Global analysis of protein structural changes in complex proteomes

MSstats: an R package for statistical analysis of quantitative mass spectrometry-based proteomic experiments

(2014) Meena Choi et al.   BIOINFORMATICS

Large-Scale Quantitative Assessment of Different In-Solution Protein Digestion Protocols Reveals Superior Cleavage Efficiency of Tandem Lys-C/Trypsin Proteolysis over Trypsin Digestion

(2012) Timo Glatter et al.   JOURNAL OF PROTEOME RESEARCH

Regulation of Yeast Pyruvate Kinase by Ultrasensitive Allostery Independent of Phosphorylation

(2012) Yi-Fan Xu et al.   MOLECULAR CELL

Regulation of yeast central metabolism by enzyme phosphorylation

(2012) Ana Paula Oliveira et al.   Molecular Systems Biology

Structure-based prediction of protein–protein interactions on a genome-wide scale

(2012) Qiangfeng Cliff Zhang et al.   NATURE

A cross-platform toolkit for mass spectrometry and proteomics

(2012) Matthew C Chambers et al.   NATURE BIOTECHNOLOGY

Structural Probing of a Protein Phosphatase 2A Network by Chemical Cross-Linking and Mass Spectrometry

(2012) F. Herzog et al.   SCIENCE

The role of protein conformational fluctuations in allostery, function, and evolution

(2011) James O. Wrabl et al.   BIOPHYSICAL CHEMISTRY

Classification and Annotation of the Relationship between Protein Structural Change and Ligand Binding

(2011) Takayuki Amemiya et al.   JOURNAL OF MOLECULAR BIOLOGY

Phosphoproteome Exploration Reveals a Reformatting of Cellular Processes in Response to Low Sterol Biosynthetic Capacity in Arabidopsis

(2011) Dimitri Heintz et al.   JOURNAL OF PROTEOME RESEARCH

Deep and Highly Sensitive Proteome Coverage by LC-MS/MS Without Prefractionation

(2011) Suman S. Thakur et al.   MOLECULAR & CELLULAR PROTEOMICS

Comprehensive quantitative analysis of central carbon and amino-acid metabolism in Saccharomyces cerevisiae under multiple conditions by targeted proteomics

(2011) R. Costenoble et al.   Molecular Systems Biology

Proteus in the World of Proteins: Conformational Changes in Protein Kinases

(2010) Matthias Rabiller et al.   ARCHIV DER PHARMAZIE

The C-Terminal Segment of Yeast BMH Proteins Exhibits Different Structure Compared to Other 14-3-3 Protein Isoforms

(2010) Dana Veisova et al.   BIOCHEMISTRY

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

(2010) Brendan MacLean et al.   BIOINFORMATICS

Accounting for conformational changes during protein–protein docking

(2010) Martin Zacharias   CURRENT OPINION IN STRUCTURAL BIOLOGY

A comparative phosphoproteomic analysis of a human tumor metastasis model using a label-free quantitative approach

(2010) Xiaolei Xie et al.   ELECTROPHORESIS

Tradeoff between enzyme and metabolite efficiency maintains metabolic homeostasis upon perturbations in enzyme capacity

(2010) Sarah-Maria Fendt et al.   Molecular Systems Biology

Isotopic labeling of terminal amines in complex samples identifies protein N-termini and protease cleavage products

(2010) Oded Kleifeld et al.   NATURE BIOTECHNOLOGY

ModBase, a database of annotated comparative protein structure models, and associated resources

(2010) U. Pieper et al.   NUCLEIC ACIDS RESEARCH

Protein-protein docking benchmark version 4.0

(2010) Howook Hwang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Targeted large-scale analysis of protein acetylation

(2010) Nikolai Mischerikow et al.   PROTEOMICS

Epigenetics in the Extreme: Prions and the Inheritance of Environmentally Acquired Traits

(2010) Randal Halfmann et al.   SCIENCE

Full Dynamic Range Proteome Analysis of S. cerevisiae by Targeted Proteomics

(2009) Paola Picotti et al.   CELL

Molecular Insights into the Interaction between α-Synuclein and Docosahexaenoic Acid

(2009) Giorgia De Franceschi et al.   JOURNAL OF MOLECULAR BIOLOGY

Protein structure determination in living cells by in-cell NMR spectroscopy

(2009) Daisuke Sakakibara et al.   NATURE

Widespread reorganization of metabolic enzymes into reversible assemblies upon nutrient starvation

(2009) R. Narayanaswamy et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Target identification using drug affinity responsive target stability (DARTS)

(2009) B. Lomenick et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Activity motifs reveal principles of timing in transcriptional control of the yeast metabolic network

(2008) Gal Chechik et al.   NATURE BIOTECHNOLOGY

The fold of  -synuclein fibrils

(2008) M. Vilar et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA