Tag Archives: Illumina

Right reads, wrong index? Concerns with data from Illumina’s HiSeq 4000

Commanding around a 70% share of a 1.3 billion USD market, Illumina is the major player in next-generation sequencing (NGS) technology. More likely than not, if you’re a molecular ecologist working with NGS data, you’ve run your samples on a … Continue reading

Posted in genomics, next generation sequencing, RNAseq, technical, transcriptomics | Tagged , , , , | 5 Comments

The Great Migration and African-American Genomic History

Over 45 million African-Americans share a recent common history largely shaped by “The Great Migration” (1910-1970) from out of the Southern United States. And yet, the admixture history of the African-American community, and its consequences for public health are little … Continue reading

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The 2016 Next-Generation Sequencing Field Guide Preview: Zombie Systems and New Hope

After a year of minimal activity, we finally have some significant changes in Next Gen Land. In the 2016 update of the NGS Field Guide, I will continue to give my overall interpretation about the various instruments, but with less … Continue reading

Posted in genomics, howto, methods, RNAseq, transcriptomics | Tagged , , , | 8 Comments

New to the genome sequencing $8 menu: Nextera library preps!

Researchers are thrifty. We’re always looking for ways to make our expensive supplies and reagents go the extra mile. This shit has been going on for decades – hell, probably even centuries: I remember when I was a kid and … Continue reading

Posted in genomics, methods, next generation sequencing | Tagged , , , , | 7 Comments

Phylogeny-aware comparisons of microbial communities – EdgePCA and Squash Clustering

I’m jumping on the bandwagon with a blog post about this new PLoS ONE paper (taking the lead from the man in charge in my lab) because the algorithms are just so exciting: Matsen FA IV, Evans SN. (2013) Edge Principal … Continue reading

Posted in bioinformatics, genomics, next generation sequencing, software | Tagged , , , , , , , | 1 Comment

Dramatically reducing sequencing error via Duplex Tag sequencing

An exciting new study was published in PNAS last month, an open access paper entitled “Detection of ultra-rare mutations by next-generation sequencing”. This new method has the potential to open up a new frontier in Next-gen sequencing bioinformatics, since it allows … Continue reading

Posted in methods, next generation sequencing | Tagged , , , , | 5 Comments