Best literature on NGS

[galapah]

Hi,

what is you favourite literature about (especially the bioinformatic part of) NGS, both de novo and with a reference genome?

[mastal]

Best literature on NGS

Hi,

I don't know about 'best' or 'favourite', but review articles are usually a good place to start.

Nature Methods had a supplement on NGS in 2009. It included an article on alignment and assembly by Paul Flicek and Ewan Birney.

http://www.nature.com/nmeth/journal/v6/n11s/abs/nmeth.1376.html

There was a Technology Feature article in Nature Methods about a year ago,
called 'De novo genome assembly, what every biologist should know',

http://www.nature.com/nmeth/journal/v9/n4/full/nmeth.1935.html

The journal Bioinformatics had a virtual issue on NGS - essentially a list of NGS papers published in their journal,

http://www.oxfordjournals.org/our_journals/bioinformatics/nextgenerationsequencing.html

There have been various articles comparing different assemblers, including articles reporting the results of Assemblathon competitions.

See this article by Salzberg et al, 'GAGE: A critical evaluation of genome assemblies and assembly algorithms.'

http://genome.cshlp.org/content/22/3/557

Best wishes,
Maria

[galapah]

Thank you very much, Maria! I will check these articles.

I am asking because we are going to buy some books at the department now. So we googled some books about NGS and I can also check the reviews at Amazon but I wanted to know if anyone here uses some and can recommend them.

[mastal]

Best literature on NGS

I think the best sources of information on NGS are the journals, SEQanswers, and the technical reports published by the various companies that sell sequencers like Illumina, Life and Roche/454 (see their websites).

I would imagine that because of the speed at which everything NGS-related is changing, any textbooks would be out of date by the time they are published.

maria