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Smith, Stephen [1], Morales-Briones, Diego [2], Yang, Ya [3], Pease, James [4], Wang, Ning [5].

Transcriptome analyses for non-model plants: phylogenomics and more.

Transcriptomic sequencing has become more common for non-model organisms as costs have lowered. Often, however, researchers do not realize the full utility of these because of barriers to data analysis. In this workshop, we will examine several uses for transcriptomes including phylogenomic analyses, targeted gene family evolution analysis, phyloGWAS, and differential expression.   The workshop will be divided into two modules. For the first 1.5 hours, we will go over the basic concepts, approaches, challenges, and examples of transcriptome analyses in non-model organisms in a series of short presentations and discussions. After a short break, the next ~2.5 hours will be hands-on tutorials using virtual machines. Workshop participants will be given the necessary scripts, instructions, and test data. No other special knowledge required. For those who are not familiar with command line interface, additional tutorial instructions will be provided.   Participants can choose to only participate in the lecture & discussion module, or the full workshop including the hands-on session.
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1 - University of Michigan, Ecology and Evolutionary Biology, 2071A Kraus Natural Science Building, Ann Arbor, MI, 48109, USA
2 - University of Minnesota, 714 Biological Sciences Center, Saint Paul, MN, 55108, USA
3 - University of Minnesota, 714 Biological Sciences Center, Saint Paul, MN, 55108
4 - Wake Forest, Room 2813, Wake Downtown, Winston-Salem, NC, 27109, USA
5 - University of Michigan, 2071A Kraus Natural Science Building, Ann Arbor, MI, 48109, USA

Keywords:
transcriptomes
Phylogenomics
phyloGWAS
Phylogenetics
Genomics.

Presentation Type: Workshop
Number:
Abstract ID:45
Candidate for Awards:None


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