The growing landscape of lysine acetylation links metabolism and cell signalling

C Choudhary, BT Weinert, Y Nishida, E Verdin… - … reviews Molecular cell …, 2014 - nature.com
Lysine acetylation is a conserved protein post-translational modification that links acetyl-
coenzyme A metabolism and cellular signalling. Recent advances in the identification and …

Weak functional constraints on phosphoproteomes

CR Landry, ED Levy, SW Michnick - Trends in genetics, 2009 - cell.com
Owing to their crucial roles in regulating protein function, phosphorylation sites
(phosphosites) are expected to be evolutionarily conserved. However, mixed results …

Phospho. ELM: a database of phosphorylation sites—update 2011

H Dinkel, C Chica, A Via, CM Gould… - Nucleic acids …, 2010 - academic.oup.com
The Phospho. ELM resource (http://phospho. elm. eu. org) is a relational database designed
to store in vivo and in vitro phosphorylation data extracted from the scientific literature and …

Phosphorylation in protein-protein binding: effect on stability and function

H Nishi, K Hashimoto, AR Panchenko - Structure, 2011 - cell.com
Posttranslational modifications offer a dynamic way to regulate protein activity, subcellular
localization, and stability. Here we estimate the effect of phosphorylation on protein binding …

Deciphering a global network of functionally associated post‐translational modifications

P Minguez, L Parca, F Diella, DR Mende… - Molecular systems …, 2012 - embopress.org
Various post‐translational modifications (PTMs) fine‐tune the functions of almost all
eukaryotic proteins, and co‐regulation of different types of PTMs has been shown within and …

Systematic analysis of protein phosphorylation networks from phosphoproteomic data

C Song, M Ye, Z Liu, H Cheng, X Jiang, G Han… - Molecular & Cellular …, 2012 - ASBMB
In eukaryotes, hundreds of protein kinases (PKs) specifically and precisely modify
thousands of substrates at specific amino acid residues to faithfully orchestrate numerous …

Meta-Analysis of Arabidopsis thaliana Phospho-Proteomics Data Reveals Compartmentalization of Phosphorylation Motifs

KJ van Wijk, G Friso, D Walther, WX Schulze - The Plant Cell, 2014 - academic.oup.com
Protein (de) phosphorylation plays an important role in plants. To provide a robust
foundation for subcellular phosphorylation signaling network analysis and kinase-substrate …

Comparative analysis of gene regulatory networks: from network reconstruction to evolution

D Thompson, A Regev, S Roy - Annual review of cell and …, 2015 - annualreviews.org
Regulation of gene expression is central to many biological processes. Although
reconstruction of regulatory circuits from genomic data alone is therefore desirable, this …

Perspectives for glyco-engineering of recombinant biopharmaceuticals from microalgae

L Barolo, RM Abbriano, AS Commault, J George… - Cells, 2020 - mdpi.com
Microalgae exhibit great potential for recombinant therapeutic protein production, due to
lower production costs, immunity to human pathogens, and advanced genetic toolkits …

Proteotype coevolution and quantitative diversity across 11 mammalian species

Q Ba, Y Hei, A Dighe, W Li, J Maziarz, I Pak… - Science …, 2022 - science.org
Evolutionary profiling has been largely limited to the nucleotide level. Using consistent
proteomic methods, we quantified proteomic and phosphoproteomic layers in fibroblasts …