Archive for September, 2015

Rock-paper-scissors may explain evolutionary ‘games’ in nature

Tuesday, September 8th, 2015

Rock-paper-scissors may explain evolutionary ‘games’
http://news.sciencemag.org/biology/2015/05/rock-paper-scissors-may-explain-evolutionary-games-nature How aggressive, cooperative & deceptive behaviors can coexist

QT:{{”
“The hand game “rock-paper-scissors” is a classic way to settle playground disputes, with rock smashing scissors, scissors cutting paper, and paper covering rock. But it turns out that nature plays its own versions of the game, and mathematicians and biologists have used it to study everything from human societies to bacteria in a petri dish. Now, researchers have found that when players change their strategies on the fly, a stable pattern arises in which each of the three weapons gains and loses popularity in turn. The discovery could shed light on how living creatures maintain competing strategies in the struggle for existence.

When applied to biology, rock-paper-scissors blossoms from a two-person children’s game into a complex dance among multiple players. Certain lizards, for example, use three competing
strategies—aggression, cooperation, and deception—to win mates, with each tactic beating one and losing to another—just like rock, paper, and scissors. For the lizards, winning the game equates to making babies.

Inspired by computer simulations of a related game, two
mathematicians—Steven Strogatz and Danielle Toupo of Cornell University—decided to get to the root of what happens when players switch strategies midgame. “I thought it was fascinating, and I wanted to find a mathematical model that would describe this in its simplest form,” Strogatz says. They went back to basics, studying the pure equations instead of complicated computer simulations.”
“}}

A New Initiative on Precision Medicine — NEJM

Tuesday, September 8th, 2015

A New Initiative on Precision Medicine
http://www.nejm.org/doi/full/10.1056/NEJMp1500523 Notable: focus on #cancergenomics & mention of endophenotypes & #QS data

Francis S. Collins, M.D., Ph.D., and Harold Varmus, M.D.
N Engl J Med 2015; 372:793-795February 26, 2015DOI: 10.1056/NEJMp1500523

QT:{{”
“These features make efforts to improve the ways we anticipate, prevent, diagnose, and treat cancers both urgent and promising. Realizing that promise, however, will require the many different efforts reflected in the President’s initiative. To achieve a deeper understanding of cancers and discover additional tools for molecular diagnosis, we will need to analyze many more cancer genomes. ….
The cancer-focused component of this initiative will be designed to address some of the obstacles that have already been encountered in “precision oncology”: unexplained drug resistance, genomic
heterogeneity of tumors, insufficient means for monitoring responses and tumor recurrence, and limited knowledge about the use of drug combinations.

The initiative’s second component entails pursuing research advances that will enable better assessment of disease risk, understanding of disease mechanisms, and prediction of optimal therapy for many more diseases, with the goal of expanding the benefits of precision medicine into myriad aspects of health and health care.

The initiative will encourage and support the next generation of scientists to develop creative new approaches for detecting, measuring, and analyzing a wide range of biomedical information — including molecular, genomic, cellular, clinical, behavioral, physiological, and environmental parameters. Many possibilities for future applications spring to mind: today’s blood counts might be replaced by a census of hundreds of distinct types of immune cells; data from mobile devices might provide real-time monitoring of glucose, blood pressure, and cardiac rhythm; genotyping might reveal particular genetic variants that confer protection against specific diseases…
“}}

Machine ethics: The robot’s dilemma

Tuesday, September 8th, 2015

Machine ethics: The robot’s dilemma
http://www.nature.com/news/machine-ethics-the-robot-s-dilemma-1.17881 Asimov’s science fictional 3 Laws of #Robotics become a reality for programmers

QT:{{”
In his 1942 short story ‘Runaround’, science-fiction writer Isaac Asimov introduced the Three Laws of Robotics — engineering safeguards and built-in ethical principles that he would go on to use in dozens of stories and novels. They were: 1) A robot may not injure a human being or, through inaction, allow a human being to come to harm; 2) A robot must obey the orders given it by human beings, except where such orders would conflict with the First Law; and 3) A robot must protect its own existence as long as such protection does not conflict with the First or Second Laws.

Fittingly, ‘Runaround’ is set in 2015. Real-life roboticists are citing Asimov’s laws a lot these days: their creations are becoming autonomous enough to need that kind of guidance. In May, a panel talk on driverless cars at the Brookings Institution, a think tank in Washington DC, turned into a discussion about how autonomous vehicles would behave in a crisis. What if a vehicle’s efforts to save its own passengers by, say, slamming on the brakes risked a pile-up with the vehicles behind it? Or what if an autonomous car swerved to avoid a child, but risked hitting someone else nearby?”
“}}

Driving on camera | The Economist

Tuesday, September 8th, 2015

http://www.economist.com/news/technology-quarterly/21662646-dash-cams-small-video-cameras-film-road-ahead-are-being-used-motorists?fsrc=scn%2Ftw%2Fte%2Fpe%2Fed%2Fdrivingoncamera

Tomás Saraceno on the Roof: Cloud City | The Metropolitan Museum of Art

Tuesday, September 8th, 2015

http://www.metmuseum.org/exhibitions/listings/2012/tomas-saraceno

RIO: publish all outputs of the research cycle

Monday, September 7th, 2015

http://www.nature.com/news/the-journal-of-proposals-ideas-data-and-more-1.18308

Multi-tasking: how to survive in the 21st century – FT.com

Sunday, September 6th, 2015

http://www.ft.com/intl/cms/s/2/bbf1f84a-51c2-11e5-8642-453585f2cfcd.html

Rock-paper-scissors may explain evolutionary ‘games’ in nature | Science/AAAS | News

Sunday, September 6th, 2015

http://news.sciencemag.org/biology/2015/05/rock-paper-scissors-may-explain-evolutionary-games-nature

Mendelspod podcast

Sunday, September 6th, 2015

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

Useful NIH Funding Data on Bioinformatics Education

Sunday, September 6th, 2015

BD2K funded programs so far…
https://datascience.nih.gov/bd2k/funded-programs/enhancing-training/institutional-grants

NIGMS Comp Bio & Bioinfo funded predoctoral programs
http://www.nigms.nih.gov/Training/InstPredoc/Pages/PredocInst-Bioinformatics.aspx

THE NLM funded Biomedical Informatics training programs
https://www.nlm.nih.gov/ep/GrantTrainInstitute.html#5