How to get protein expression data from MaxQuant
1
0
Entering edit mode
6.1 years ago
zero_hsy ▴ 110

Hello:

    I am processing the NCI 60 data. And I have known that the paper called "Global Proteome Analysis of the NCI-60 Cell Line Panel" gives the oroteome analysis. And I downloaded the data mentioned in the paper(ulr is http://129.187.44.58:7070/NCI60/).

   What I exactly want is the protein expression data. The format is like the gene expression data. In detail, it is like this.

             1_cell_line  2_cell_line

protein_1     ******       ***

protein_1     ***          *****

However, when I go to the download page(http://129.187.44.58:7070/NCI60/main/download), the processed data is called "MaxQuant Output Files". When I download it, there are a lot of txt with different names.But it does not include the above data format.

Could anyone using the MaxQuant software tell me how to find the above data format? If there are not such data, what is the purpose of MaxQuant?

 

protein expression data MaxQuant • 3.9k views
ADD COMMENT
1
Entering edit mode
6.1 years ago
Woa ★ 2.8k

Check the files containing  iBAQ intensity data in it, the iBAQ intensity is the measure for  Protein abundance or expression

ADD COMMENT
0
Entering edit mode

Thanks! I have found the file, but there are two methods,with one is called iBAQ and the other LFQ. Could you tell me what is the difference between them?

ADD REPLY
0
Entering edit mode

Check the original paper. I think its iBAQ intensity they used because its  Absolute Quantification unlike LFQ(label free quantification) , which is relative quantification. 

ADD REPLY

Login before adding your answer.

Traffic: 2416 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6