The size of the human proteome: the width and depth

EA Ponomarenko, EV Poverennaya… - … journal of analytical …, 2016 - Wiley Online Library
This work discusses bioinformatics and experimental approaches to explore the human
proteome, a constellation of proteins expressed in different tissues and organs. As the …

Application of targeted mass spectrometry in bottom-up proteomics for systems biology research

NP Manes, A Nita-Lazar - Journal of proteomics, 2018 - Elsevier
The enormous diversity of proteoforms produces tremendous complexity within cellular
proteomes, facilitates intricate networks of molecular interactions, and constitutes a …

PPLine: an automated pipeline for SNP, SAP, and splice variant detection in the context of proteogenomics

GS Krasnov, AA Dmitriev… - Journal of proteome …, 2015 - ACS Publications
The fundamental mission of the Chromosome-Centric Human Proteome Project (C-HPP) is
the research of human proteome diversity, including rare variants. Liver tissues, HepG2 …

Proteins and proteoforms: new separation challenges

FE Regnier, JH Kim - Analytical chemistry, 2017 - pmc.ncbi.nlm.nih.gov
The ancient Greeks attributed life to Mother Nature, complaining that she was fond of hiding
the workings of her creations. Although we no longer attribute the mysteries of life to Mother …

RNA-Seq gene expression profiling of HepG2 cells: the influence of experimental factors and comparison with liver tissue

AV Tyakht, EN Ilina, DG Alexeev, DS Ischenko… - BMC genomics, 2014 - Springer
Abstract Background Human hepatoma HepG2 cells are used as an in vitro model of the
human liver. High-throughput transcriptomic sequencing is an advanced approach for …

Spaceflight effects on cytochrome P450 content in mouse liver

N Moskaleva, A Moysa, S Novikova, O Tikhonova… - PLoS …, 2015 - journals.plos.org
Hard conditions of long-term manned spaceflight can affect functions of many biological
systems including a system of drug metabolism. The cytochrome P450 (CYP) superfamily …

Targeted quantitative screening of chromosome 18 encoded proteome in plasma samples of astronaut candidates

AT Kopylov, EV Ilgisonis, AA Moysa… - Journal of Proteome …, 2016 - ACS Publications
This work was aimed at estimating the concentrations of proteins encoded by human
chromosome 18 (Chr 18) in plasma samples of 54 healthy male volunteers (aged 20–47) …

200+ protein concentrations in healthy human blood plasma: Targeted quantitative SRM SIS screening of chromosomes 18, 13, Y, and the mitochondrial chromosome …

AT Kopylov, EA Ponomarenko… - Journal of proteome …, 2018 - ACS Publications
This work continues the series of the quantitative measurements of the proteins encoded by
different chromosomes in the blood plasma of a healthy person. Selected Reaction …

Applications of multiple reaction monitoring targeted proteomics assays in human plasma

G Kontostathi, M Makridakis, J Zoidakis… - Expert Review of …, 2019 - Taylor & Francis
Introduction: Multiple (or selected) reaction monitoring-mass spectrometry (MRM/SRM) is a
targeted proteomic method that can be used for relative and absolute quantification. Multiple …

Why are the correlations between mRNA and protein levels so low among the 275 predicted protein-coding genes on human chromosome 18?

EV Poverennaya, EV Ilgisonis… - Journal of Proteome …, 2017 - ACS Publications
In this work targeted (selected reaction monitoring, SRM, PASSEL: PASS00697) and
panoramic (shotgun LC–MS/MS, PRIDE: PXD00244) mass-spectrometric methods as well …