Converting nanotoxicity data to information using artificial intelligence and simulation

X Yan, T Yue, DA Winkler, Y Yin, H Zhu… - Chemical …, 2023 - ACS Publications
Decades of nanotoxicology research have generated extensive and diverse data sets.
However, data is not equal to information. The question is how to extract critical information …

Top down proteomics: facts and perspectives

AD Catherman, OS Skinner, NL Kelleher - Biochemical and biophysical …, 2014 - Elsevier
The rise of the “Top Down” method in the field of mass spectrometry-based proteomics has
ushered in a new age of promise and challenge for the characterization and identification of …

[HTML][HTML] Correlation of mRNA and protein in complex biological samples

T Maier, M Güell, L Serrano - FEBS letters, 2009 - Elsevier
The correlation between mRNA and protein abundances in the cell has been reported to be
notoriously poor. Recent technological advances in the quantitative analysis of mRNA and …

Mass spectrometry-based proteomics

R Aebersold, M Mann - Nature, 2003 - nature.com
Recent successes illustrate the role of mass spectrometry-based proteomics as an
indispensable tool for molecular and cellular biology and for the emerging field of systems …

Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS

A Thompson, J Schäfer, K Kuhn, S Kienle… - Analytical …, 2003 - ACS Publications
A novel MS/MS-based analysis strategy using isotopomer labels, referred to as “tandem
mass tags”(TMTs), for the accurate quantification of peptides and proteins is described. The …

Analytical and biochemical perspectives of protein O-GlcNAcylation

J Ma, C Wu, GW Hart - Chemical Reviews, 2021 - ACS Publications
Protein O-linked β-N-acetylglucosamine (O-GlcNAc) modification (O-GlcNAcylation) is a
unique monosaccharide modification discovered in the early 1980s. With the technological …

Large-scale analysis of the yeast proteome by multidimensional protein identification technology

MP Washburn, D Wolters, JR Yates - Nature biotechnology, 2001 - nature.com
We describe a largely unbiased method for rapid and large-scale proteome analysis by
multidimensional liquid chromatography, tandem mass spectrometry, and database …

Comparing protein abundance and mRNA expression levels on a genomic scale

D Greenbaum, C Colangelo, K Williams, M Gerstein - Genome biology, 2003 - Springer
Attempts to correlate protein abundance with mRNA expression levels have had variable
success. We review the results of these comparisons, focusing on yeast. In the process, we …

Map** intact protein isoforms in discovery mode using top-down proteomics

JC Tran, L Zamdborg, DR Ahlf, JE Lee, AD Catherman… - Nature, 2011 - nature.com
A full description of the human proteome relies on the challenging task of detecting mature
and changing forms of protein molecules in the body. Large-scale proteome analysis has …

Transport phenomena in nanofluidics

RB Schoch, J Han, P Renaud - Reviews of modern physics, 2008 - APS
The transport of fluid in and around nanometer-sized objects with at least one characteristic
dimension below 100 nm enables the occurrence of phenomena that are impossible at …