SNEWS: The SuperNova Early Warning System

This paper provides a technical description of the SuperNova Early Warning System (SNEWS), an international network of experiments with the goal of providing an early warning of a galactic supernova.Comment: 25 pages, for New Journal of Physics Focus Issue on Neutrino Physic

Discovery of common and rare genetic risk variants for colorectal cancer.

To further dissect the genetic architecture of colorectal cancer (CRC), we performed whole-genome sequencing of 1,439 cases and 720 controls, imputed discovered sequence variants and Haplotype Reference Consortium panel variants into genome-wide association study data, and tested for association in 34,869 cases and 29,051 controls. Findings were followed up in an additional 23,262 cases and 38,296 controls. We discovered a strongly protective 0.3% frequency variant signal at CHD1. In a combined meta-analysis of 125,478 individuals, we identified 40 new independent signals at P < 5 × 10-8, bringing the number of known independent signals for CRC to ~100. New signals implicate lower-frequency variants, Krüppel-like factors, Hedgehog signaling, Hippo-YAP signaling, long noncoding RNAs and somatic drivers, and support a role for immune function. Heritability analyses suggest that CRC risk is highly polygenic, and larger, more comprehensive studies enabling rare variant analysis will improve understanding of biology underlying this risk and influence personalized screening strategies and drug development.Goncalo R Abecasis has received compensation from 23andMe and Helix. He is currently an employee of Regeneron Pharmaceuticals. Heather Hampel performs collaborative research with Ambry Genetics, InVitae Genetics, and Myriad Genetic Laboratories, Inc., is on the scientific advisory board for InVitae Genetics and Genome Medical, and has stock in Genome Medical. Rachel Pearlman has participated in collaborative funded research with Myriad Genetics Laboratories and Invitae Genetics but has no financial competitive interest

Breast cancer risk variants at 6q25 display different phenotype associations and regulate ESR1, RMND1 and CCDC170.

We analyzed 3,872 common genetic variants across the ESR1 locus (encoding estrogen receptor α) in 118,816 subjects from three international consortia. We found evidence for at least five independent causal variants, each associated with different phenotype sets, including estrogen receptor (ER(+) or ER(-)) and human ERBB2 (HER2(+) or HER2(-)) tumor subtypes, mammographic density and tumor grade. The best candidate causal variants for ER(-) tumors lie in four separate enhancer elements, and their risk alleles reduce expression of ESR1, RMND1 and CCDC170, whereas the risk alleles of the strongest candidates for the remaining independent causal variant disrupt a silencer element and putatively increase ESR1 and RMND1 expression.This is the author accepted manuscript. The final version is available from Nature Publishing Group via http://dx.doi.org/10.1038/ng.352

Personalized itinerary recommendation with queuing time awareness

Personalized itinerary recommendation is a complex and time-consuming problem, due to the need to recommend popular attractions that are aligned to the interest preferences of a tourist, and to plan these attraction visits as an itinerary that has to be completed within a specific time limit. Furthermore, many existing itinerary recommendation systems do not automatically determine and consider queuing times at attractions in the recommended itinerary, which varies based on the time of visit to the attraction, e.g., longer queuing times at peak hours. To solve these challenges, we propose the PersQ algorithm for recommending personalized itineraries that take into consideration attraction popularity, user interests and queuing times. We also implement a framework that utilizes geo-tagged photos to derive attraction popularity, user interests and queuing times, which PersQ uses to recommend personalized and queue-aware itineraries. We demonstrate the effectiveness of PersQ in the context of five major theme parks, based on a Flickr dataset spanning nine years. Experimental results show that PersQ outperforms various state-of-the-art baselines, in terms of various queuing-time related metrics, itinerary popularity, user interest alignment, recall, precision and F1-score

SNEWS: The SuperNova Early Warning System

Abstract. This paper provides a technical description of the SuperNova Early Warning System (SNEWS), an international network of experiments with the goal of providing an early warning of a galactic supernova. † To whom correspondence should be addresse

The Epistemology of Genealogies

Beliefs have genealogies. Can tracing a belief’s genealogy illuminate the epistemic quality of the belief? This paper sets out a general epistemology of genealogies. As it turns out, genealogies for beliefs come in two sorts: those that trace a belief to some mental event that doubles as evidence for the belief and those that do not. The former have the potential to undercut the belief, rebut the belief, or—importantly—both. The latter have the potential to reinforce the belief or rebut the belief but—importantly—not undercut it. The ultimate conclusion is that there is a role for genealogies in the epistemic appraisal of our beliefs, but this role will be circumscribed by the availability of clear and compelling genealogies