Unconfigured Ad

Collapse
X
Collapse
 
  • Page of 1
  • Time
  • Show
Clear All
new posts
Previous template Next
  • wmseq
    Member
    • May 2011
    • 71
    #1

    seq pathway analysis

    Hi every one,
    I am new to the rnaseq pathway analysis. I have finished rnaseq analysis of my experiments, I'd like to do the pathway analysis of de. genes using gage, but I don't know how to start this analysis.

    Can I directedly used the differently expressed genes from rnaseq analysis?

    Thanks!

    Richard
    Tags: None
    • GenoMax
      Senior Member
      • Feb 2008
      • 7142
      #2
      RNA-Seq Pathway and Gene-set Analysis Workflows in R/Bioconductor with GAGE/Pathview - SEQanswers
      http://seqanswers.com/forums/showthread.php?t=34679
      Discussion of next-gen sequencing related bioinformatics: resources, algorithms, open source efforts, etc


      See tutorials referred to in post #1.
      Last edited by GenoMax; 11-15-2013, 10:39 AM.

        Comment

        • wmseq
          Member
          • May 2011
          • 71
          #3
          Thanks a lot, GenoMax!
          I have read the tutorials, but I have no idea how to start this analysis, because I don't know which results of edger analysis should be feed into GAGE/Pahview for pathway analysis or visualization.

            Comment

            • wmseq
              Member
              • May 2011
              • 71
              #4
              Hi, GenoMax,
              I found the paragraph on jointing workflows with edge R. Thans!

                Comment

                Previous template Next

                Latest Articles

                Collapse
                • SEQadmin2
                  Multiomic Liquid Biopsy: What DNA/RNA Panels Reveal That DNA Alone Can’t
                  by SEQadmin2



                  Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?

                  Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating                  ...
                  10-14-2026, 09:55 AM
                • SEQadmin2
                  New Genomics Technologies Take Aim at Long-Standing Limits
                  by SEQadmin2


                  Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.

                  We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing                  ...
                  09-28-2026, 10:25 AM
                View All

                ad_right_rmr

                Collapse

                News

                Collapse
                Topics Statistics Last Post
                Exeter-Led Study Maps What an Average Human Genome Looks Like by SEQadmin2
                Started by SEQadmin2, Yesterday, 11:13 AM
                0 responses
                17 views
                0 reactions
                		 Last Post SEQadmin2
                by SEQadmin2
                Yesterday, 11:13 AM  
                Long-Read Sequencing Uncovers Cancer Mutations Conventional Testing Missed by SEQadmin2
                Started by SEQadmin2, Yesterday, 10:48 AM
                0 responses
                18 views
                0 reactions
                		 Last Post SEQadmin2
                by SEQadmin2
                Yesterday, 10:48 AM  
                Mayo Clinic-Led Study Detects DNA Mutations Across Noncancerous Tissues by SEQadmin2
                Started by SEQadmin2, 10-15-2026, 10:52 AM
                0 responses
                36 views
                0 reactions
                		 Last Post SEQadmin2
                by SEQadmin2
                10-15-2026, 10:52 AM  
                Study Finds Chromatin Motion Holds Steady Until Cells Face Stress by SEQadmin2
                Started by SEQadmin2, 10-14-2026, 05:39 AM
                0 responses
                42 views
                0 reactions
                		 Last Post SEQadmin2
                by SEQadmin2
                10-14-2026, 05:39 AM  
                View All
                Working...