Sort   by:  
 Page size 
ProteomicsCombining de novo peptide sequencing algorithms, a synergistic approach to boost both identifications and confidence in bottom-up proteomics
Complex MS-based proteomics datasets are usually analyzed by protein database-searches. While this approach performs considerably well for sequenced organisms, direct inference of peptide sequences from tandem mass spectra, i.e. de novo peptide sequencing, oftentimes is the only way to obtain inform...
ORGANISM(S): Radix auricularia Homo sapiens (Human) Mus musculus (Mouse) Saccharomyces cerevisiae (Baker's yeast) 
2019-09-25 | PXD005280 | Pride
False discovery rate Bottom-up proteomics De novo peptide sequencing Lc-ms/ms 
ProteomicsProteogenomics of colorectal cancer liver metastases
Colorectal cancer (CRC) is the third most common and second most deadly cancer worldwide. Treatments for metastatic CRC (mCRC) are still largely based on toxic chemotherapy regimens, but important insights into tumor biology enabled the development of targeted cancer therapies. Here, we describe a p...
ORGANISM(S): Homo sapiens (Human) 
2019-12-04 | PXD014222 | Pride
Human Lc-msms Prm Colorectal cancer Proteogenomics 
ProteomicsCombination of proteogenomics with peptide de novo sequencing identifies new genes and hidden posttranscriptional modifications
Proteogenomics, the combination of proteomics, genomics and transcriptomics, has considerably improved genome annotation in under-studied phylogenetic groups, where homology information is missing. Yet, it can also be advantageous when re-investigating well-annotated genomes. Here, we apply an advan...
ORGANISM(S): Sordaria macrospora 
2019-09-25 | PXD014240 | Pride
Lc-msms De novo peptide sequencing Rna editing Sordaria macrospora Proteogenomics 
ProteomicsDual-compartment shotgun proteomics unravel thermal stress responses in reef-calcifiers and their photosymbionts
The proliferation of coral reef organisms, such as the key ecological engineers and carbonate producers’ large benthic foraminifera (LBF), greatly relies on the mutual association with photosymbiotic algae. With respect to global change impacts such as ocean warming, evaluating stress and acclimatiz...
ORGANISM(S): Amphistegina Bacillariophyta 
2018-02-27 | PXD008015 | Pride
Large benthic foraminifera Thermal stress Label-free quantitation Lc-msms 
ProteomicsThe STRIPAK signaling complex regulates dephosphorylation of GUL1, an RNA-binding protein that shuttles on endosomes
STRIPAK is a highly conserved eukaryotic signalling complex controlling a wide range of developmental processes in microorganisms as well as humans. This study uses iTRAQ-based proteomic and phosphoproteomic analyses to expand the identification of differentially phosphorylated proteins, comparing t...
ORGANISM(S): Sordaria macrospora k-hell 
2020-09-24 | PXD021646 | Pride
Lc-msms Phosphoproteomics Sordaria macrospora Itraq 
ProteomicsEstablishment of TurboID proximity proteomics in the filamentous fungus Sordaria macrospora
Biotin identification (BioID) is a proximity-dependent labeling technique to study protein-protein co-localization in vivo. Although BioID has been applied in animal cells, plants and yeast, the method remained to be established in filamentous fungi. In this study, we established BioID for the filam...
ORGANISM(S): Sordaria macrospora 
2022-10-25 | PXD034217 | Pride
Sordaria macrospora Turboid Stripak Proximity labeling Bioid 
UnknownCombination of Proteogenomics with Peptide De Novo Sequencing Identifies New Genes and Hidden Posttranscriptional Modifications.
Not available
S-EPMC6794485 | biostudies-literature
UnknownShort Peptides with Uncleavable Peptide Bond Mimetics as Photoactivatable Caspase-3 Inhibitors.
Not available
S-EPMC6337261 | biostudies-literature
UnknownDisentangling thermal stress responses in a reef-calcifier and its photosymbionts by shotgun proteomics.
Not available
S-EPMC5824892 | biostudies-literature
UnknownHomeostatic Counter-Regulation Mediates Spermidine-Induced Triacylglyceride Reduction in Drosophila melanogaster-From Phenotype to Molecular Mechanism.
Not available
S-EPMC12539389 | biostudies-literature
Sort   by:  
 Page size