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For 10,000 years pigs and humans have shared a close and complex relationship. From domestication to modern breeding practices, humans have shaped the genomes of domestic pigs. Here we present the assembly and analysis of the genome sequence of a female domestic Duroc pig (Sus scrofa) and a comparison with the genomes of wild and domestic pigs from Europe(More)
The genome organizations of eight phylogenetically distinct species from five mammalian orders were compared in order to address fundamental questions relating to mammalian chromosomal evolution. Rates of chromosome evolution within mammalian orders were found to increase since the Cretaceous-Tertiary boundary. Nearly 20% of chromosome breakpoint regions(More)
Data-intensive flow computing allows efficient processing of large volumes of data otherwise unapproachable. This paper introduces a new semantic-driven data-intensive flow infrastructure which: (1) provides a robust and transparent scalable solution from a laptop to large-scale clusters ,(2) creates an unified solution for batch and interactive tasks in(More)
The persistence of large blocks of homologous synteny and a high frequency of breakpoint reuse are distinctive features of mammalian chromosomes that are not well understood in evolutionary terms. To gain a better understanding of the evolutionary forces that affect genome architecture, synteny relationships among 10 amniotes (human, chimp, macaque, rat,(More)
Real-time surveillance systems, network and telecommuni-cation systems, and other dynamic processes often generate tremendous (potentially infinite) volume of stream data. Effective analysis of such stream data poses great challenges to database and data mining researchers, due to its unique features, such as single-scan algorithm, multi-dimensional online(More)
" Big data " in the form of unstructured text poses challenges and opportunities to social scientists committed to advancing research frontiers. Because machine-based and human-centric approaches to content analysis have different strengths for extracting information from unstructured text, we argue for a collaborative, hybrid approach that combines their(More)
This paper addresses the problem of making text mining results more comprehensible to humanities scholars, journalists, intelligence analysts, and other researchers, in order to support the analysis of text collections. Our system, FeatureLens<sup>1</sup>, visualizes a text collection at several levels of granularity and enables users to explore interesting(More)
Domestic yaks (Bos grunniens) provide meat and other necessities for Tibetans living at high altitude on the Qinghai-Tibetan Plateau and in adjacent regions. Comparison between yak and the closely related low-altitude cattle (Bos taurus) is informative in studying animal adaptation to high altitude. Here, we present the draft genome sequence of a female(More)
One of the most difficult problems in modern genomics is the assembly of full-length chromosomes using next generation sequencing (NGS) data. To address this problem, we developed "reference-assisted chromosome assembly" (RACA), an algorithm to reliably order and orient sequence scaffolds generated by NGS and assemblers into longer chromosomal fragments(More)
This paper describes a system to support humanities scholars in their interpretation of literary work. It presents a user interface and web architecture that integrates text mining, a graphical user interface and visualization, while attempting to remain easy to use by non specialists. Users can interactively read and rate documents found in a digital(More)