Proteomics

Dataset Information

0

Comparative analysis of mRNA degradation and protein degradation in 68 pairs of adjacent prostate tissue samples indicates high stability of proteins

ABSTRACT: Here we investigated the degradation of mRNA and protein in 68 pairs of adjacent prostate tissue samples using RNA-seq and pressure cycling technology (PCT) coupled with SWATH mass spectrometry and developed a score, the Proteome Integrity Number (PIN), to quantify the extent of protein degradation in the samples.

INSTRUMENT(S): TripleTOF 5600

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Prostate Adenocarcinoma Cell, Epithelial Cell

DISEASE(S): Prostate Adenocarcinoma

SUBMITTER: Wenguang Shao  

LAB HEAD: Ruedi Aebersold

PROVIDER: PXD007841 | Pride | 2019-06-12

REPOSITORIES: Pride

Json Xml
altmetric image

Publications

Deterioration of biomolecules in clinical tissues is an inevitable pre-analytical process, which affects molecular measurements and thus potentially confounds conclusions from cohort analyses. Here, we investigate the degradation of mRNA and protein in 68 pairs of adjacent prostate tissue samples using RNA-Seq and SWATH mass spectrometry, respectively. To objectively quantify the extent of protein degradation, we develop a numerical score, the Proteome Integrity Number (PIN), that faithfully mea  ...[more]

Similar Datasets

Proteomics Proteomic profiling of NCI60 cell lines from Cancer Cell Line Encyclopedia
2017-01-27 | E-PROT-2 | biostudies-arrayexpress
Proteomics PCP39: prostate cancer proteome for 39 patients by PCT-SWATH
2018-10-17 | PXD004589 | Pride
Proteomics Multiomic approaches for thyroid cancer diagnosis
2023-10-24 | PXD035583 | Pride
Proteomics PCT-SWATH kidney tissues - Rapid mass spectrometric conversion of tissue biopsy samples into permanent quantitative digital proteome maps
2015-02-04 | PXD000672 | Pride
Proteomics proteotypes of 76 breast cancer cell lines by PCT-SWATH
2021-01-13 | PXD004701 | Pride
Proteomics Comparative analysis of mRNA degradation and protein degradation in prostate tissues indicates high stability of proteins
2019-06-12 | PXD013622 | Pride
Proteomics Comparison of FFPE and fresh frozen prostate tissues using PCT SWATH
2019-10-07 | PXD004691 | Pride
Proteomics NCI60 proteome by PCT-SWATH - Quantitative Proteome Landscape of the NCI-60 Cancer Cell Lines
2020-06-01 | PXD003539 | Pride
Proteomics 113 DLBCL SWATH maps by PCT-SWATH
2019-10-07 | PXD014943 | Pride
Transcriptomics Application of a clinical assay for staging and prognosis of prostate cancer diagnosed in needle core biopsy specimens
2016-03-09 | E-GEOD-72220 | biostudies-arrayexpress