Genetics meets proteomics: perspectives for large population-based studies

K Suhre, MI McCarthy, JM Schwenk - Nature Reviews Genetics, 2021 - nature.com
Proteomic analysis of cells, tissues and body fluids has generated valuable insights into the
complex processes influencing human biology. Proteins represent intermediate phenotypes …

Revisiting biomarker discovery by plasma proteomics

PE Geyer, LM Holdt, D Teupser… - Molecular systems biology, 2017 - embopress.org
Clinical analysis of blood is the most widespread diagnostic procedure in medicine, and
blood biomarkers are used to categorize patients and to support treatment decisions …

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

B MacLean, DM Tomazela, N Shulman… - …, 2010 - academic.oup.com
Skyline is a Windows client application for targeted proteomics method creation and
quantitative data analysis. It is open source and freely available for academic and …

Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis

LC Gillet, P Navarro, S Tate, H Röst, N Selevsek… - Molecular & Cellular …, 2012 - ASBMB
Most proteomic studies use liquid chromatography coupled to tandem mass spectrometry to
identify and quantify the peptides generated by the proteolysis of a biological sample …

A critical review of bottom-up proteomics: the good, the bad, and the future of this field

EJ Dupree, M Jayathirtha, H Yorkey, M Mihasan… - Proteomes, 2020 - mdpi.com
Proteomics is the field of study that includes the analysis of proteins, from either a basic
science prospective or a clinical one. Proteins can be investigated for their abundance …

Aptamer-based multiplexed proteomic technology for biomarker discovery

L Gold, D Ayers, J Bertino, C Bock, A Bock, E Brody… - Nature …, 2010 - nature.com
Interrogation of the human proteome in a highly multiplexed and efficient manner remains a
coveted and challenging goal in biology. We present a new aptamer-based proteomic …

Selected reaction monitoring–based proteomics: workflows, potential, pitfalls and future directions

P Picotti, R Aebersold - Nature methods, 2012 - nature.com
Selected reaction monitoring (SRM) is a targeted mass spectrometry technique that is
emerging in the field of proteomics as a complement to untargeted shotgun methods. SRM is …

Parallel reaction monitoring for high resolution and high mass accuracy quantitative, targeted proteomics

AC Peterson, JD Russell, DJ Bailey… - Molecular & cellular …, 2012 - ASBMB
Selected reaction monitoring on a triple quadrupole mass spectrometer is currently
experiencing a renaissance within the proteomics community for its, as yet, unparalleled …

The matrisome: in silico definition and in vivo characterization by proteomics of normal and tumor extracellular matrices

A Naba, KR Clauser, S Hoersch, H Liu, SA Carr… - Molecular & Cellular …, 2012 - ASBMB
The extracellular matrix (ECM) is a complex meshwork of cross-linked proteins providing
both biophysical and biochemical cues that are important regulators of cell proliferation …

An interlaboratory evaluation of drift tube ion mobility–mass spectrometry collision cross section measurements

SM Stow, TJ Causon, X Zheng… - Analytical …, 2017 - ACS Publications
Collision cross section (CCS) measurements resulting from ion mobility–mass spectrometry
(IM-MS) experiments provide a promising orthogonal dimension of structural information in …