System-Wide Analysis of Protein Acetylation and Ubiquitination Reveals a Diversified Regulation in Human Cancer Cells

DeepUbi: a deep learning framework for prediction of ubiquitination sites in proteins

(2019) Hongli Fu et al.   BMC BIOINFORMATICS

A deep learning method to more accurately recall known lysine acetylation sites

(2019) Meiqi Wu et al.   BMC BIOINFORMATICS

Quantitative phosphoproteomics-based molecular network description for high-resolution kinase-substrate interactome analysis

(2016) Yuta Narushima et al.   BIOINFORMATICS

PhosphoPath: Visualization of Phosphosite-centric Dynamics in Temporal Molecular Networks

(2015) Linsey M. Raaijmakers et al.   JOURNAL OF PROTEOME RESEARCH

Integrative Network Analysis Combined with Quantitative Phosphoproteomics Reveals Transforming Growth Factor-beta Receptor type-2 (TGFBR2) as a Novel Regulator of Glioblastoma Stem Cell Properties

(2015) Yuta Narushima et al.   MOLECULAR & CELLULAR PROTEOMICS

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations

(2014) Peter V. Hornbeck et al.   NUCLEIC ACIDS RESEARCH

Causal analysis approaches in Ingenuity Pathway Analysis

(2013) Andreas Krämer et al.   BIOINFORMATICS

Phosphoproteome of Human Glioblastoma Initiating Cells Reveals Novel Signaling Regulators Encoded by the Transcriptome

(2012) Hiroko Kozuka-Hata et al.   PLoS One

Proteomic Analysis of Lysine Acetylation Sites in Rat Tissues Reveals Organ Specificity and Subcellular Patterns

(2012) Alicia Lundby et al.   Cell Reports

A Proteome-wide, Quantitative Survey of In Vivo Ubiquitylation Sites Reveals Widespread Regulatory Roles

(2011) Sebastian A. Wagner et al.   MOLECULAR & CELLULAR PROTEOMICS

Global analysis of lysine ubiquitination by ubiquitin remnant immunoaffinity profiling

(2010) Guoqiang Xu et al.   NATURE BIOTECHNOLOGY

Lysine Acetylation Targets Protein Complexes and Co-Regulates Major Cellular Functions

(2009) C. Choudhary et al.   SCIENCE

Lysine Acetylation: Codified Crosstalk with Other Posttranslational Modifications

(2008) Xiang-Jiao Yang et al.   MOLECULAR CELL