Publications by authors named "Noe Guilloy"
Article Synopsis
- Proteogenomics integrates genomics and mass spectrometry to uncover both standard and alternative proteins, enhancing personalized medicine for conditions like ovarian cancer.
- Through RNA-sequencing and protein database generation, researchers identified 128 reference proteins and 30 alternative proteins unique to ovarian cancer cell lines, uncovering a specific mutation in an alternative protein.
- Advanced techniques like cross-linking mass spectrometry revealed interactions between alternative and reference proteins, suggesting that some alternative proteins may play crucial roles in important cellular processes such as DNA replication and repair.
Proteomic diversity in biological samples can be characterized by mass spectrometry (MS)-based proteomics using customized protein databases generated from sets of transcripts previously detected by RNA-seq. This diversity has only been increased by the recent discovery that many translated alternative open reading frames rest unannotated at unsuspected locations of mRNAs and ncRNAs. These novel protein products, termed alternative proteins, have been left out of all previous custom database generation tools.
View Article and Find Full Text PDFAlternative splicing (AS) constitutes a mechanism by which protein-coding genes and long non-coding RNA (lncRNA) genes produce more than a single mature transcript. From plants to humans, AS is a powerful process that increases transcriptome complexity. Importantly, splice variants produced from AS can potentially encode for distinct protein isoforms which can lose or gain specific domains and, hence, differ in their functional properties.
View Article and Find Full Text PDFDuring aging, changes in gene expression are associated with a decline in physical and cognitive abilities. Here, we investigate the connection between changes in mRNA and protein expression in the brain by comparing the transcriptome and proteome of the mouse cortex during aging. Our transcriptomic analysis revealed that aging mainly triggers gene activation in the cortex.
View Article and Find Full Text PDFArticle Synopsis
- OpenProt is the first proteogenomic resource designed for eukaryotic genomes, enhancing the annotation of open reading frames (ORFs) using advanced algorithms and experimental data.
- Major updates include supporting recent NCBI RefSeq and Ensembl annotations, reporting non-AUG initiation starts with confidence scores, and providing detailed detectability statistics and protein relationships to aid users.
- The platform now allows users to submit their datasets for analysis, with all data being freely accessible, promoting deeper ORF annotation and supporting functional proteomic research.