Excellent presentation Dr., my question is the following, how do you cure your raw data of a biological replica with the other 2? To suggest an increase or decrease in the abundance of some protein compared to the other phenotype (control).
excellent tutorial, thank you. Very clear and precise. If possible can you post similar tutorials for metabolomics and lipidomics? Or if there are any can you please give the links.
Hello Dr. Slavov, Can you make a video on how to perform GSEA and GO term analysis on mass spec data? Or direct me to any web resource that explains it. I was trying to do that with fGSEA and ClusterProfiler scripts in R but was unsuccessful. The script works fine with RNA-seq data but for MS data from PD it shows some error.
Performing GSEA / GO analysis with MS data is conceptually the same. There are no significant differences. You can find a description here journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005535 and the corresponding code here github.com/SlavovLab/tissue-ptr
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Excellent presentation Dr., my question is the following, how do you cure your raw data of a biological replica with the other 2? To suggest an increase or decrease in the abundance of some protein compared to the other phenotype (control).
Thank you, Sir. It is much needed. Can you make lecture on plant metabolite data analysis? Please do the needful. Thank you
excellent tutorial, thank you. Very clear and precise. If possible can you post similar tutorials for metabolomics and lipidomics? Or if there are any can you please give the links.
Hello Dr. Slavov,
Can you make a video on how to perform GSEA and GO term analysis on mass spec data? Or direct me to any web resource that explains it.
I was trying to do that with fGSEA and ClusterProfiler scripts in R but was unsuccessful. The script works fine with RNA-seq data but for MS data from PD it shows some error.
Performing GSEA / GO analysis with MS data is conceptually the same. There are no significant differences. You can find a description here journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005535 and the corresponding code here github.com/SlavovLab/tissue-ptr
You may find this video on protein set (GO term) enrichment analysis useful: th-cam.com/video/H9PZ3OirK6Q/w-d-xo.html