I used SILAC experiment data (labeled) in MaxQuant and it doesn't include the standard. In MaxQuant I didn't get H/L ratio. How can I quantify the proteins with these conditions?
Thank you.
Hi Sugandima,
what standard do you mean? The MaxQuant Help google group is very useful regarding every question to the software. Furthermore a lot of questions were already asked and you can find the answers in the group.
Good luck
Anke
Quick questions - did you include the right multiplicity and label type when starting your MQ search? Are you not even getting the H/L columns in your output, or are you getting the output column but do not have valid values in it?
Besides the MQ Google group I would like to point you to the videos taken from the annual MQ Summer School on Youtube, look for "MaxQuant Summer School". These cover the whole set of basic functions for both MQ and Perseus.
Sugandima, back to the other questions: how did you specify the multiplicity and label? Have you followed the videos on the Youtube channel, and what do you think are currently your "sticky points". If you do not supply more information then this discussion will not go anywhere.
Problem was in the multiplicity, I haven't set it to 2. Now it's working. Thank you.
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