Category Archives: next generation sequencing

A penny for your method: Nutator

Posted on 2 Dec, 2011 by Brant Faircloth

This one requires a little ingenuity on your part (and perhaps some craft, duct tape, construction, and/or welding skills). A nutator (AKA nutating mixer or rotating mixer) is a gently rocking/rotating platform useful for continuously and gently mixing samples. They … Continue reading →

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Dr. Prepper

Posted on 5 Nov, 2011 by Brant Faircloth

Library preparation for next-gen sequencing has become a fact of life in many labs working with model and non-model organisms. The problems with library preparation are that (1) library prep is slow and (2) library prep is expensive. Generally speaking, … Continue reading →

Posted in methods, next generation sequencing | 5 Comments

Easing the pain of titration

Posted on 21 Sep, 2011 by Brant Faircloth

Quickly following up on Nick’s post re: Illumina Library Prep, Travis Glenn pointed me towards a manuscript in Nature Protocols that proposes an alternative to the oft-grumbled-about process of titrating libraries for 454/Ion Torrent sequencing: Zongli Zheng et al. Titration-free … Continue reading →

Posted in bioinformatics, howto, methods, next generation sequencing | 3 Comments

A Tweak to Illumina Library Prep

Posted on 19 Sep, 2011 by Nicholas Crawford

For those readers who are making Illumina libraries for NGS, which I assume is many of you, I’d like to direct you to this new paper by Sheila Fisher’s group at the Broad Institute. In this paper Fisher describes the … Continue reading →

Posted in bioinformatics, howto, methods, next generation sequencing | 1 Comment

Field Guide to Next Generation Sequencers now available

Posted on 8 Jun, 2011 by Tim Vines

Travis Glenn recently published a paper in ME Resources giving pricing and usage info for a range of NGS sequencers. Since this area is moving very fast, we’ve also put the tables from his paper up on the blog, and … Continue reading →

Posted in bioinformatics, howto, methods, next generation sequencing | 2 Comments

A new poll for our readers.

Posted on 31 Mar, 2011 by Dilara Ally

We all know that the genetic landscape has dramatically changed in the last five years with the introduction of multiple parallel sequencing platforms. What I’m interested in is which platform researchers are choosing to use. You might say that in … Continue reading →

Posted in community, methods, next generation sequencing | 2 Comments

Riding the Elephant

Posted on 7 Feb, 2011 by Nicholas Crawford

I recently received my first batch of reads from a single paired-end lane run on an [Illumina Hi-Seq](http://www.illumina.com/systems/hiseq_2000.ilmn) instrument. This batch totaled about 20 billion basepairs of DNA sequence, and the associated data files a combined 55.4 gigs of text. … Continue reading →

Posted in bioinformatics, next generation sequencing, software | Tagged , , , , | 9 Comments

Using next generation on everything and more.

Posted on 26 Dec, 2010 by Dilara Ally

“Developing genomics tools for ecological organisms is desirable because we can study a wider range of phenotypic traits over evolutionary timescales and in more populations than was possible previously. Through this we are likely to gain a more realistic and … Continue reading →

Posted in next generation sequencing | 3 Comments

Hybrid sequencing on hybrids

Posted on 4 Oct, 2010 by Dilara Ally

Today I want to talk about an article, recently published in special issue of Molecular Ecology, by Buggs et al. 2010 (Mol Ecol 19: 132-146).  In this paper, the authors used two different next generation methods, pyrosequencing and cyclic reversible … Continue reading →

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The Next generation: Our final frontier?

Posted on 23 Sep, 2010 by Dilara Ally

It’s hard enough to keep up with the lastest Indie band or the newest Hollywood star or the sports star who cheated, but apologized, reformed and now it’s all okay.  Most of the time when I ask a question about … Continue reading →

Posted in next generation sequencing | 1 Comment