Posts Tagged ‘cancer’

Sequence of events in prostate cancer

Saturday, October 6th, 2018

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.”
“}}

The Cancer Genome Atlas: Creating Lasting Value beyond Its Data

Friday, June 15th, 2018

Commentary
The Cancer Genome Atlas: Creating Lasting Value beyond Its Data Carolyn Hutter + Jean Claude Zenklusen

https://www.sciencedirect.com/science/article/pii/S009286741830374X

Recurrent noncoding regulatory mutations in pancreatic ductal adenocarcinoma | Nature Genetics

Sunday, February 11th, 2018

https://www.nature.com/articles/ng.3861?WT.ec_id=NG-201706&spMailingID=54145295&spUserID=MTc2NTYxNjY4OQS2&spJobID=1164335784&spReportId=MTE2NDMzNTc4NAS2

Cancer’s Invasion Equation

Tuesday, October 31st, 2017

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.” “}}

Haplotype-based profiling of subtle allelic imbalance with SNP arrays

Saturday, October 21st, 2017

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3530675/

Discovering novel pharmacogenomic biomarkers by imputing drug response in cancer patients from large genomics studies

Saturday, October 21st, 2017

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 B-cell receptor repertoires from short read RNA sequencing data with V’DJer | Bioinformatics | Oxford Academic

Sunday, October 1st, 2017

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

Breaking Into The Brain | Chemical & Engineering News

Friday, September 22nd, 2017

Breaking Into the #Brain
http://CEN.ACS.org/articles/92/i2/Breaking-Brain.html Contrasts potential for drug discovery in neuro-diseases v #cancer (which is “easier”)

interesting brain v cancer contrast

Whole-genome landscapes of major melanoma subtypes : Nature : Nature Research

Tuesday, September 5th, 2017

Hayward, Nicholas K., et al. "Whole-genome landscapes of major melanoma subtypes." Nature 545.7653 (2017): 175-180.

Whole-genome landscapes of…#melanoma subtypes http://www.Nature.com/nature/journal/vaop/ncurrent/full/nature22071.html Sun-exposed cutaneous w. many C>T SNVs v acral/mucosal w. many SVs

Naked mole rats: Can they help us cure cancer? – Slate Magazine

Tuesday, August 1st, 2017

Naked mole rats: Can they help..cure cancer?
http://www.Slate.com/articles/health_and_science/the_mouse_trap/2011/11/naked_mole_rats_can_they_help_us_cure_cancer_.html Live >6x longer than C57BL/6 & have “insectile” queen-domimated society