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  2. → Viewing Profile: Posts: nikky

nikky

Member Since 21 Jul 2012
Offline Last Active Oct 08 2012 07:12 PM
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Posts I've Made

In Topic: Microarray analysis

28 July 2012 - 07:24 PM

Dear pcrman,

As mentioned before I am working on a mutant and wildtype . Totally I will have 2 treatments and i will also be doing  recovery after treatement ( 2 time points).I would like to know the genes (transcripts) which are co expressed or coregulated. Could you please suggest how should I proceed to determine this interaction.

In Topic: Microarray analysis

23 July 2012 - 05:58 PM

Thank you very much pcrman, you hav been very helpful

In Topic: Microarray analysis

22 July 2012 - 03:20 PM

Thank you very much for the information

I have done the normalisation and transformation . The organism I am working on is C. elegans and I have tried DAVID but it did not help me much so I thought of going with Genespring trial version and I am working with it now. I have tried Babelomics for pathway analysis because they are the only software who does a GSA analysis for the organism C. elegans unfortunately it did not work as well as there is a bug and they still fixing it.

Could you tell me how do I select gene list for clustering ?( I have been reading a few journals and review papers and it says that you need to do a t-test or ANOVA to get the  significant differentially expressed genes before doing a k-means clustering and SVM. Is it the same case for Hierarchical clustering too?)

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