Getting top 100 transcripts by weight for determining cell proportions?

[tjbutler003]

Hi Xuran, Thank you very much for the MuSiC package you have provided, I have been working on it and have another question regarding finding the most influential genes in determining cell type proportions. Can we use the Weight.gene matrix and sum across rows (transcripts) to get the transcripts with the highest aggregate weight, and consider them to be the most influential transcripts in determining cell type proportions? We would like to compare the MuSiC method with another method that other members of our group has used (a version of NNLS) and compare which transcripts were selected as being those that were differentially expressed in different immune cell types. Any help is appreciated. Thanks, T.J.

[WeijianH96]

Hi, I think that's how they generated the top 100 high weighted genes in their first paper. And remember the actual top 100 high weighted genes might have lowest sum of weight.