linkstream2 microblog

http://www.nejm.org/doi/full/10.1056/NEJMoa1500596#t=article

Please support this campaign from a former PhD student
(@lengjingworld) to fight a rare #cancer
https://www.youcaring.com/jing-leng-637267 OligoNation_Jing

Harnessing the Immune System to Fight #Cancer
http://www.nytimes.com/2016/07/31/health/harnessing-the-immune-system-to-fight-cancer.html Highlights @BMSnews checkpoint inhibitors Yervoy & Opdivo

Just 5 #sunburns [when young] increase your #cancer risk, by 80% for
melanoma http://www.nhs.uk/news/2014/06June/Pages/Just-five-sunburns-increases-your-cancer-risk.aspx As determined from surveys of nurses

lncRNA-mediated sponge regulatory network in prostate cancer http://www.nature.com/ncomms/2016/160315/ncomms10982/full/ncomms10982.html Few explicitly noted #pseudogenes besides PTENP1

Genomic & microenvironmental heterogeneity as integrated predictors for prostate #cancer recurrence
http://www.ncbi.nlm.nih.gov/pubmed/25456371 CNVs & hypoxia

* Lalonde E*, Ishkanian AS*, ….P’ng C, Collins CC, Squire JA, Jurisica I, Cooper C, Eeles R, Pintilie M, Dal Pra A, Davicioni E, Lam WL, Milosevic M, Neal DE, van der Kwast T, Boutros PC, Bristow RG (2014) “Tumour genomic and microenvironmental heterogeneity as integrated predictors for prostate cancer recurrence: a retrospective study” Lancet Oncology 15(13):1521-1532 (PMID: 25456371)

The novelty of the paper is that it is the first study integrating DNA-based signatures and microenviroment-based signature for cancer prognosis. The authors found four prognostic indices, i.e. cancer genomic subtype (generated from clusters of CNV profiles), genomic instability (represented by the percentage of genome alteration), DNA signature (276 genes identified from random forests), and tumor hypoxia (the microenvironment signature), to be effective in predicting patient survival in different groups. Standard clinical univariate and multivariate analyses were performed.

Identification of [872] sig. mutated regions across #cancer types http://www.nature.com/ng/journal/v48/n2/full/ng.3471.html ranges from noncoding annotations to 3D structure

https://ash.confex.com/ash/2015/webprogram/Paper86671.html
https://proxesite.wordpress.com/

two papers for journal club:

1. What are super-enhancers? Pott et al., Nature Genetics (2015) http://www.nature.com/ng/journal/v47/n1/full/ng.3167.html

2. Epigenomic analysis detects aberrant super-enhancer DNA methylation in human cancer, Heyn et al., Genome Biology (2016)
https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0879-2

#Epigenomic analysis detects aberrant super-enhancer DNA methylation in human #cancer
https://GenomeBiology.biomedcentral.com/articles/10.1186/s13059-016-0879-2 hypo-Me of many large blocks

How Not to End Cancer in Our Lifetimes
http://www.wsj.com/articles/how-not-to-end-cancer-in-our-lifetimes-1459811684“It’s extraordinarily hard to re-identify tissue” anonymously biobanked. True?