3 05, 2016

How many reads to sequence a genome?

By | May 3rd, 2016|Categories: Uncategorized|2 Comments

Last year I posted about the Lander-Waterman equation used to calculate the number of reads needed to sequence a sample. I explained that this general equation (C = LN/G) can be rearranged to allow you to compute the number of reads (N) to sequence a […]

29 04, 2016

SPRI alternatives for NGS

By | April 29th, 2016|Categories: Uncategorized|3 Comments

SPRI beads, generally in the form of AMPureXP beads, are almost ubiquitous in genomics applications such as library prep for NGS. The most popular thing I’ve ever written was a post on this blog four years ago: “How do SPRI beads work?” with almost 100,000 […]

11 04, 2016

WGS versus Exome: what’s best for cancer?

By | April 11th, 2016|Categories: Uncategorized|1 Comment

I’ve just started using Twitter polls and kicked things off with a couple asking followers whether they thought Cancer research (or diagnostics) is best investigated using whole genome sequencing, higher depth exomes, much higher depth amplicomes, or even long-reads. Please do take the poll and […]

17 03, 2016

How much is a 2nd hand HiSeq?

By | March 17th, 2016|Categories: Uncategorized|5 Comments

We recently bought two HiSeq 4000 instruments to run larger RNA-seq and exome projects on. Over the next few months we’ll be transitioning other library types where we can, and think perhaps 65-85% of the work we do can be ported over from the 2500. […]

7 03, 2016

A personal journey in Genomics

By | March 7th, 2016|Categories: Uncategorized|1 Comment

Eric Minikel is lead author on a paper that came out in STM in January: Quantifying prion disease penetrance using large population control cohorts. The story is an incredibly personal one involving his wife Sonia, which Eric documents at the cureFFI.org blog. The paper reports […]

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