Convergent network effects along the axis of gene expression during prostate cancer progression.
Genome Biol
; 21(1): 302, 2020 12 14.
Article
in En
| MEDLINE
| ID: mdl-33317623
ABSTRACT
BACKGROUND:
Tumor-specific genomic aberrations are routinely determined by high-throughput genomic measurements. It remains unclear how complex genome alterations affect molecular networks through changing protein levels and consequently biochemical states of tumor tissues.RESULTS:
Here, we investigate the propagation of genomic effects along the axis of gene expression during prostate cancer progression. We quantify genomic, transcriptomic, and proteomic alterations based on 105 prostate samples, consisting of benign prostatic hyperplasia regions and malignant tumors, from 39 prostate cancer patients. Our analysis reveals the convergent effects of distinct copy number alterations impacting on common downstream proteins, which are important for establishing the tumor phenotype. We devise a network-based approach that integrates perturbations across different molecular layers, which identifies a sub-network consisting of nine genes whose joint activity positively correlates with increasingly aggressive tumor phenotypes and is predictive of recurrence-free survival. Further, our data reveal a wide spectrum of intra-patient network effects, ranging from similar to very distinct alterations on different molecular layers.CONCLUSIONS:
This study uncovers molecular networks with considerable convergent alterations across tumor sites and patients. It also exposes a diversity of network effects we could not identify a single sub-network that is perturbed in all high-grade tumor regions.Key words
Full text:
1
Collection:
01-internacional
Database:
MEDLINE
Main subject:
Prostatic Neoplasms
/
Gene Expression Regulation, Neoplastic
/
Disease Progression
Limits:
Humans
/
Male
Language:
En
Journal:
Genome Biol
Journal subject:
BIOLOGIA MOLECULAR
/
GENETICA
Year:
2020
Document type:
Article
Affiliation country:
Germany