Extracellular matrix-based biomaterial scaffolds and the host response

JM Aamodt, DW Grainger - Biomaterials, 2016 - Elsevier
Extracellular matrix (ECM) collectively represents a class of naturally derived proteinaceous
biomaterials purified from harvested organs and tissues with increasing scientific focus and …

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 …

Insights into the regulation of protein abundance from proteomic and transcriptomic analyses

C Vogel, EM Marcotte - Nature reviews genetics, 2012 - nature.com
Recent advances in next-generation DNA sequencing and proteomics provide an
unprecedented ability to survey mRNA and protein abundances. Such proteome-wide …

Quantitative proteomics: challenges and opportunities in basic and applied research

OT Schubert, HL Röst, BC Collins, G Rosenberger… - Nature protocols, 2017 - nature.com
In this Perspective, we discuss developments in mass-spectrometry-based proteomic
technology over the past decade from the viewpoint of our laboratory. We also reflect on …

Quantitative mass spectrometry in proteomics: critical review update from 2007 to the present

M Bantscheff, S Lemeer, MM Savitski… - Analytical and bioanalytical …, 2012 - Springer
Mass-spectrometry-based proteomics is continuing to make major contributions to the
discovery of fundamental biological processes and, more recently, has also developed into …

Parallel reaction monitoring: a targeted experiment performed using high resolution and high mass accuracy mass spectrometry

N Rauniyar - International journal of molecular sciences, 2015 - mdpi.com
The parallel reaction monitoring (PRM) assay has emerged as an alternative method of
targeted quantification. The PRM assay is performed in a high resolution and high mass …

[HTML][HTML] Automated mass spectrometry imaging of over 2000 proteins from tissue sections at 100-μm spatial resolution

PD Piehowski, Y Zhu, LM Bramer, KG Stratton… - Nature …, 2020 - nature.com
Biological tissues exhibit complex spatial heterogeneity that directs the functions of
multicellular organisms. Quantifying protein expression is essential for elucidating …

[HTML][HTML] Human SRMAtlas: a resource of targeted assays to quantify the complete human proteome

U Kusebauch, DS Campbell, EW Deutsch, CS Chu… - Cell, 2016 - cell.com
The ability to reliably and reproducibly measure any protein of the human proteome in any
tissue or cell type would be transformative for understanding systems-level properties as …

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

J Cox, M Mann - Nature biotechnology, 2008 - nature.com
Efficient analysis of very large amounts of raw data for peptide identification and protein
quantification is a principal challenge in mass spectrometry (MS)-based proteomics. Here …

[HTML][HTML] Definitions of terms relating to mass spectrometry (IUPAC Recommendations 2013)

KK Murray, RK Boyd, MN Eberlin… - Pure and Applied …, 2013 - degruyter.com
This document contains recommendations for terminology in mass spectrometry.
Development of standard terms dates back to 1974 when the IUPAC Commission on …