RNA seq analysis
0
0
Entering edit mode
marak • 0
@marak-18210
Last seen 2.7 years ago

i am new to RNA seq analysis .I have TMM normalized htseq-count data .Can any body tellĀ  can me what threshold should i use inorder to differentiate between genes related to cancer and that are normal?i.e i want to know which genes are differently expressed using machine learning algorithms(PSO+SVM)

rnaseq machine learning • 374 views
ADD COMMENT
0
Entering edit mode

Machine learning algorithms aren't designed for differential expression, but instead are for sample classification. Is there any particular reason why you think you should be using SVM for that sort of thing?

ADD REPLY
0
Entering edit mode

ok i want to use it for identification of cancer related genes

ADD REPLY
0
Entering edit mode

Hi Marak, fellow newbie here. I think differential expression workflow is enough if you only want to find cancer-related genes by comparing cancer against normal tissues (just an example). Simple methods are fine too, you know.

Before you're diving in too deep with all those fancy machine learning algorithms out there, keep in mind that these techniques work best if you have large enough samples or you've already prepared to validate your result in an independent cohort.

ADD REPLY

Login before adding your answer.

Traffic: 224 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