Alex Monell
@amonell.bsky.social
Bioinformatics PhD Student at UC San Diego @GoldrathLab @yeo_lab
In that case the cell size is the biologically meaningful part. We could pay more attention to size before making interpretations.
I like the idea of looking at relative upregulation of transcripts since it fits well with gene signatures and cell annotations derived from scRNA seq
I like the idea of looking at relative upregulation of transcripts since it fits well with gene signatures and cell annotations derived from scRNA seq
February 9, 2025 at 6:58 PM
In that case the cell size is the biologically meaningful part. We could pay more attention to size before making interpretations.
I like the idea of looking at relative upregulation of transcripts since it fits well with gene signatures and cell annotations derived from scRNA seq
I like the idea of looking at relative upregulation of transcripts since it fits well with gene signatures and cell annotations derived from scRNA seq
Seems like mrna abundance is generally correlated with cell size, but some genes have a higher correlation than others. pmc.ncbi.nlm.nih.gov/articles/PMC...
I’m leaning towards not normalizing transcript expression to cell volume.
I’m leaning towards not normalizing transcript expression to cell volume.
Differential scaling of gene expression with cell size may explain size control in budding yeast
Yeast cells must grow to a critical size before committing to division. It is unknown how size is measured. We find that as cells grow, mRNAs for some cell cycle activators scale faster than size, inc...
pmc.ncbi.nlm.nih.gov
February 8, 2025 at 9:01 PM
Seems like mrna abundance is generally correlated with cell size, but some genes have a higher correlation than others. pmc.ncbi.nlm.nih.gov/articles/PMC...
I’m leaning towards not normalizing transcript expression to cell volume.
I’m leaning towards not normalizing transcript expression to cell volume.
Waiting for your synthetic cis regulatory element phase
January 24, 2025 at 8:02 AM
Waiting for your synthetic cis regulatory element phase