Question: Bacterial Metatranscriptomes
gravatar for Soren Franzenburg
5.1 years ago by
Soren Franzenburg10 wrote:
Hi everybody, I am trying to perform metatranscriptomic analysis on gut samples. Whereas the host transcriptome was easy, the lack of a reference genome for my mixed bacterial population is a problem. Any suggestions how to do the alignment? Has anybody done metatranscriptomics on Galaxy before? A recent paper from Leimena et al. (2013, BMC Genomics) claims they have done the alignment against the complete NCBI prokaryotic genome database. This sounds like a good solution to me, but I struggle to get this running. I am normally on the wet side of the work and my experience with programming and R is limited. The aim is to compare the functional capacity of the bacterial communities in different closely related host species. Thanks for help, Sören Sören Franzenburg 5130 Comstock Hall Cornell University 14853 Ithaca, NY
galaxy • 963 views
ADD COMMENTlink modified 5.1 years ago by Jennifer Hillman Jackson25k • written 5.1 years ago by Soren Franzenburg10
gravatar for Jennifer Hillman Jackson
5.1 years ago by
United States
Jennifer Hillman Jackson25k wrote:
Hello, This metagenomics publication from our team a few years ago took a somewhat similar approach. Perhaps it can be adapted? Best, Jen Galaxy team -- Jennifer Hillman-Jackson
ADD COMMENTlink written 5.1 years ago by Jennifer Hillman Jackson25k
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