Brian Haas, September 17
SciLifeLab The Svedberg seminar series September 17
The Broad Institute, USA
Brian Haas is a Senior Computational Biologist at the Broad Institute, where he focuses on developing open source software to facilitate studies in genomics and transcriptomics.
Trinity as a Framework for De novo Transcriptome Assembly and Analysis
Transcriptome sequencing via RNA-seq provides a powerful method for transcript discovery and gene expression analysis in both model and non-model organisms. De novo transcriptome assembly, as performed by our Trinity software, enables transcript discovery and analysis for organisms where reference genome assemblies are lacking or are suffeciently different from the transcriptome under study. Since the initial development of Trinity, we have concentrated afford on integrating tools to facilitate analysis efforts beyond transcript reconstruction, including analysis of differential expression, identification and functional annotation of likely protein-coding sequences, transcript based polymorphism discovery, and fusion gene detection such as in cancer.
Here, we describe the composition of the Trinity software and provide examples of downstream applications, in the context of reference genomes and for genome-free studies, tackling research problems across diverse eukaryotes.
Host: Manfred Grabherr