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TranscriptomicsDeciphering the ghost proteome in ovarian cancer cells by deep proteogenomic characterization
Proteogenomics is becoming a powerful tool in personalized medicine by linking genomics, transcriptomics and mass spectrometry (MS)-based proteomics. Due to increasing evidence of alternative open reading frame-encoded proteins (AltProts), proteogenomics has a high potential to unravel the character...
ORGANISM(S): Homo sapiens 
2023-11-17 | GSE248039 | GEO
UnknownDeciphering the ghost proteome in ovarian cancer cells by deep proteogenomic characterization.
Not available
S-EPMC11442847 | biostudies-literature
ProteomicsDeciphering the ghost proteome in ovarian cancer cells by deep proteogenomic characterization.
Proteogenomics is becoming a powerful tool in personalized medicine by linking genomics, transcriptomics, and mass spectrometry (MS)-based proteomics. Due to increasing evidence of alternative open reading frame-encoded proteins (AltProts), proteogenomics has high potential to unravel the characteri...
ORGANISM(S): Homo sapiens (Human) 
2025-05-06 | PXD045689 | Pride
Alternative proteins Proteogenomics Ovarian cancer Crosslinking 
UnknownUnveiling a Ghost Proteome in the Glioblastoma Non-Coding RNAs.
Not available
S-EPMC8733697 | biostudies-literature
ProteomicsDIA-enabled discovery of alternative proteins (AltProts) in mouse heart development
In this project, we conducted an evaluation of mass spectrometry methods using mouse heart and HCT116 cell samples. The results demonstrated that the data-independent acquisition (DIA) approach outperformed data-dependent acquisition (DDA) in the identification of Altprot and canonical proteins. Sub...
ORGANISM(S): Mus musculus (Mouse) 
2025-01-17 | PXD045956 | Pride
Altorfs  mouse heart development  mass spectroemtry 
GenomicsDeciphering the ghost proteome in ovarian cancer cells by deep proteogenomic characterization
Deciphering the ghost proteome in ovarian cancer cells by deep proteogenomic characterization
PRJNA1041444 | ENA
UnknownAn Optimized Proteomics Approach Reveals Novel Alternative Proteins in Mouse Liver Development.
Not available
S-EPMC9823216 | biostudies-literature
ProteomicsAstrocytes express aberrant immunoglobulins as putative gatekeeper of astrocytes to neuronal progenitor conversion
Using multi-omics analyses including RNAseq, RT-PCR, RACE-PCR, and shotgun proteomic with enrichment strategies, we demonstrated that newborn rat astrocytes produce neural immunoglobulin constant and variable heavy chains as well as light chains. However, their edification is different from the ones...
ORGANISM(S): Rattus norvegicus (Rat) 
2023-05-10 | PXD040562 | Pride
Immunoglobulins Astrocytes 
ProteomicsHeimdall, an alternative protein issued from a ncRNA related to kappa light chain variable region of immunoglobulins from astrocytes : a new player in neural proteome
The dogma “One gene, one protein” is clearly obsolete since cells use alternative splicing and generate multiple transcripts which are translated into protein isoforms, but also use alternative translation initiation sites (TISs) and termination sites on a given transcripts. Alternative open reading...
ORGANISM(S): Rattus norvegicus (Rat) 
2023-10-24 | PXD042754 | Pride
Immunoglobulin Astrocyte Heimdall Altprot 
ProteomicsProteogenomic analysis of Human acute myeloid leukemia
Here, we used OpenCustomDB, a web-based tool that uses both sample-specific RNAseq data to identify genomic variants and the OpenProt resource that annotates alternative proteins in addition to canonical proteins. We tested OpenCustomDB with a cohort of 17 patients with acute myeloid leukemia and de...
ORGANISM(S): Homo sapiens (Human) 
2023-05-10 | PXD029240 | Pride
Proteogenomics Human Altprot Aml 
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