative proteome analysis.
Current opinion in biotechnology 2000;11(4):396-401.
2000: Gygi S P; Corthals G L; Zhang Y; Rochon Y; Aebersold R
Evaluation of two-dimensional gel electrophoresis-based proteome analysis technology.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(17):9390-5.
2000: Heller M; Goodlett D R; Watts J D; Aebersold R
A comprehensive characterization of the T-cell antigen receptor complex composition by microcapillary liquid chromatography-tandem mass spectrometry.
Electrophoresis 2000;21(11):2180-95.
2000: Ebrini I; Agnello D; Miller I; Villa P; Fratelli M; Ghezzi P; Gemeiner M; Chan J; Aebersold R; Gianazza E
Proteins of rat serum V: adjuvant arthritis and its modulation by nonsteroidal anti-inflammatory drugs.
Electrophoresis 2000;21(11):2170-9.
2000: Nelson P S; Han D; Rochon Y; Corthals G L; Lin B; Monson A; Nguyen V; Franza B R; Plymate S R; Aebersold R; Hood L
Comprehensive analyses of prostate gene expression: convergence of expressed sequence tag databases, transcript profiling and proteomics.
Electrophoresis 2000;21(9):1823-31.
2000: Aebersold R; Hood L E; Watts J D
Equipping scientists for the new biology.
Nature biotechnology 2000;18(4):359.
2000: Goodlett D R; Bruce J E; Anderson G A; Rist B; Pasa-Tolic L; Fiehn O; Smith R D; Aebersold R
Protein identification with a single accurate mass of a cysteine-containing peptide and constrained database searching.
Analytical chemistry 2000;72(6):1112-8.
2000: Ostrowski J; Schullery D S; Denisenko O N; Higaki Y; Watts J; Aebersold R; Stempka L; Gschwendt M; Bomsztyk K
Role of tyrosine phosphorylation in the regulation of the interaction of heterogenous nuclear ribonucleoprotein K protein with its protein and RNA partners.
The Journal of biological chemistry 2000;275(5):3619-28.
2000: Aebersold R; Rist B; Gygi S P
Quantitative proteome analysis: methods and applications.
Annals of the New York Academy of Sciences 2000;919():33-47.
2000: Goodlett D R; Aebersold R; Watts J D
Quantitative in vitro kinase reaction as a guide for phosphoprotein analysis by mass spectrometry.
Rapid communications in mass spectrometry : RCM 2000;14(5):344-8.
1999: Rabilloud T; Blisnick T; Heller M; Luche S; Aebersold R; Lunardi J; Braun-Breton C
Analysis of membrane proteins by two-dimensional electrophoresis: comparison of the proteins extracted from normal or Plasmodium falciparum-infected erythrocyte ghosts.
Electrophoresis 1999;20(18):3603-10.
1999: Eberini I; Miller I; Gemeiner M; Haynes P; Aebersold R; Puglisi L; Sirtori C R; Gianazza E
A web site for the rat serum protein study group.
Electrophoresis 1999;20(18):3599-602.
1999: Garrison T R; Zhang Y; Pausch M; Apanovitch D; Aebersold R; Dohlman H G
Feedback phosphorylation of an RGS protein by MAP kinase in yeast.
The Journal of biological chemistry 1999;274(51):36387-91.
1999: Charlton L A; Sayed M; Clark-Lewis I; Aebersold R; Pelech S L
Characterization of an activated ribosomal S6 kinase variant from maturing sea star oocytes: association with phosphatase 2A and substrate specificity.
Journal of cellular biochemistry 1999;75(2):310-26.
1999: Chan J H; Timperman A T; Qin D; Aebersold R
Microfabricated polymer devices for automated sample delivery of peptides for analysis by electrospray ionization tandem mass spectrometry.
Analytical chemistry 1999;71(20):4437-44.
1999: Gallis B; Corthals G L; Goodlett D R; Ueba H; Kim F; Presnell S R; Figeys D; Harrison D G; Berk B C; Aebersold R; Corson M A
Identification of flow-dependent endothelial nitric-oxide synthase phosphorylation sites by mass spectrometry and regulation of phosphorylation and nitric oxide production by the phosphatidylinositol 3-kinase inhibitor LY294002.
The Journal of biological chemistry 1999;274(42):30101-8.
1999: Gygi S P; Rist B; Gerber S A; Turecek F; Gelb M H; Aebersold R
Quantitative analysis of complex protein mixtures using isotope-coded affinity tags.
Nature biotechnology 1999;17(10):994-9.
1999: Figeys D; Corthals G L; Gallis B; Goodlett D R; Ducret A; Corson M A; Aebersold R
Data-dependent modulation of solid-phase extraction capillary electrophoresis for the analysis of complex peptide and phosphopeptide mixtures by tandem mass spectrometry: application to endothelial nitric oxide synthase.
Analytical chemistry 1999;71(13):2279-87.
1999: Watts J D; Aebersold R; Polverino A J; Patterson S D; Gu M
Ceramide second messengers and ceramide assays.
Trends in biochemical sciences 1999;24(6):228.
1999: Yokota H; Fung K; Trask B J; van den Engh G; Sarikaya M; Aebersold R
Sharp DNA bends as landmarks of protein-binding sites on straightened DNA.
Analytical chemistry 1999;71(9):1663-7.
1999: Miller I; Haynes P; Eberini I; Gemeiner M; Aebersold R; Gianazza E
Proteins of rat serum: III. Gender-related differences in protein concentration under baseline conditions and upon experimental inflammation as evaluated by two-dimensional electrophoresis.
Electrophoresis 1999;20(4-5):836-45.
1999: Gygi S P; Rochon Y; Franza B R; Aebersold R
Correlation between protein and mRNA abundance in yeast.
Molecular and cellular biology 1999;19(3):1720-30.
1999: Watts J D; Gu M; Patterson S D; Aebersold R; Polverino A J
On the complexities of ceramide changes in cells undergoing apoptosis: lack of evidence for a second messenger function in apoptotic induction.
Cell death and differentiation 1999;6(2):105-14.
1999: Gygi S P; Han D K; Gingras A C; Sonenberg N; Aebersold R
Protein analysis by mass spectrometry and sequence database searching: tools for cancer research in the post-genomic era.
Electrophoresis 1999;20(2):310-9.
1999: Gygi S P; Aebersold R
Absolute quantitation of 2-D protein spots.
Methods in molecular biology (Clifton, N.J.) 1999;112():417-21.
1998: Ducret A; Bartone N; Haynes P A; Blanchard A; Aebersold R
A simplified gradient solvent delivery system for capillary liquid chromatography-electrospray ionization mass spectrometry.
Analytical biochemistry 1998;265(1):129-38.
1998: Yokota H; Nickerson D A; Trask B J; van den Engh G; Hirst M; Sadowski I; Aebersold R
Mapping a protein-binding site on straightened DNA by atomic force microscopy.
Analytical biochemistry 1998;264(2):158-64.
1998: Figeys D; Zhang Y; Aebersold R
Optimization of solid phase microextraction - capillary zone electrophoresis - mass spectrometry for high sensitivity protein identification.
Electrophoresis 1998;19(13):2338-47.
1998: Wang J; Ducret A; Tu Y; Kozasa T; Aebersold R; Ross E M
RGSZ1, a Gz-selective RGS protein in brain. Structure, membrane association, regulation by Galphaz phosphorylation, and relationship to a Gz gtpase-activating protein subfamily.
The Journal of biological chemistry 1998;273(40):26014-25.
1998: Figeys D; Gygi S P; McKinnon G; Aebersold R
An integrated microfluidics-tandem mass spectrometry system for automated protein analysis.
Analytical chemistry 1998;70(18):3728-34.
1998: Figeys D; Aebersold R
Nanoflow solvent gradient delivery from a microfabricated device for protein identifications by electrospray ionization mass spectrometry.
Analytical chemistry 1998;70(18):3721-7.
1998: Haynes P A; Gygi S P; Figeys D; Aebersold R
Proteome analysis: biological assay or data archive?
Electrophoresis 1998;19(11):1862-71.
1998: Aebersold R; Figeys D; Gygi S; Corthals G; Haynes P; Rist B; Sherman J; Zhang Y; Goodlett D
Towards an integrated analytical technology for the generation of multidimensional protein expression maps.
Journal of protein chemistry 1998;17(6):533-5.
1998: Figeys D; Gygi S P; Zhang Y; Watts J; Gu M; Aebersold R
Electrophoresis combined with novel mass spectrometry techniques: powerful tools for the analysis of proteins and proteomes.
Electrophoresis 1998;19(10):1811-8.
1998: Zhang Y; Figeys D; Aebersold R
Purification of trypsin for mass spectrometric identification of proteins at high sensitivity.
Analytical biochemistry 1998;261(1):124-7.
1998: Miller I; Haynes P; Gemeiner M; Aebersold R; Manzoni C; Lovati M R; Vignati M; Eberini I; Gianazza E
Proteins of rat serum: II. Influence of some biological parameters of the two-dimensional electrophoresis pattern.
Electrophoresis 1998;19(8-9):1493-500.
1998: Haynes P; Miller I; Aebersold R; Gemeiner M; Eberini I; Lovati M R; Manzoni C; Vignati M; Gianazza E
Proteins of rat serum: I. Establishing a reference two-dimensional electrophoresis map by immunodetection and microbore high performance liquid chromatography-electrospray mass spectrometry.
Electrophoresis 1998;19(8-9):1484-92.
1998: Haynes P A; Fripp N; Aebersold R
Identification of gel-separated proteins by liquid chromatography-electrospray tandem mass spectrometry: comparison of methods and their limitations.
Electrophoresis 1998;19(6):939-45.
1998: Figeys D; Aebersold R
High sensitivity analysis of proteins and peptides by capillary electrophoresis-tandem mass spectrometry: recent developments in technology and applications.
Electrophoresis 1998;19(6):885-92.
1998: Steinmetz A; Hermann M; Nimpf J; Aebersold R; Ducret A; Weinberg R B; Schneider W J
Expression and conservation of apolipoprotein AIV in an avian species.
The Journal of biological chemistry 1998;273(17):10543-9.
1998: Ducret A; Van Oostveen I; Eng J K; Yates J R; Aebersold R
High throughput protein characterization by automated reverse-phase chromatography/electrospray tandem mass spectrometry.
Protein science : a publication of the Protein Society 1998;7(3):706-19.
1997: Figeys D; Ning Y; Aebersold R
A microfabricated device for rapid protein identification by microelectrospray ion trap mass spectrometry.
Analytical chemistry 1997;69(16):3153-60.
1997: Figeys D; Aebersold R
Capillary electrophoresis of peptides and proteins at neutral pH in capillaries covalently coated with polyethyleneimine.
Journal of chromatography. B, Biomedical sciences and applications 1997;695(1):163-8.
1997: Ducret A; Bures E J; Aebersold R
High-sensitivity detection of 4-(3-pyridinylmethylaminocarboxypropyl) phenylthiohydantoins by capillary liquid chromatography-microelectrospray ion trap mass spectrometry.
Journal of protein chemistry 1997;16(5):323-8.
1997: Watts J D; Gu M; Polverino A J; Patterson S D; Aebersold R
Fas-induced apoptosis of T cells occurs independently of ceramide generation.
Proceedings of the National Academy of Sciences of the United States of America 1997;94(14):7292-6.
1997: van Oostveen I; Ducret A; Aebersold R
Colloidal silver staining of electroblotted proteins for high sensitivity peptide mapping by liquid chromatography-electrospray ionization tandem mass spectrometry.
Analytical biochemistry 1997;247(2):310-8.
1997: Palaty C K; Kalmar G; Tai G; Oh S; Amankawa L; Affolter M; Aebersold R; Pelech S L
Identification of the autophosphorylation sites of the Xenopus laevis Pim-1 proto-oncogene-encoded protein kinase.
The Journal of biological chemistry 1997;272(16):10514-21.
1997: Figeys D; Aebersold R
High sensitivity identification of proteins by electrospray ionization tandem mass spectrometry: initial comparison between an ion trap mass spectrometer and a triple quadrupole mass spectrometer.
Electrophoresis 1997;18(3-4):360-8.
1997: Figeys D; Ducret A; Aebersold R
Identification of proteins by capillary electrophoresis-tandem mass spectrometry. Evaluation of an on-line solid-phase extraction device.
Journal of chromatography. A 1997;763(1-2):295-306.
1997: Gu M; Kerwin J L; Watts J D; Aebersold R
Ceramide profiling of complex lipid mixtures by electrospray ionization mass spectrometry.
Analytical biochemistry 1997;244(2):347-56.
1996: Durnford D G; Aebersold R; Green B R
The fucoxanthin-chlorophyll proteins from a chromophyte alga are part of a large multigene family: structural and evolutionary relationships to other light harvesting antennae.
Molecular & general genetics : MGG 1996;253(3):377-86.
1996: La Roche J; van der Staay G W; Partensky F; Ducret A; Aebersold R; Li R; Golden S S; Hiller R G; Wrench P M; Larkum A W; Green B R
Independent evolution of the prochlorophyte and green plant chlorophyll a/b light-harvesting proteins.
Proceedings of the National Academy of Sciences of the United States of America 1996;93(26):15244-8.
1996: Watts J D; Brabb T; Bures E J; Wange R L; Samelson L E; Aebersold R
Identification and characterization of a substrate specific for the T cell protein tyrosine kinase ZAP-70.
FEBS letters 1996;398(2-3):217-22.
1996: Figeys D; Ducret A; Yates J R; Aebersold R
Protein identification by solid phase microextraction-capillary zone electrophoresis-microelectrospray-tandem mass spectrometry.
Nature biotechnology 1996;14(11):1579-83.
1996: Cheng H C; Bjorge J D; Aebersold R; Fujita D J; Wang J H
Purification of bovine thymus cytosolic C-terminal Src kinase (CSK) and demonstration of differential efficiencies of phosphorylation and inactivation of p56lyn and pp60c-src by CSK.
Biochemistry 1996;35(36):11874-87.
1996: Figeys D; van Oostveen I; Ducret A; Aebersold R
Protein identification by capillary zone electrophoresis/microelectrospray ionization-tandem mass spectrometry at the subfemtomole level.
Analytical chemistry 1996;68(11):1822-8.
1996: Isakov N; Wange R L; Watts J D; Aebersold R; Samelson L E
Purification and characterization of human ZAP-70 protein-tyrosine kinase from a baculovirus expression system.
The Journal of biological chemistry 1996;271(26):15753-61.
1996: Ducret A; Bruun C F; Bures E J; Marhaug G; Husby G; Aebersold R
Characterization of human serum amyloid A protein isoforms separated by two-dimensional electrophoresis by liquid chromatography/electrospray ionization tandem mass spectrometry.
Electrophoresis 1996;17(5):866-76.
1996: Whalen S G; Gingras A C; Amankwa L; Mader S; Branton P E; Aebersold R; Sonenberg N
Phosphorylation of eIF-4E on serine 209 by protein kinase C is inhibited by the translational repressors, 4E-binding proteins.
The Journal of biological chemistry 1996;271(20):11831-7.
1996: Tull D; Burgoyne D L; Chow D T; Withers S G; Aebersold R
A mass spectrometry-based approach for probing enzyme active sites: identification of Glu 127 in Cellulomonas fimi exoglycanase as the residue modified by N-bromoacetyl cellobiosylamine.
Analytical biochemistry 1996;234(2):119-25.
1996: Ng D H; Watts J D; Aebersold R; Johnson P
Demonstration of a direct interaction between p56lck and the cytoplasmic domain of CD45 in vitro.
The Journal of biological chemistry 1996;271(3):1295-300.
1995: Gebler J C; Trimbur D E; Warren A J; Aebersold R; Namchuk M; Withers S G
Substrate-induced inactivation of a crippled beta-glucosidase mutant: identification of the labeled amino acid and mutagenic analysis of its role.
Biochemistry 1995;34(44):14547-53.
1995: Dechert U; Affolter M; Harder K W; Matthews J; Owen P; Clark-Lewis I; Thomas M L; Aebersold R; Jirik F R
Comparison of the specificity of bacterially expressed cytoplasmic protein-tyrosine phosphatases SHP and SH-PTP2 towards synthetic phosphopeptide substrates.
European journal of biochemistry / FEBS 1995;231(3):673-81.
1995: Wange R L; Guitián R; Isakov N; Watts J D; Aebersold R; Samelson L E
Activating and inhibitory mutations in adjacent tyrosines in the kinase domain of ZAP-70.
The Journal of biological chemistry 1995;270(32):18730-3.
1995: Withers S G; Aebersold R
Approaches to labeling and identification of active site residues in glycosidases.
Protein science : a publication of the Protein Society 1995;4(3):361-72.
1995: Wange R L; Isakov N; Burke T R; Otaka A; Roller P P; Watts J D; Aebersold R; Samelson L E
F2(Pmp)2-TAM zeta 3, a novel competitive inhibitor of the binding of ZAP-70 to the T cell antigen receptor, blocks early T cell signaling.
The Journal of biological chemistry 1995;270(2):944-8.
1995: Tull D; Miao S; Withers S G; Aebersold R
Identification of derivatized peptides without radiolabels: tandem mass spectrometric localization of the tagged active-site nucleophiles of two cellulases and a beta-glucosidase.
Analytical biochemistry 1995;224(2):509-14.
1995: Hess D; Nika H; Chow D T; Bures E J; Morrison H D; Aebersold R
Liquid chromatography-electrospray ionization mass spectrometry of 4-(3-pyridinylmethylaminocarboxypropyl) phenylthiohydantoins.
Analytical biochemistry 1995;224(1):373-81.
1995: Bures E J; Nika H; Chow D T; Morrison H D; Hess D; Aebersold R
Synthesis of the protein-sequencing reagent 4-(3-pyridinylmethylaminocarboxypropyl) phenyl isothiocyanate and characterization of 4-(3-pyridinylmethylaminocarboxypropyl) phenylthiohydantoins.
Analytical biochemistry 1995;224(1):364-72.
1995: Amankwa L N; Harder K; Jirik F; Aebersold R
High-sensitivity determination of tyrosine-phosphorylated peptides by on-line enzyme reactor and electrospray ionization mass spectrometry.
Protein science : a publication of the Protein Society 1995;4(1):113-25.
1995: Isakov N; Wange R L; Burgess W H; Watts J D; Aebersold R; Samelson L E
ZAP-70 binding specificity to T cell receptor tyrosine-based activation motifs: the tandem SH2 domains of ZAP-70 bind distinct tyrosine-based activation motifs with varying affinity.
The Journal of experimental medicine 1995;181(1):375-80.
1994: Watts J D; Affolter M; Krebs D L; Wange R L; Samelson L E; Aebersold R
Identification by electrospray ionization mass spectrometry of the sites of tyrosine phosphorylation induced in activated Jurkat T cells on the protein tyrosine kinase ZAP-70.
The Journal of biological chemistry 1994;269(47):29520-9.
1994: Affolter M; Watts J D; Krebs D L; Aebersold R
Evaluation of two-dimensional phosphopeptide maps by electrospray ionization mass spectrometry of recovered peptides.
Analytical biochemistry 1994;223(1):74-81.
1994: Gold M R; Chiu R; Ingham R J; Saxton T M; van Oostveen I; Watts J D; Affolter M; Aebersold R
Activation and serine phosphorylation of the p56lck protein tyrosine kinase in response to antigen receptor cross-linking in B lymphocytes.
Journal of immunology (Baltimore, Md. : 1950) 1994;153(6):2369-80.
1994: Saxton T M; van Oostveen I; Bowtell D; Aebersold R; Gold M R
B cell antigen receptor cross-linking induces phosphorylation of the p21ras oncoprotein activators SHC and mSOS1 as well as assembly of complexes containing SHC, GRB-2, mSOS1, and a 145-kDa tyrosine-phosphorylated protein.
Journal of immunology (Baltimore, Md. : 1950) 1994;153(2):623-36.
1994: Miao S; Ziser L; Aebersold R; Withers S G
Identification of glutamic acid 78 as the active site nucleophile in Bacillus subtilis xylanase using electrospray tandem mass spectrometry.
Biochemistry 1994;33(23):7027-32.
1994: Winz R; Hess D; Aebersold R; Brownsey R W
Unique structural features and differential phosphorylation of the 280-kDa component (isozyme) of rat liver acetyl-CoA carboxylase.
The Journal of biological chemistry 1994;269(20):14438-45.
1994: Miao S; McCarter J D; Grace M E; Grabowski G A; Aebersold R; Withers S G
Identification of Glu340 as the active-site nucleophile in human glucocerebrosidase by use of electrospray tandem mass spectrometry.
The Journal of biological chemistry 1994;269(15):10975-8.
1994: Harder K W; Owen P; Wong L K; Aebersold R; Clark-Lewis I; Jirik F R
Characterization and kinetic analysis of the intracellular domain of human protein tyrosine phosphatase beta (HPTP beta) using synthetic phosphopeptides.
The Biochemical journal 1994;298 ( Pt 2)():395-401.
1994: Gold M R; Yungwirth T; Sutherland C L; Ingham R J; Vianzon D; Chiu R; van Oostveen I; Morrison H D; Aebersold R
Purification and identification of tyrosine-phosphorylated proteins from B lymphocytes stimulated through the antigen receptor.
Electrophoresis 1994;15(3-4):441-53.
1994: Gold M R; Duronio V; Saxena S P; Schrader J W; Aebersold R
Multiple cytokines activate phosphatidylinositol 3-kinase in hemopoietic cells. Association of the enzyme with various tyrosine-phosphorylated proteins.
The Journal of biological chemistry 1994;269(7):5403-12.
1994: Gold M R; Aebersold R
Both phosphatidylinositol 3-kinase and phosphatidylinositol 4-kinase products are increased by antigen receptor signaling in B cells.
Journal of immunology (Baltimore, Md. : 1950) 1994;152(1):42-50.
1993: Watts J D; Welham M J; Kalt L; Schrader J W; Aebersold R
IL-2 stimulation of T lymphocytes induces sequential activation of mitogen-activated protein kinases and phosphorylation of p56lck at serine-59.
Journal of immunology (Baltimore, Md. : 1950) 1993;151(12):6862-71.
1993: Watts J D; Sanghera J S; Pelech S L; Aebersold R
Phosphorylation of serine 59 of p56lck in activated T cells.
The Journal of biological chemistry 1993;268(31):23275-82.
1993: van Oers N S; Tao W; Watts J D; Johnson P; Aebersold R; Teh H S
Constitutive tyrosine phosphorylation of the T-cell receptor (TCR) zeta subunit: regulation of TCR-associated protein tyrosine kinase activity by TCR zeta.
Molecular and cellular biology 1993;13(9):5771-80.
1993: Hess D; Covey T C; Winz R; Brownsey R W; Aebersold R
Analytical and micropreparative peptide mapping by high performance liquid chromatography/electrospray mass spectrometry of proteins purified by gel electrophoresis.
Protein science : a publication of the Protein Society 1993;2(8):1342-51.
1993: Wang Q; Tull D; Meinke A; Gilkes N R; Warren R A; Aebersold R; Withers S G
Glu280 is the nucleophile in the active site of Clostridium thermocellum CelC, a family A endo-beta-1,4-glucanase.
The Journal of biological chemistry 1993;268(19):14096-102.
1992: Kim S; Sandusky P; Bowlby N R; Aebersold R; Green B R; Vlahakis S; Yocum C F; Pichersky E
Characterization of a spinach psbS cDNA encoding the 22 kDa protein of photosystem II.
FEBS letters 1992;314(1):67-71.
1992: Green B R; Shen D; Aebersold R; Pichersky E
Identification of the polypeptides of the major light-harvesting complex of photosystem II (LHCII) with their genes in tomato.
FEBS letters 1992;305(1):18-22.
1992: Gebler J C; Aebersold R; Withers S G
Glu-537, not Glu-461, is the nucleophile in the active site of (lac Z) beta-galactosidase from Escherichia coli.
The Journal of biological chemistry 1992;267(16):11126-30.
1992: Aebersold R; Bures E J; Namchuk M; Goghari M H; Shushan B; Covey T C
Design, synthesis, and characterization of a protein sequencing reagent yielding amino acid derivatives with enhanced detectability by mass spectrometry.
Protein science : a publication of the Protein Society 1992;1(4):494-503.
1992: Ettehadieh E; Sanghera J S; Pelech S L; Hess-Bienz D; Watts J; Shastri N; Aebersold R
Tyrosyl phosphorylation and activation of MAP kinases by p56lck.
Science (New York, N.Y.) 1992;255(5046):853-5.
1992: Watts J D; Wilson G M; Ettenhadieh E; Clark-Lewis I; Kubanek C A; Astell C R; Marth J D; Aebersold R
Purification and initial characterization of the lymphocyte-specific protein-tyrosyl kinase p56lck from a baculovirus expression system.
The Journal of biological chemistry 1992;267(2):901-7.
1991: Gilkes N R; Claeyssens M; Aebersold R; Henrissat B; Meinke A; Morrison H D; Kilburn D G; Warren R A; Miller R C
Structural and functional relationships in two families of beta-1,4-glycanases.
European journal of biochemistry / FEBS 1991;202(2):367-77.
1991: Aebersold R; Watts J D; Morrison H D; Bures E J
Determination of the site of tyrosine phosphorylation at the low picomole level by automated solid-phase sequence analysis.
Analytical biochemistry 1991;199(1):51-60.
1991: Schwartz E; Stasys R; Aebersold R; McGrath J M; Green B R; Pichersky E
Sequence of a tomato gene encoding a third type of LHCII chlorophyll a/b-binding polypeptide.
Plant molecular biology 1991;17(4):923-5.
1991: Babcook J; Watts J; Aebersold R; Ziltener H J
Automated nonisotopic assay for protein-tyrosine kinase and protein-tyrosine phosphatase activities.
Analytical biochemistry 1991;196(2):245-51.
1991: Tull D; Withers S G; Gilkes N R; Kilburn D G; Warren R A; Aebersold R
Glutamic acid 274 is the nucleophile in the active site of a "retaining" exoglucanase from Cellulomonas fimi.
The Journal of biological chemistry 1991;266(24):15621-5.
1991: Pichersky E; Subramaniam R; White M J; Reid J; Aebersold R; Green B R
Chlorophyll a/b binding (CAB) polypeptides of CP29, the internal chlorophyll a/b complex of PSII: characterization of the tomato gene encoding the 26 kDa (type I) polypeptide, and evidence for a second CP29 polypeptide.
Molecular & general genetics : MGG 1991;227(2):277-84.
1991: Schwartz E; Shen D; Aebersold R; McGrath J M; Pichersky E; Green B R
Nucleotide sequence and chromosomal location of Cab11 and Cab12, the genes for the fourth polypeptide of the photosystem I light-harvesting antenna (LHCI).
FEBS letters 1991;280(2):229-34.
1991: Clark-Lewis I; Moser B; Walz A; Baggiolini M; Scott G J; Aebersold R
Chemical synthesis, purification, and characterization of two inflammatory proteins, neutrophil activating peptide 1 (interleukin-8) and neutrophil activating peptide.
Biochemistry 1991;30(12):3128-35.
1990: Sanghera J S; Aebersold R; Morrison H D; Bures E J; Pelech S L
Identification of the sites in myelin basic protein that are phosphorylated by meiosis-activated protein kinase p44mpk.
FEBS letters 1990;273(1-2):223-6.
1990: Aebersold R; Morrison H D
Analysis of dilute peptide samples by capillary zone electrophoresis.
Journal of chromatography 1990;516(1):79-88.
1990: Kalmar G B; Kay R J; Lachance A; Aebersold R; Cornell R B
Cloning and expression of rat liver CTP: phosphocholine cytidylyltransferase: an amphipathic protein that controls phosphatidylcholine synthesis.
Proceedings of the National Academy of Sciences of the United States of America 1990;87(16):6029-33.
1990: Aebersold R; Leavitt J
Sequence analysis of proteins separated by polyacrylamide gel electrophoresis: towards an integrated protein database.
Electrophoresis 1990;11(7):517-27.

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