Proteogenomics: concepts, applications and computational strategies
AI Nesvizhskii - Nature methods, 2014 - nature.com
Proteogenomics is an area of research at the interface of proteomics and genomics. In this
approach, customized protein sequence databases generated using genomic and …
approach, customized protein sequence databases generated using genomic and …
Towards environmental systems biology of Shewanella
JK Fredrickson, MF Romine, AS Beliaev… - Nature Reviews …, 2008 - nature.com
Bacteria of the genus Shewanella are known for their versatile electron-accepting
capacities, which allow them to couple the decomposition of organic matter to the reduction …
capacities, which allow them to couple the decomposition of organic matter to the reduction …
A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome
International Wheat Genome Sequencing Consortium … - Science, 2014 - science.org
An ordered draft sequence of the 17-gigabase hexaploid bread wheat (Triticum aestivum)
genome has been produced by sequencing isolated chromosome arms. We have annotated …
genome has been produced by sequencing isolated chromosome arms. We have annotated …
Proteomics: a pragmatic perspective
The evolution of mass spectrometry–based proteomic technologies has advanced our
understanding of the complex and dynamic nature of proteomes while concurrently …
understanding of the complex and dynamic nature of proteomes while concurrently …
Spectral probabilities and generating functions of tandem mass spectra: a strike against decoy databases
A key problem in computational proteomics is distinguishing between correct and false
peptide identifications. We argue that evaluating the error rates of peptide identifications is …
peptide identifications. We argue that evaluating the error rates of peptide identifications is …
Comparative functional analysis of the Caenorhabditis elegans and Drosophila melanogaster proteomes
The nematode Caenorhabditis elegans is a popular model system in genetics, not least
because a majority of human disease genes are conserved in C. elegans. To generate a …
because a majority of human disease genes are conserved in C. elegans. To generate a …
False discovery rates of protein identifications: a strike against the two-peptide rule
Most proteomics studies attempt to maximize the number of peptide identifications and
subsequently infer proteins containing two or more peptides as reliable protein …
subsequently infer proteins containing two or more peptides as reliable protein …
[LLIBRE][B] DNA and RNA modification enzymes: structure, mechanism, function and evolution
H Grosjean - 2009 - taylorfrancis.com
This volume is a timely and comprehensive description of the many facets of DNA and RNA
modification-editing processes and to some extent repair mechanisms. Each chapter offers …
modification-editing processes and to some extent repair mechanisms. Each chapter offers …
[HTML][HTML] Bioinformatics analysis of mass spectrometry-based proteomics data sets
Proteomics has made tremendous progress, attaining throughput and comprehensiveness
so far only seen in genomics technologies. The consequent avalanche of proteome level …
so far only seen in genomics technologies. The consequent avalanche of proteome level …
Protein identification using top-down spectra
In the last two years, because of advances in protein separation and mass spectrometry, top-
down mass spectrometry moved from analyzing single proteins to analyzing complex …
down mass spectrometry moved from analyzing single proteins to analyzing complex …