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Analyzing proteomics data

Hi All,

I am analyzing a proteomics adatset on 7 different disease group. and would like to check for proteins which might be present for absent in one specific group when compared to the others. Is there a way/tool anyone is familiar with that I can use/work with

It SILAM quantitative proteomics dataset run on QE machine and normalized using MAXquant software.

Thanks in adavnce!!!

Mamta

proteomics disease-specific
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updated by sbt_gvs • sbt_gvs • written by datanerd datanerd

You should mention what kind of proteomics dataset are you working with, it's a vast field. More details mostly never harm :)

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written by Sukhi Singh Sukhi Singh

Hi Mamta, We can help you for your analysis. Can you please more information on this? Let us understand if our platform http://bioelm.com can help on this.

Thanks.

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written by aeinsights • aeinsights

1 answer

I use limma for statistical analysis of maxquant normalized (label free ms) data. Make contrasts with a control group if you have it.

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written by Benn Benn

@Benn do you have any sample code on how to start this. I have normalized quant values and trying to do differential proteomics and pathway analysis. Can you help with how to go about it ?

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written by sbt_gvs • sbt_gvs

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