Genome, transcriptome and proteome: the rise of omics data and their integration in biomedical sciences
C Manzoni, DA Kia, J Vandrovcova… - Briefings in …, 2018 - academic.oup.com
Advances in the technologies and informatics used to generate and process large biological
data sets (omics data) are promoting a critical shift in the study of biomedical sciences. While …
data sets (omics data) are promoting a critical shift in the study of biomedical sciences. While …
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 …
Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry
Quantitative proteomics employing mass spectrometry is an indispensable tool in life
science research. Targeted proteomics has emerged as a powerful approach for …
science research. Targeted proteomics has emerged as a powerful approach for …
PEAKS DB: de novo sequencing assisted database search for sensitive and accurate peptide identification
Many software tools have been developed for the automated identification of peptides from
tandem mass spectra. The accuracy and sensitivity of the identification software via …
tandem mass spectra. The accuracy and sensitivity of the identification software via …
Mass spectrometry applied to bottom-up proteomics: entering the high-throughput era for hypothesis testing
LC Gillet, A Leitner, R Aebersold - Annual review of analytical …, 2016 - annualreviews.org
Proteins constitute a key class of molecular components that perform essential biochemical
reactions in living cells. Whether the aim is to extensively characterize a given protein or to …
reactions in living cells. Whether the aim is to extensively characterize a given protein or to …
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 …
coveted and challenging goal in biology. We present a new aptamer-based proteomic …
A repository of assays to quantify 10,000 human proteins by SWATH-MS
Mass spectrometry is the method of choice for deep and reliable exploration of the (human)
proteome. Targeted mass spectrometry reliably detects and quantifies pre-determined sets …
proteome. Targeted mass spectrometry reliably detects and quantifies pre-determined sets …
Measurements of heterogeneity in proteomics analysis of the nanoparticle protein corona across core facilities
Robust characterization of the protein corona—the layer of proteins that spontaneously
forms on the surface of nanoparticles immersed in biological fluids—is vital for prediction of …
forms on the surface of nanoparticles immersed in biological fluids—is vital for prediction of …
A multicenter study benchmarks software tools for label-free proteome quantification
Consistent and accurate quantification of proteins by mass spectrometry (MS)-based
proteomics depends on the performance of instruments, acquisition methods and data …
proteomics depends on the performance of instruments, acquisition methods and data …
Scaffold: a bioinformatic tool for validating MS/MS‐based proteomic studies
BC Searle - Proteomics, 2010 - Wiley Online Library
Over‐reporting of unreliable protein identifications has reduced the accuracy and
reproducibility of MS/MS‐based proteomic studies. In this work, we demonstrate the analysis …
reproducibility of MS/MS‐based proteomic studies. In this work, we demonstrate the analysis …