linkstream2 microblog

https://www.netflix.com/title/80003152

https://www.amazon.com/Significant-Figures-Lives-Great-Mathematicians-ebook/dp/B01NCW0CDX

https://linkstream2.gerstein.info/tag/brainmyths0mg/

https://www.amazon.com/Brain-Myths-Exploded-Lessons-Neuroscience/dp/B01MUA54I0

My review of J Parrington’s Deeper Genome
http://www.cell.com/cell/abstract/S0092-8674(15)01475-0 The book illuminates genomic dark matter & is a good read to boot!

My tag: http://linkstream2.gerstein.info/tag/deeper0mg

http://info.gersteinlab.org/Illuminating_the_Genome

enjoyed all these episodes from the Mendelspod podcast (http://mendelspod.com/)

Affymetrix CEO, Frank Witney, on Arrays in the Age of Sequencing 22:40 3/10/15

Rare Disease Horizons: The Hope of New Research and Technology, Part II: Other Omics with Mike Snyder, Stanford 22:20 5/9/14

In Partnership with IBM’s Watson, Pathway Genomics Reinvents Itself 16:02 3/12/15

Short Read Sequencing Not Up to the Task of Characterizing
Transcriptome Says Mike Snyder of Stanford 26:46 9/10/14

The Sports Genes with Jeremy Koenig, Athletigen 22:32 6/4/15

Want Answers? Look to the Non-Coding Region of the Genome, Says Cancer Researcher, Tim Triche 24:45 7/9/15

Bina CEO Details Secret to Success in NGS Informatics 26:29 7/17/15

New York Genome Center’s Nathan Pearson on Public Outreach for Genomics 32:49 8/19/15

Some brief thoughts on @WalterIsaacson’s book on Steve Jobs. Great Biography of An Extreme Individual

Walter Isaacson’s biography of Steve Jobs is a fantastic read, both engaging and revealing in many details. What emerges is a portrait of a genius — but also a quirky person with many contradictions. On one hand, the visionary who brought us the Mac, the iPhone, the iTunes Store and many other exceptional innovations but also the taskmaster who was incredibly demanding and difficult to interact with — someone who would get upset at the smallest details. Of particular interest to fans of Apple products: there are many tidbits on how particular features (and bugs) got included — from the oval on the MacIntosh dialogue boxes to the band circling the iPhone 4. There is also much revealing information on how the CEO of a huge public company concealed his cancer from so many people and about the intricate boardroom interplay deposing a leader and then his comeback. Altogether, a great read that I would recommend to anyone.

Note tags bundle:
http://linkstream2.gerstein.info/tag/jobs0mg

http://www.amazon.com/Steve-Jobs-Walter-Isaacson/dp/1451648537

http://www.amazon.com/review/R3HF9JGYIRU2CC/ref=cm_cr_pr_perm?ie=UTF8&ASIN=1451648537

http://recode.net/2014/06/02/swiftkey-swype-already-working-on-ios-keyboard-apps/

The SwiftKey keyboard is available now on iOS in a limited function through its note-taking app, SwiftKey Note, which was released in late January. Braidwood said it has been well received and had a million downloads in the first month.

Panasonic KX-TG9341T DECT 6.0 Expandable Digital Cordless Answering System http://service.us.panasonic.com/OPERMANPDF/KXTG9331.PDF
Had this for ~6 months. Nice headset & sound is good but headset batteries wear out quickly. Intuitive base station.
Takes batteries
http://www.amazon.com/Panasonic-Replacement-HHR-65AAABU-AAA-Pack/dp/B0031EHIX4 panasonic hhr 65aaabu ni-mh battery aaa

To turn off spoken caller ID (a very annoying feature!):

Panasonic KX-TG9341T DECT 6.0 Expandable Digital Cordless Answering System http://service.us.panasonic.com/OPERMANPDF/KXTG9331.PDF
Had this for ~6 months. Nice headset & sound is good but headset batteries wear out quickly. Intuitive base station.
Takes batteries
http://www.amazon.com/Panasonic-Replacement-HHR-65AAABU-AAA-Pack/dp/B0031EHIX4 panasonic hhr 65aaabu ni-mh battery aaa

Long-span PET mapping reveals characteristic patterns of #SVs in… cancer [v norm] genomes, but no MEIs or small events
http://genome.cshlp.org/content/early/2011/04/05/gr.113555.110.abstract

The described study used long paired-end-tags (PET) to analyze and compare SVs in cancer and normal genomes. It determined the prevalence of different types of SVs in normal and cancer sample. Overall, the results are interesting and convincing on a qualitative level; however, for the reasons outlined below, more precise and quantitative delineation of the observed effects is highly desirable.

1) Small sample size of normal genomes (only 2 normal genomes)

2) Validation rate was low (< 77%) for everything except deletions, and for singletons it was even lower. .

3) Long PET is not good for finding smaller events (few kbps). Thus, this analysis missed smaller scale SVs and cancer rearrangements.

4) While there is a discussion about breakpoints and associated repeats, it is not very informative as breakpoint locations were not determined to basepair resolution.

5) No MEI were considered — particularly, no cancer MEI were considered in the analysis, while recently it was found that somatic retrotransposition occurs in cancer (Lee et al., PMID: 22745252)..

Comprehensive long-span paired-end-tag mapping reveals characteristic patterns of structural variations in epithelial cancer genomes –

Hillmer AM, Yao F, Inaki K, Lee WH, Ariyaratne PN, Teo AS, Woo XY, Zhang Z, Zhao H, Ukil L, Chen JP, Zhu F, So JB, Salto-Tellez M, Poh WT, Zawack KF, Nagarajan N, Gao S, Li G, Kumar V, Lim HP, Sia YY, Chan CS, Leong ST, Neo SC, Choi PS, Thoreau H, Tan PB, Shahab A, Ruan X, Bergh J, Hall P, Cacheux-Rataboul V, Wei CL, Yeoh KG, Sung WK, Bourque G, Liu ET, Ruan Y.

Genome Res. 2011 May;21(5):665-75. doi: 10.1101/gr.113555.110. Epub 2011 Apr 5.