Protein analysis by shotgun/bottom-up proteomics
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 …
gov/genomes/static/gpstat. html), as of February 16, 2012, complete gene sequences have …
Isobaric labeling-based relative quantification in shotgun proteomics
N Rauniyar, JR Yates III - Journal of proteome research, 2014 - ACS Publications
Mass spectrometry plays a key role in relative quantitative comparisons of proteins in order
to understand their functional role in biological systems upon perturbation. In this review, we …
to understand their functional role in biological systems upon perturbation. In this review, we …
TMTpro reagents: a set of isobaric labeling mass tags enables simultaneous proteome-wide measurements across 16 samples
J Li, JG Van Vranken, L Pontano Vaites… - Nature …, 2020 - nature.com
Isobaric labeling empowers proteome-wide expression measurements simultaneously
across multiple samples. Here an expanded set of 16 isobaric reagents based on an …
across multiple samples. Here an expanded set of 16 isobaric reagents based on an …
Reimagining high-throughput profiling of reactive cysteines for cell-based screening of large electrophile libraries
Current methods used for measuring amino acid side-chain reactivity lack the throughput
needed to screen large chemical libraries for interactions across the proteome. Here we …
needed to screen large chemical libraries for interactions across the proteome. Here we …
Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ
Protein quantification without isotopic labels has been a long-standing interest in the
proteomics field. However, accurate and robust proteome-wide quantification with label-free …
proteomics field. However, accurate and robust proteome-wide quantification with label-free …
Data-driven hypothesis weighting increases detection power in genome-scale multiple testing
Hypothesis weighting improves the power of large-scale multiple testing. We describe
independent hypothesis weighting (IHW), a method that assigns weights using covariates …
independent hypothesis weighting (IHW), a method that assigns weights using covariates …
Next-generation proteomics: towards an integrative view of proteome dynamics
Next-generation sequencing allows the analysis of genomes, including those representing
disease states. However, the causes of most disorders are multifactorial, and systems-level …
disease states. However, the causes of most disorders are multifactorial, and systems-level …
The one hour yeast proteome
We describe the comprehensive analysis of the yeast proteome in just over one hour of
optimized analysis. We achieve this expedited proteome characterization with improved …
optimized analysis. We achieve this expedited proteome characterization with improved …
Increasing the multiplexing capacity of TMTs using reporter ion isotopologues with isobaric masses
Quantitative mass spectrometry methods offer near-comprehensive proteome coverage;
however, these methods still suffer with regards to sample throughput. Multiplex quantitation …
however, these methods still suffer with regards to sample throughput. Multiplex quantitation …
Quantitative proteomic analysis of histone modifications
Several mechanisms have been proposed for histone marks to exert their functions,
including altering the physical properties of nucleosomes by neutralization of charge via …
including altering the physical properties of nucleosomes by neutralization of charge via …