Combine Geoids
1
0
Entering edit mode
3 months ago
anasjamshed ▴ 120

I have the following geo IDs:

GSE230470--->Calorie Restriction Outperforms Bariatric Surgery in Reversing Obesity-Driven Tumor Progression in a Mouse Model of Triple Negative Breast Cancer-Study1_tumor

GSE230471--->Calorie Restriction Outperforms Bariatric Surgery in Reversing Obesity-Driven Tumor Progression in a Mouse Model of Triple Negative Breast Cancer-Study2_tumor

GSE174761--->Bariatric surgery reduces obesity-associated breast cancer and enhances response to immunotherapy [Tumor - breast cancer RNA-seq]

GSE202330--->Various forms of calorie restriction, but not a nonrestricted low-fat diet, reverse obesity-associated tumour growth and lung metastasis in a mouse model of triple-negative breast cancer-RNAseq

GSE28713---->Obesity Promotes Epithelial-To-Mesenchymal Transition and Tumor Progression in a Mouse Model of Claudin-Low Breast Cancer

GSE151866--->Tumor genes regulated in obesity-mediated breast cancer

Can we combine all of these ids together to find differentially expressed genes?

Geoids NCBI • 244 views
ADD COMMENT
0
Entering edit mode
3 months ago
ATpoint 80k

You have many studies and want to find DEGs. Generally, one does not combine studies into a single differential analysis but analysis per study and then runs meta-analysis to make a statement which DEGs are reproducible across studies. Google meta-analysis for RNA-seq. There are packages out there for this, for example MetaVolcanoR or RobustRankAggreg, and probably many others as well.

ADD COMMENT

Login before adding your answer.

Traffic: 2780 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