Results 21 to 30 of about 10,190 (249)
N-terminal proteomics assisted profiling of the unexplored translation initiation landscape in Arabidopsis thaliana [PDF]
, 2017 Proteogenomics is an emerging research field yet lacking a uniform method of analysis. Proteogenomic studies in which N-terminal proteomics and ribosome profiling are combined, suggest that a high number of protein start sites are currently missing in ...
Gevaert, Kris +8 more
core +1 more source
Peppy: Proteogenomic Search Software [PDF]
Journal of Proteome Research, 2013 Proteogenomic searching is a useful method for identifying novel proteins, annotating genes and detecting peptides unique to an individual genome. The approach, however, can be laborious, as it often requires search segmentation and the use of several unintegrated tools.
Brian A, Risk +2 more
openaire +2 more sources
Spritz: A Proteogenomic Database Engine [PDF]
Journal of Proteome Research, 2020 AbstractProteoforms are the workhorses of the cell, and subtle differences between their amino acid sequence or post-translational modifications (PTMs) can change their biological function. To most effectively identify and quantify proteoforms in genetically diverse samples by mass spectrometry (MS), it is advantageous to search the MS data against a ...
Anthony J. Cesnik +7 more
openaire +2 more sources
A large-scale proteogenomics study of apicomplexan pathogens-Toxoplasma gondii and Neospora caninum [PDF]
, 2015 Proteomics data can supplement genome annotation efforts, for example being used to confirm gene models or correct gene annotation errors. Here, we present a large‐scale proteogenomics study of two important apicomplexan pathogens: Toxoplasma gondii and ...
Bernal, A +11 more
core +2 more sources
Proteogenomics: Opportunities and Caveats [PDF]
Clinical Chemistry, 2016 Proteogenomics is a rapidly evolving field at the intersection of genomics, transcriptomics, and proteomics. Whole genome, exome, and RNA sequencing are well-established techniques that can provide information at the DNA and RNA level with excellent sequencing coverage and depth.
Lampros, Dimitrakopoulos +6 more
openaire +2 more sources
SpectroGene: A Tool for Proteogenomic Annotations Using Top-Down Spectra [PDF]
, 2015 In the past decade, proteogenomics has emerged as a valuable technique that contributes to the state-of-the-art in genome annotation; however, previous proteogenomic studies were limited to bottom-up mass spectrometry and did not take advantage of top ...
Kolmogorov, Mikhail +2 more
core +1 more source
Nature Communications, 2023 Diffuse gliomas are devastating brain tumors. Here, we perform a proteogenomic profiling of 213 retrospectively collected glioma tumors. Proteogenomic analysis reveals the downstream biological events leading by EGFR- , IDH1- , TP53-mutations .
Yunzhi Wang +20 more
semanticscholar +1 more source
The bacterial proteogenomic pipeline [PDF]
BMC Genomics, 2014 Proteogenomics combines the cutting-edge methods from genomics and proteomics. While it has become cheap to sequence whole genomes, the correct annotation of protein coding regions in the genome is still tedious and error prone. Mass spectrometry on the other hand relies on good characterizations of proteins derived from the genome, but can also be ...
Julian Uszkoreit +4 more
openaire +2 more sources
microLife, 2023 The soil-dwelling plant symbiont Sinorhizobium meliloti is a major model organism of Alphaproteobacteria. Despite numerous detailed OMICS studies, information about small open reading frame (sORF)-encoded proteins (SEPs) is largely missing, because sORFs
Lydia Hadjeras +11 more
semanticscholar +1 more source
A golden age for working with public proteomics data [PDF]
, 2017 Data sharing in mass spectrometry (MS)-based proteomics is becoming a common scientific practice, as is now common in the case of other, more mature 'omics' disciplines like genomics and transcriptomics.
Martens, Lennart +1 more
core +1 more source