normalize the SILAC light heavy value
1
0
Entering edit mode
yueli7 ▴ 10
@yueli7-8401
Last seen 3 months ago
China

Hello,

I have SILAC protein data from three patients. How can I normalize the A10: Light/Heavy value over these patients?

Any available software or tools?

Thank you in advance for great help!

Best,

Yue

RforProteomics • 202 views
ADD COMMENT
0
Entering edit mode
@laurent-gatto-5645
Last seen 2 days ago
Belgium

I assume that when you mention 3 patients, you refer to 6 columns, 3 corresponding to the heavy and 3 to the light samples.

There's no special requirement to normalise such data. As always, it's advised to visualise your data (densities of the expression data, PCA, ...) before/after normalising to assess the effect of the transformation.

As for tools, you can consider MSnbase, DEP, ... or DAPAR, if you are less familiar with the command line interface.

ADD COMMENT
0
Entering edit mode

Hello Laurent Gatto, Laurent Gatto

Thank you so much for your quick response and great help!

I only has one column which has A10: Light/Heavy value. Please see the figure.

Is there any available R package or github software that can be use?

Thank you in advance for your great help!

Best,

Yue

ADD REPLY

Login before adding your answer.

Traffic: 221 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