Question

Future direction of Gene Set Enrichment Analysis

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7.3 years ago

lmanohara99 ▴ 20

Gene Set Enrichment analysis has a quite developed method in the recent past. But existing methods can have pitfalls. I would like to research on GSEA and I need to to know what would be the future direction of this research area.

RNA-Seq gene GSEA • 2.3k views

ADD COMMENT • link 7.3 years ago by lmanohara99 ▴ 20

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Sidebar: I think GSEA should be reserved for this method: http://software.broadinstitute.org/gsea/index.jsp

Do others agree? Disagree?

ADD REPLY • link 7.3 years ago by Malcolm.Cook ★ 1.5k

score 1 · Answer 1 · 2017-08-16

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7.3 years ago

The ▴ 180

One important point is correlation between gene expression so independence assumption doesn't hold true. Some methods addressed this issue

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3458527/

ADD COMMENT • link 7.3 years ago by The ▴ 180

score 1 · Answer 2 · 2017-08-16

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7.3 years ago

nanana ▴ 120

A good place to start: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-017-1571-6

ADD COMMENT • link 7.3 years ago by nanana ▴ 120

score 0 · Answer 3 · 2017-08-18

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7.3 years ago

lmanohara99 ▴ 20

Can we take a machine learning based approach for solving the same problem which has been solved by the statistical methods?

ADD COMMENT • link 7.3 years ago by lmanohara99 ▴ 20