Uncovering Hidden Layers of Cell Cycle Regulation through Integrative Multi-omic Analysis

Dynamic profiling of the protein life cycle in response to pathogens

(2015) M. Jovanovic et al.   SCIENCE

The utility of protein and mRNA correlation

(2015) Samuel H. Payne   TRENDS IN BIOCHEMICAL SCIENCES

Accounting for Experimental Noise Reveals That mRNA Levels, Amplified by Post-Transcriptional Processes, Largely Determine Steady-State Protein Levels in Yeast

(2015) Gábor Csárdi et al.   PLoS Genetics

A Dual Program for Translation Regulation in Cellular Proliferation and Differentiation

(2014) Hila Gingold et al.   CELL

PP2A delays APC/C-dependent degradation of separase-associated but not free securin

(2014) S. Hellmuth et al.   EMBO JOURNAL

Rapid Temporal Dynamics of Transcription, Protein Synthesis, and Secretion during Macrophage Activation

(2014) Katrin Eichelbaum et al.   MOLECULAR & CELLULAR PROTEOMICS

Accurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ

(2014) Jürgen Cox et al.   MOLECULAR & CELLULAR PROTEOMICS

Proteome labeling and protein identification in specific tissues and at specific developmental stages in an animal

(2014) Thomas S Elliott et al.   NATURE BIOTECHNOLOGY

A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium

(2014)   NATURE BIOTECHNOLOGY

ProteomeXchange provides globally coordinated proteomics data submission and dissemination

(2014) Juan A Vizcaíno et al.   NATURE BIOTECHNOLOGY

Nascent chromatin capture proteomics determines chromatin dynamics during DNA replication and identifies unknown fork components

(2014) Constance Alabert et al.   NATURE CELL BIOLOGY

Comparison of RNA-Seq and Microarray in Transcriptome Profiling of Activated T Cells

(2014) Shanrong Zhao et al.   PLoS One

Impact of regulatory variation from RNA to protein

(2014) A. Battle et al.   SCIENCE

System wide analyses have underestimated protein abundances and the importance of transcription in mammals

(2014) Jingyi Jessica Li et al.   PeerJ

Mutations in FAM111B Cause Hereditary Fibrosing Poikiloderma with Tendon Contracture, Myopathy, and Pulmonary Fibrosis

(2013) Sandra Mercier et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Profiling of Ubiquitin-like Modifications Reveals Features of Mitotic Control

(2013) Yifat Merbl et al.   CELL

Novel proteomic approach (PUNCH-P) reveals cell cycle-specific fluctuations in mRNA translation

(2013) R. Aviner et al.   GENES & DEVELOPMENT

The Translational Landscape of the Mammalian Cell Cycle

(2013) Craig R. Stumpf et al.   MOLECULAR CELL

Protein synthesis rate is the predominant regulator of protein expression during differentiation

(2013) A. R. Kristensen et al.   Molecular Systems Biology

Dynamics extracted from fixed cells reveal feedback linking cell growth to cell cycle

(2013) Ran Kafri et al.   NATURE

QuaNCAT: quantitating proteome dynamics in primary cells

(2013) Andrew J M Howden et al.   NATURE METHODS

The control of histone gene expression

(2012) Alexander M.J. Rattray et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

1D and 2D annotation enrichment: a statistical method integrating quantitative proteomics with complementary high-throughput data

(2012) Juergen Cox et al.   BMC BIOINFORMATICS

Ribosome Biogenesis and Control of Cell Proliferation: p53 Is Not Alone

(2012) G. Donati et al.   CANCER RESEARCH

Increased tRNA modification and gene-specific codon usage regulate cell cycle progression during the DNA damage response

(2012) Ashish Patil et al.   CELL CYCLE

Human rpL3 induces G₁/S arrest or apoptosis by modulating p21waf1/cip1levels in a p53-independent manner

(2012) Annapina Russo et al.   CELL CYCLE

The MuvB complex sequentially recruits B-Myb and FoxM1 to promote mitotic gene expression

(2012) S. Sadasivam et al.   GENES & DEVELOPMENT

Genes adopt non-optimal codon usage to generate cell cycle-dependent oscillations in protein levels

(2012) Milana Frenkel-Morgenstern et al.   Molecular Systems Biology

Mitotic Modulation of Translation Elongation Factor 1 Leads to Hindered tRNA Delivery to Ribosomes

(2011) Gilad Sivan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Systems-wide Proteomic Analysis in Mammalian Cells Reveals Conserved, Functional Protein Turnover

(2011) Sidney B. Cambridge et al.   JOURNAL OF PROTEOME RESEARCH

Andromeda: A Peptide Search Engine Integrated into the MaxQuant Environment

(2011) Jürgen Cox et al.   JOURNAL OF PROTEOME RESEARCH

Deep proteome and transcriptome mapping of a human cancer cell line

(2011) N. Nagaraj et al.   Molecular Systems Biology

Global quantification of mammalian gene expression control

(2011) Björn Schwanhäusser et al.   NATURE

Quantitative Phosphoproteomics Reveals Widespread Full Phosphorylation Site Occupancy During Mitosis

(2010) J. V. Olsen et al.   Science Signaling

Delayed Correlation of mRNA and Protein Expression in Rapamycin-treated Cells and a Role for Ggc1 in Cellular Sensitivity to Rapamycin

(2009) Marjorie L. Fournier et al.   MOLECULAR & CELLULAR PROTEOMICS

Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling

(2009) N. T. Ingolia et al.   SCIENCE

A Translational Profiling Approach for the Molecular Characterization of CNS Cell Types

(2008) Myriam Heiman et al.   CELL

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

(2008) Jürgen Cox et al.   NATURE BIOTECHNOLOGY

Global analysis of cellular protein translation by pulsed SILAC

(2008) Björn Schwanhäusser et al.   PROTEOMICS