Hot Papers!

This is a stream of papers by other groups which come out which we think are interesting and deserve to be shared!

If you have something that you think we’d like, why not comment, send us an email or tweet @killemorganlab!

Hot Paper! Optimization of de novo transcriptome assembly

Posted on 27 September 2013 by Pete

Optimization of de novo transcriptome assembly from high-throughput short read sequencing data improves functional annotation for non-model organisms Berat Z Haznedaroglu1, Darryl Reeves2, Hamid Rismani-Yazdi13 and Jordan Peccia1* BMC Bioinformatics 2012, 13:170 doi:10.1186/1471-2105-13-170 Background The k-mer hash length is a key factor affecting the output of de novo transcriptome assembly packages using de Bruijn graph
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Hot Paper! UPARSE: highly accurate OTU sequences from microbial amplicon reads

Posted on 24 September 2013 by Pete

A fantastic new paper out on the UPARSE pipeline and algorithm for cleaning and clustering OTUs in microbial diversity work, from Robert C Edgar. The UPARSE pipeline reports operational taxonomic unit (OTU) sequences with ≤1% incorrect bases in artificial microbial community tests, compared with >3% incorrect bases commonly reported by other methods. Paradigm shift? “UPARSE
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Hot Paper! Environmental Stresses Disrupt Telomere Length Homeostasis, Romano et al.

Posted on 19 September 2013 by Pete

Romano et al. have this week shown the varying effects of environmental stressors on the length of telomeres in yeast, which is a mechanism closely interwoven with disease and ageing in humans. See the full paper (free) at —————————————————— Telomeres protect the chromosome ends from degradation and play crucial roles in cellular aging and
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[Hot Papers!] Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

Posted on 2 September 2013 by Pete

Morgan G I Langille, Jesse Zaneveld, J Gregory Caporaso, Daniel McDonald, Dan Knights, Joshua A Reyes, Jose C Clemente, Deron E Burkepile, Rebecca L Vega Thurber, Rob Knight, Robert G Beiko & Curtis Huttenhower Abstract Profiling phylogenetic marker genes, such as the 16S rRNA gene, is a key tool for studies of microbial communities but does not provide direct evidence of a community’s functional capabilities. Here we
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