Protein analysis by shotgun/bottom-up proteomics

Y Zhang, BR Fonslow, B Shan, MC Baek… - Chemical …, 2013 - ACS Publications
According to Genome Sequencing Project statistics (http://www. ncbi. nlm. nih.
gov/genomes/static/gpstat. html), as of February 16, 2012, complete gene sequences have …

Applications of targeted proteomics in systems biology and translational medicine

HA Ebhardt, A Root, C Sander, R Aebersold - Proteomics, 2015 - Wiley Online Library
Biological systems are composed of numerous components of which proteins are of
particularly high functional significance. Network models are useful abstractions for studying …

RAD51AP1 regulates ALT-HDR through chromatin-directed homeostasis of TERRA

N Kaminski, AR Wondisford, Y Kwon, ML Lynskey… - Molecular cell, 2022 - cell.com
Alternative lengthening of telomeres (ALT) is a homology-directed repair (HDR) mechanism
of telomere elongation that controls proliferation in subsets of aggressive cancer. Recent …

The CRAPome: a contaminant repository for affinity purification–mass spectrometry data

D Mellacheruvu, Z Wright, AL Couzens, JP Lambert… - Nature …, 2013 - nature.com
Affinity purification coupled with mass spectrometry (AP-MS) is a widely used approach for
the identification of protein-protein interactions. However, for any given protein of interest …

A high-density map for navigating the human polycomb complexome

S Hauri, F Comoglio, M Seimiya, M Gerstung, T Glatter… - Cell reports, 2016 - cell.com
Polycomb group (PcG) proteins are major determinants of gene silencing and epigenetic
memory in higher eukaryotes. Here, we systematically mapped the human PcG complexome …

ANPELA: analysis and performance assessment of the label-free quantification workflow for metaproteomic studies

J Tang, J Fu, Y Wang, B Li, Y Li, Q Yang… - Briefings in …, 2020 - academic.oup.com
Label-free quantification (LFQ) with a specific and sequentially integrated workflow of
acquisition technique, quantification tool and processing method has emerged as the …

A metabolic function of FGFR3-TACC3 gene fusions in cancer

V Frattini, SM Pagnotta, Tala, JJ Fan, MV Russo… - Nature, 2018 - nature.com
Chromosomal translocations that generate in-frame oncogenic gene fusions are notable
examples of the success of targeted cancer therapies,,. We have previously described gene …

Physiological responses of a Southern Ocean diatom to complex future ocean conditions

PW Boyd, PW Dillingham, CM McGraw… - Nature Climate …, 2016 - nature.com
A changing climate is altering many ocean properties that consequently will modify marine
productivity. Previous phytoplankton manipulation studies have focused on individual or …

A MYC2/MYC3/MYC4-dependent transcription factor network regulates water spray-responsive gene expression and jasmonate levels

A Van Moerkercke, O Duncan… - Proceedings of the …, 2019 - National Acad Sciences
Mechanical stimuli, such as wind, rain, and touch affect plant development, growth, pest
resistance, and ultimately reproductive success. Using water spray to simulate rain, we …

The central role of EED in the orchestration of polycomb group complexes

Q Cao, X Wang, M Zhao, R Yang, R Malik… - Nature …, 2014 - nature.com
Polycomb repressive complexes 1 and 2 (PRC1 and 2) play a critical role in the epigenetic
regulation of transcription during cellular differentiation, stem cell pluripotency and …