How About Starting A Tutorial For Chip Seq Data Analysis?

Question

[Dataminer]

Hi!

Dear all,

I was thinking it would be great, if we all (specially people working with ChIP seq data analysis) could write a small tutorial or a pipeline for ChIP seq data analysis, incorporating only the tools which are available on web.

This would immensely help in many ways, like knowledge base would be integrated and we all will learn from each others experience and moreover it will be of great help to any new comer.

Let me know what you all think of this idea?

[User 59]

Would you consider contributing it to a bioinformatics Knowledgeblog? See What Kind Of Bioinformatics Tutorials Would You Like To See Online?

[Martin A Hansen]

I think this is a great idea. But, remember this is a Q/A site and not a discussion forum per se. There must be a wiki somewhere for exactly this. There is a ton of information in ChIP-seq analysis on seqanswers.com.

[Dataminer]

@Masha: Thank you for your comment, I know this is a question answer website and I intend to collect answers to few of the biological questions (ChIP Seq related) in a more systematic way, rather posting bits and pieces of information. I hope you will agree here. :) @ Daniel: It is a great initiative taken by you to build a knowledge blog. I will definitely contribute to it, soon. :)

Answer 1

[User 7278]

The tutorials for using the ChIP-seq algorithms in Avadis NGS were helpful.

Check out the ChIP-seq tutorials on the Avadis NGS website.

Here is the quick start guide to ChIP-seq:

http://www.avadis-ngs.com/files/docs/Avadis_NGS_ChIP-Seq_Highlights.pdf

Answer 2

[dnaseiseq]

Bailey T, Krajewski P, Ladunga I, Lefebvre C, Li Q, et al. (2013) Practical Guidelines for the Comprehensive Analysis of ChIP-seq Data. PLoS Comput Biol 9(11): e1003326. doi:10.1371/journal.pcbi.1003326

http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1003326

Answer 3

[rob234king]

There's one here:

http://elvis.misc.cranfield.ac.uk/CUBELP2/faces/CHIPSEQ.xhtml

Answer 4

[Nowlan Freese]

Here's a video tutorial on ChIP-seq using Galaxy for data analysis and IGB to visualize the results: Video: ChIP-Seq Analysis and Visualization using Galaxy and IGB.