Abstract
We used clinical tissue from lethal metastatic castration-resistant prostate cancer (CRPC) patients obtained at rapid autopsy to evaluate diverse genomic, transcriptomic, and phosphoproteomic datasets for pathway analysis. Using Tied Diffusion through Interacting Events (TieDIE), we integrated differentially expressed master transcriptional regulators, functionally mutated genes, and differentially activated kinases in CRPC tissues to synthesize a robust signaling network consisting of druggable kinase pathways. Using MSigDB hallmark gene sets, six major signaling pathways with phosphorylation of several key residues were significantly enriched in CRPC tumors after incorporation of phosphoproteomic data. Individual autopsy profiles developed using these hallmarks revealed clinically relevant pathway information potentially suitable for patient stratification and targeted therapies in late stage prostate cancer. Here, we describe phosphorylation-based cancer hallmarks using integrated personalized signatures (pCHIPS) that shed light on the diversity of activated signaling pathways in metastatic CRPC while providing an integrative, pathway-based reference for drug prioritization in individual patients.
| Original language | English (US) |
|---|---|
| Pages (from-to) | 1041-1054 |
| Number of pages | 14 |
| Journal | Cell |
| Volume | 166 |
| Issue number | 4 |
| DOIs | |
| State | Published - Aug 11 2016 |
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All Science Journal Classification (ASJC) codes
- Biochemistry, Genetics and Molecular Biology(all)
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Phosphoproteome Integration Reveals Patient-Specific Networks in Prostate Cancer. / Paull, Evan O.; Graham, Nicholas A.; Lee, John K.; Smith, Bryan A.; Titz, Bjoern; Stoyanova, Tanya; Faltermeier, Claire M.; Uzunangelov, Vladislav; Carlin, Daniel E.; Fleming, Daniel Teo; Wong, Christopher K.; Newton, Yulia; Sudha, Sud; Vashisht, Ajay A.; Huang, Jiaoti; Wohlschlegel, James A.; Graeber, Thomas G.; Witte, Owen N.; Stuart, Joshua M.
In: Cell, Vol. 166, No. 4, 11.08.2016, p. 1041-1054.Research output: Contribution to journal › Article
TY - JOUR
T1 - Phosphoproteome Integration Reveals Patient-Specific Networks in Prostate Cancer
AU - Paull, Evan O.
AU - Graham, Nicholas A.
AU - Lee, John K.
AU - Smith, Bryan A.
AU - Titz, Bjoern
AU - Stoyanova, Tanya
AU - Faltermeier, Claire M.
AU - Uzunangelov, Vladislav
AU - Carlin, Daniel E.
AU - Fleming, Daniel Teo
AU - Wong, Christopher K.
AU - Newton, Yulia
AU - Sudha, Sud
AU - Vashisht, Ajay A.
AU - Huang, Jiaoti
AU - Wohlschlegel, James A.
AU - Graeber, Thomas G.
AU - Witte, Owen N.
AU - Stuart, Joshua M.
PY - 2016/8/11
Y1 - 2016/8/11
N2 - We used clinical tissue from lethal metastatic castration-resistant prostate cancer (CRPC) patients obtained at rapid autopsy to evaluate diverse genomic, transcriptomic, and phosphoproteomic datasets for pathway analysis. Using Tied Diffusion through Interacting Events (TieDIE), we integrated differentially expressed master transcriptional regulators, functionally mutated genes, and differentially activated kinases in CRPC tissues to synthesize a robust signaling network consisting of druggable kinase pathways. Using MSigDB hallmark gene sets, six major signaling pathways with phosphorylation of several key residues were significantly enriched in CRPC tumors after incorporation of phosphoproteomic data. Individual autopsy profiles developed using these hallmarks revealed clinically relevant pathway information potentially suitable for patient stratification and targeted therapies in late stage prostate cancer. Here, we describe phosphorylation-based cancer hallmarks using integrated personalized signatures (pCHIPS) that shed light on the diversity of activated signaling pathways in metastatic CRPC while providing an integrative, pathway-based reference for drug prioritization in individual patients.
AB - We used clinical tissue from lethal metastatic castration-resistant prostate cancer (CRPC) patients obtained at rapid autopsy to evaluate diverse genomic, transcriptomic, and phosphoproteomic datasets for pathway analysis. Using Tied Diffusion through Interacting Events (TieDIE), we integrated differentially expressed master transcriptional regulators, functionally mutated genes, and differentially activated kinases in CRPC tissues to synthesize a robust signaling network consisting of druggable kinase pathways. Using MSigDB hallmark gene sets, six major signaling pathways with phosphorylation of several key residues were significantly enriched in CRPC tumors after incorporation of phosphoproteomic data. Individual autopsy profiles developed using these hallmarks revealed clinically relevant pathway information potentially suitable for patient stratification and targeted therapies in late stage prostate cancer. Here, we describe phosphorylation-based cancer hallmarks using integrated personalized signatures (pCHIPS) that shed light on the diversity of activated signaling pathways in metastatic CRPC while providing an integrative, pathway-based reference for drug prioritization in individual patients.
UR - http://www.scopus.com/inward/record.url?scp=84981318520&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=84981318520&partnerID=8YFLogxK
U2 - https://doi.org/10.1016/j.cell.2016.07.007
DO - https://doi.org/10.1016/j.cell.2016.07.007
M3 - Article
C2 - 27499020
VL - 166
SP - 1041
EP - 1054
JO - Cell
JF - Cell
SN - 0092-8674
IS - 4
ER -