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UTGB Toolkit for Personalized Genome Browsers
"... The advent of high-throughput DNA sequencers has increased the pace of collecting enormous amounts of genomic information, yielding billions of nucleotides on a weekly basis. This advance represents an improvement of two orders of magnitude over traditional Sanger sequencers in terms of the number o ..."
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of Tokyo Genome Browser) Toolkit is designed to meet three major requirements for personalization of genome browsers: easy installation of the system with minimum efforts, browsing locally stored data, and rapid interactive design of web interfaces tailored to individual needs. The UTGB Toolkit is licensed
The personal genome browser: visualizing functions of genetic variants
- Nucleic Acids Res
, 2014
"... Advances in high-throughput sequencing technolo-gies have brought us into the individual genome era. Projects such as the 1000 Genomes Project have led the individual genome sequencing to be-come more and more popular. How to visualize, anal-yse and annotate individual genomes with knowl-edge bases ..."
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Cited by 4 (2 self)
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to support genome studies and per-sonalized healthcare is still a big challenge. The Personal Genome Browser (PGB) is developed to provide comprehensive functional annotation and visualization for individual genomes based on the genetic–molecular–phenotypic model. Investigators can easily view individual
Family Genome Browser: Visualizing Genomes with Pedigree In- formation
"... Motivation: Families with inherited diseases are widely used in Mendelian/complex disease studies. Owing to the advances in high-throughput sequencing technologies, family genome sequencing becomes more and more prevalent. Visualizing family genomes can greatly facilitate human genetics studies and ..."
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and personalized medicine. However, due to the complex genetic relationships and high similari-ties among genomes of consanguineous family members, family genomes are difficult to be visualized in traditional genome visuali-zation framework. How to visualize the family genome variants and their functions
User Interface Toolkit for Ubiquitous TV
"... The wide adoption of small and powerful mobile computers, such as smart phones and tablets, has raised the opportunity to employ them in multi-user and multi-device iTV scenarios. In particular, the standardization of HTML5 and the increase of cloud services have made the web browser a suitable tool ..."
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The wide adoption of small and powerful mobile computers, such as smart phones and tablets, has raised the opportunity to employ them in multi-user and multi-device iTV scenarios. In particular, the standardization of HTML5 and the increase of cloud services have made the web browser a suitable
Genome analysis Advance Access publication December 6, 2012 ChromoZoom: a flexible, fluid, web-based genome browser
, 2012
"... Summary: Current web-based genome browsers require repetitious user input to scroll over long distances, alter the drawing density of elements or zoom through multiple orders of magnitude. Generally, either the server or the client is responsible for the majority of data processing, resulting in eit ..."
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Summary: Current web-based genome browsers require repetitious user input to scroll over long distances, alter the drawing density of elements or zoom through multiple orders of magnitude. Generally, either the server or the client is responsible for the majority of data processing, resulting
Personal Inquiry: Lessons Learned
"... The paper describes a school trial in secondary to school to explore how version 1 of the PI Toolkit helped students to perform a personally relevant scientific inquiry in a science classroom and at home. Over a three-week period (nine lessons), twenty one 13-14 year old students in an inner city sc ..."
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The paper describes a school trial in secondary to school to explore how version 1 of the PI Toolkit helped students to perform a personally relevant scientific inquiry in a science classroom and at home. Over a three-week period (nine lessons), twenty one 13-14 year old students in an inner city
Superimposed Information for the Internet
, 1999
"... Introduction It has existed for several millennia, in the form of commentaries on religious books, law and literature. We see it today in concordances, citation indexes and genome maps. You probably have created some of it, as a bookmark file in your web browser. The "it" we refer to is ..."
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Cited by 48 (8 self)
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Introduction It has existed for several millennia, in the form of commentaries on religious books, law and literature. We see it today in concordances, citation indexes and genome maps. You probably have created some of it, as a bookmark file in your web browser. The "it" we refer
RESEARCH ARTICLE Low-Frequency IL23R Coding Variant Associated with Crohn’s Disease Susceptibility in Japanese Subjects Identified by Personal Genomics Analysis
, 1371
"... Background The common disease-common variant hypothesis is insufficient to explain the complexities of Crohn’s disease (CD) genetics; therefore, rare variants are expected to be important in the disease. We explored rare variants associated with susceptibility to CD in Japanese individuals by person ..."
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by personal genomic analysis. Methods Two-step analyses were performed. The first step was a trio analysis with whole-exome sequence (WES) analysis and the second was a follow-up case-control association study. TheWES analysis pipeline comprised Burrows-Wheeler Aligner, Picard, Genome Analysis Toolkit
VMD: a community annotation database for oomycetes and microbial genomes
- Nucleic Acids Res
, 2006
"... The VBI Microbial Database (VMD) is a database system designed to host a range of microbial genome sequences. At present, the database contains genome sequence and annotation data of two plant pathogens Phytophthora sojae and Phytophthora ramorum. With the completion of the draft genome sequences of ..."
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Cited by 4 (0 self)
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created an easy-to-use genome browser to view the genome sequence data, which opens to detailed annotation pages for each gene model. A community annotation interface is available for registered community members to add or edit annotations. There are 1600 gene models for P.sojae and 700 models for P
Results 1 - 10
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