HTSanalyzeR2 : an ultra fast R/Bioconductor package for high-throughput screens with interactive report

Research output: Conference PapersRGC 32 - Refereed conference paper (without host publication)peer-review

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Detail(s)

Original languageEnglish
Publication statusPublished - 21 Jul 2017

Conference

TitleCelebrating The 25th Conference on Intelligient Systems for Molecular Biology And The16th European Conference on Computational Biology
LocationPrague, Czech Republic
PlaceCzech Republic
CityPrague
Period21 - 25 July 2017

Abstract

High-throughput screens (HTS) is one of the most promising tools in functional genomics and enable scientists to study the genome-wide perturbations. Our previous work HTSanalyzeR provides a set of pipelines for integrated functional analysis, including gene set enrichment and network analysis, and present the results as rich-text HTML pages with plots. Since its first release in 2011, it became a popular software and is used widely by the community. Recent biotechnical developments like CRISPR enhanced the efficiency and applicability of HTS. In the meantime, new algorithms and technologies facilitated the computation a lot and brought a more convenient and powerful way to demonstrate the results as an interactive report. Here we developed HTSanalyzeR2, supporting high-throughput CRISPR screens. We also increased its compatibility to work with most of the common spices used in biomedical experiments and updated the computational module fasten the calculation up to 1000X compared with the previous version. Besides the functional upgrade, now HTSanalyzeR2 presents the results in an interactive web interface, which can be easily deployed to Shiny server for further communication with biologists. HTSanalyzeR2 is an R package and now available via Github at https://github.com/CityUHK-CompBio/HTSanalyzeR2.

Bibliographic Note

Full text of this publication does not contain sufficient affiliation information. With consent from the author(s) concerned, the Research Unit(s) information for this record is based on the existing academic department affiliation of the author(s).

Citation Format(s)

HTSanalyzeR2: an ultra fast R/Bioconductor package for high-throughput screens with interactive report. / Gao, Feng; Mei, Xiupei; Zhu, Lina et al.
2017. Paper presented at Celebrating The 25th Conference on Intelligient Systems for Molecular Biology And The16th European Conference on Computational Biology , Prague, Czech Republic.

Research output: Conference PapersRGC 32 - Refereed conference paper (without host publication)peer-review