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UnknownSMAP is a pipeline for sample matching in proteogenomics.
Not available
S-EPMC8825821 | biostudies-literature
ProteomicsIdentification of differentially expressed splice variants by the proteogenomic pipeline SPLICIFY
Proteogenomics, i.e. comprehensive integration of genomics and proteomics data, is a powerful approach identifying novel protein biomarkers. This is especially the case for proteins that differ structurally between disease and control conditions. As tumor development is associated with aberrant spli...
ORGANISM(S): Homo sapiens (Human) 
2017-07-28 | PXD006486 | Pride
Human Proteogenomics Splicing Crc Label-free Colorectal cancer 
ProteomicsAnalysis of Amino Acid Variants in Malignant Melanoma Cells Resistant to BRAF inhibition
Analysis of patient-specific nucleotide variants is a cornerstone of personalised medicine. Although only 2% of the genomic sequence is protein-coding, mutations occurring in these regions have the potential to influence protein structure and may have severe impact on disease aetiology. Of special i...
ORGANISM(S): Homo sapiens (Human) 
2021-11-04 | PXD018305 | Pride
Nucleotide sequencing Melanoma Mass spectrometry Proteogenomics Cancer Brafi resistance Phosphorylation 
ProteomicsIntegrative proteogenomics using ProteomeGenerator2
Recent advances in nucleic acid sequencing now permit rapid and genome-scale analysis of genetic variation and transcription, enabling population-scale studies of human biology, disease, and diverse organisms. Likewise, advances in mass spectrometry proteomics now permit highly sensitive and accurat...
ORGANISM(S): Homo sapiens (Human) 
2024-05-22 | PXD037061 | Pride
Proteogenomics Genomics Transcriptomics Comprehensive proteomics 
ProteomicsThe EN-TEx Resource for Personal Functional Genomics
An overall goal of functional genomics has been to measure the impact of variants on molecular endophenotypes (e.g. gene expression levels or the degree of TF binding) and relate this to organismal traits and disease phenotypes. However, all the experiments to date have been described relative to a ...
ORGANISM(S): Homo sapiens (Human) 
2024-05-22 | PXD022787 | Pride
Personal genomics Tmt Human Proteogenomics Tissue En-tex 
UnknownIdentification of Differentially Expressed Splice Variants by the Proteogenomic Pipeline Splicify.
Not available
S-EPMC5629268 | biostudies-literature
GenomicsQuantitative Exploratory Proteomics Analysis of Glioblastoma in Initial and Recurrent Tumors
Shotgun Proteomics; Glioblastoma samples from 11 patients were obtained at initial and recurrent tumor stages. Proteins were extracted, identified and quantified via tandem mass spectrometry based on a TMT isobaric labelling approach. Quatitative proteomics reveals 146 differentially abundant protei...
EGAD00010002350 | EGA
GenomicsQuantitative Exploratory Proteomics Analysis of Glioblastoma in Initial and Recurrent Tumors
Glioblastoma samples from 11 patients were obtained at initial and recurrent tumor stages. Proteins were extracted, identified and quantified via tandem mass spectrometry based on a TMT isobaric labelling approach. Quatitative proteomics reveals 146 differentially abundant proteins using a patient-m...
EGAS00001006395 | EGA
TranscriptomicsIdentification of Differentially Expressed Splice Variants by the Proteogenomic Pipeline Splicify
Proteogenomics, i.e. comprehensive integration of genomics and proteomics data, is a powerful approach identifying novel protein biomarkers. This is especially the case for proteins that differ structurally between disease and control conditions. As tumor development is associated with aberrant spli...
ORGANISM(S): Homo sapiens 
2017-12-16 | GSE108140 | GEO
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 
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