The focus is on improving detection vs. treatment of late stage disease.
https://www.wsj.com/articles/cancer-is-still-beating-uswe-need-a-new-start-11570206319
February 13, 2019
Q&A With Mark B. Gerstein, PhD, on Diagnostic Genomic vs Exomic Sequencing Bryant Furlow
https://www.cancertherapyadvisor.com/home/cancer-topics/general-oncology/qa-with-mark-b-gerstein-phd-on-diagnostic-genomic-vs-exomic-sequencing/
Sequence of events in prostate #cancer, by @MarkARubin1
http://www.Nature.com/articles/d41586-018-06029-5 Discusses the high prevalence of AR-enhancer amplifications in recent studies
QT:{{”
“Quigley and colleagues performed whole-genome sequencing of 101 samples of metastatic, castration-resistant prostate-cancer tissue obtained from previous studies11,12. The most frequently altered genomic site identified was the AR-enhancer region, which was amplified in 81% of samples. The high prevalence of this type of amplification is notable because enhancer amplifications identified so far for other cancer types generally arise at much lower
frequency13–16. Moreover, the high prevalence of this AR-enhancer amplification in the data presented by Viswanathan and Quigley contrasts with its occurrence in only 1 of 54 previously published whole-genome sequences of prostate-cancer samples obtained before clinical treatment had commenced17.”
“}}
Commentary
The Cancer Genome Atlas: Creating Lasting Value beyond Its Data Carolyn Hutter + Jean Claude Zenklusen
https://www.sciencedirect.com/science/article/pii/S009286741830374X
Cancer’s Invasion Eqn, by @DrSidMukherjee
https://www.NewYorker.com/magazine/2017/09/11/cancers-invasion-equation terms: Soil-v-seed, metastasis matching + overcoming “denominator” problem
QT:{{”
“This is medicine’s “denominator problem.” The numerator is you—the person who gets ill. The denominator is everyone at risk, including all the other passengers who were exposed. Numerators are easy to study. Denominators are hard. Numerators come to the doctor’s office, congested and miserable. They get blood tests and prescriptions. Denominators go home from the subway station, heat up dinner, and watch “The Strain.” The numerator persists. The denominator vanishes.” “}}
Geeleher cites http://genome.CSHLP.org/content/early/2017/08/28/gr.221077.117?top=1 … Novel pharmacogenomic biomarkers by imputing drug response in cancer..from…genomics studies #ASHG17
http://genome.cshlp.org/content/early/2017/08/28/gr.221077.117?top=1
Assembly-based inference of Bcell receptor repertoires from..RNAseq w/
V’DJer https://academic.OUP.com/bioinformatics/article/32/24/3729/2525640/Assembly-based-inference-of-B-cell-receptor Less diversity assoc w/ long survival