linkstream2 microblog

https://kaushikghose.wordpress.com/2016/05/31/picking-a-camera/

https://www.technologyreview.com/s/601583/how-alexa-siri-and-google-assistant-will-make-money-off-you/?utm_campaign=socialflow&utm_source=twitter&utm_medium=post

http://www.sciencemag.org/news/2016/05/dramatic-statement-european-leaders-call-immediate-open-access-all-scientific-papers

http://www.nybooks.com/articles/2016/06/09/dna-power-beautiful-experiment/

Landscape of somatic retrotransposition in human cancers
http://science.sciencemag.org/content/337/6097/967.long 194 insertions in 43 WGS, mostly L1s w. ~50% near genes

Landscape of Somatic Retrotransposition in Human Cancers

Eunjung Lee1,2,
Rebecca Iskow3,
Lixing Yang1,
Omer Gokcumen3,
Psalm Haseley1,2,
Lovelace J. Luquette III1,
Jens G. Lohr4,5,
Christopher C. Harris6,
Li Ding6,
Richard K. Wilson6,
David A. Wheeler7,
Richard A. Gibbs7,
Raju Kucherlapati2,8,
Charles Lee3,
Peter V. Kharchenko1,9,*,
Peter J. Park1,2,9,*,
The Cancer Genome Atlas Research Network

Science 24 Aug 2012:
Vol. 337, Issue 6097, pp. 967-971
DOI: 10.1126/science.1222077

The paper describes the analysis of transposable elements (TE) insertions at single nucleotide resolution in 43 high coverage whole genome datasets from five cancer types. The authors developed a computational method that uses as input paired-end whole genome sequence data from tumor and normal sample aligned against a reference genome and a custom repeat assembly of TE sequences to detect the position and mechanism of TE insertion. The method identified 194 TE insertions (183 L1s, 10 Alus and 1 ERV). The diversity in the frequency of TE insertions in the same cancer type (ranging from 45-60 to 106 events per tumour) suggests the presence of tumour subtypes with respect to TE activity.

By intersecting the 194 TE with genome annotation, the authors found that 64 TE are in known genes (in UTRs and introns), most of which are implicated in tumour suppressor functions. Also, the TE events targeted genes that are frequently/recurrently mutated, suggesting that TE insertions can potentially contribute to cancer development. Gene expression analysis showed that TE insertion results in significantly decreasing the expression levels for the host gene. TE orientation also has an impact on the expression level, with antisense insertion being less disruptive.

Comparing the germline and somatic insertion sites shows notable differences. Germline L1s are significantly more depleted from genes compared to somatic L1s. Somatic L1s are significantly overrepresented within regions of DNA hypomethylation suggesting the DNA
hypomethylation promoted L1 integration.

Facebook’s stunning 360-deg. video of Grand Central
http://www.theverge.com/2016/5/17/11673724/facebook-gear-vr-grand-central-station-360-degree-video Shot in 2-5am window; very smooth rotations HT @memBrainLLC

http://www.nytimes.com/2016/05/28/business/media/behind-the-scenes-billionaires-growing-control-of-news.html?smid=tw-nytimes&smtyp=cur&_r=0

http://www.makeuseof.com/tag/use-ifttt-supercharge-kindle/?utm_campaign=twitter&utm_medium=twitter&utm_source=twitter

A Whole New Ball Game
http://www.newyorker.com/magazine/2016/05/16/sphero-teaches-kids-to-code Describes the lucky confluence of @sphero robots, #STEM education & @Disney entertainment

QT:{{”
He is known chiefly for suggesting the concept of genes, rediscovering the laws of heredity in the 1890s while unaware of Gregor Mendel’s work, for introducing the term “mutation”, and for developing a mutation theory of evolution.
“}}

https://en.wikipedia.org/wiki/Hugo_de_Vries