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Short Abstracts Presentations: Locations: Wyndham Grand Pittsburgh Hotel, May 5 - 8 2015, Ballroom 1, King's Garden 1, King's Garden 2/3, Brigade Room

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Wade L... Schul, John G... However, efficient clinical interpretation of NGS data is difficult due to the lack of support for genetic information within laboratory information systems... The VarBase platform is based on two database technologies: a relational database (SQL Server, Microsoft, Redmond, WA, USA) and a document-oriented search platform (Elasticsearch, Elasticsearch, Los Altos, CA, USA)... Identifiable patient information is stored within the SQL database, since it is easily encrypted and provides all traditional security models... Deidentified variant information is also submitted to the VarBase research engine based on Elasticsearch, which can be used to create dynamic, real-time queries against the entire dataset... Finally, a set of technology-agnostic web services allow authorized users to access sequencing data for research projects and clinical trials... The use of this system has decreased the turnaround time for clinical interpretation from approximately 1 month to 1 week from the date of sample collection... In addition, the web service interface has been integrated into multiple clinical research projects in different departments... The flexibility and scalability of the VarBase platform have allowed our institution to provide a rapid turnaround time for NGS interpretation... Unlike many commercial applications, the open platform with a common set of web service interfaces has allowed several investigators access to sequencing data for ongoing clinical studies... This approach to NGS data management will significantly increase the availability of relevant information on patient outcomes to pathologists and primary clinical teams.

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Mentions: Quantification of the developed GNR is consistent among a variety of thresholds in comparison to conventional IHC stain as shown in the Figure. Variance of IHC stain quantity is about three fold greater than that of EGFR-Sure, and is dependent on the selection of the threshold.


Short Abstracts Presentations: Locations: Wyndham Grand Pittsburgh Hotel, May 5 - 8 2015, Ballroom 1, King's Garden 1, King's Garden 2/3, Brigade Room
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Related In: Results  -  Collection

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Mentions: Quantification of the developed GNR is consistent among a variety of thresholds in comparison to conventional IHC stain as shown in the Figure. Variance of IHC stain quantity is about three fold greater than that of EGFR-Sure, and is dependent on the selection of the threshold.

View Article: PubMed Central

AUTOMATICALLY GENERATED EXCERPT
Please rate it.

Wade L... Schul, John G... However, efficient clinical interpretation of NGS data is difficult due to the lack of support for genetic information within laboratory information systems... The VarBase platform is based on two database technologies: a relational database (SQL Server, Microsoft, Redmond, WA, USA) and a document-oriented search platform (Elasticsearch, Elasticsearch, Los Altos, CA, USA)... Identifiable patient information is stored within the SQL database, since it is easily encrypted and provides all traditional security models... Deidentified variant information is also submitted to the VarBase research engine based on Elasticsearch, which can be used to create dynamic, real-time queries against the entire dataset... Finally, a set of technology-agnostic web services allow authorized users to access sequencing data for research projects and clinical trials... The use of this system has decreased the turnaround time for clinical interpretation from approximately 1 month to 1 week from the date of sample collection... In addition, the web service interface has been integrated into multiple clinical research projects in different departments... The flexibility and scalability of the VarBase platform have allowed our institution to provide a rapid turnaround time for NGS interpretation... Unlike many commercial applications, the open platform with a common set of web service interfaces has allowed several investigators access to sequencing data for ongoing clinical studies... This approach to NGS data management will significantly increase the availability of relevant information on patient outcomes to pathologists and primary clinical teams.

No MeSH data available.