serious question. When one runs motif enrichment analysis, I think it is generaly desirable to know which specific peaks were found to have a motif. Why does a tool like HOMER's FindMotifsGenome.pl not report every instance of where each motif was found, and one must run a whole different tool for that task? Is this a feature more people would wish for?

#genomics #bioinformatics #atacseq #chromatin #motifs #computational #compbiology

Anyone know a good review paper / learning resource for building gene regulatory networks #GRN from #scATACseq #ATACseq and/or #scRNAseq data?
Thanks!

Human fetal lung single cell atlas. scRNA-seq + scATAC-seq + Visium combined. Key finding: unrecognized cell states such as new progenitors and a subset of neuroendocrine cell related to lung cancer.
#singlecell #cellatlas #atacseq #spatialtranscriptomics #devbio
https://www.cell.com/cell/fulltext/S0092-8674(22)01415-5

And finally, some skills that will be helpful: #bioinformatic and #statistical skills: population genetics/#genomics, quantitative genetics, #RNAseq, #ATACseq, integration of #multi_omics data; willingness to get involved in data generation (wet lab) is a plus.