User: sallehl

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sallehl0
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Posts by sallehl

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Comparing Different Single Cell Datasets
... Hi, I was wondering what the best way to compare data from separate single cell experiments was? I am hoping to be able to compare a dataset containing ~30 cells of the same type, to another (heterogeneous) single cell dataset, where each cell has a much lower sequencing depth. One or two of the c ...
de compare rna-seq single cell written 12 weeks ago by sallehl0
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Comment: C: How to Deal With Multiple ZFIN_IDs
... Hi Emily, Thanks for the reply, sorry, I meant to add my R script into my original question but then completely forgot. The code I used is as follows: zfish = useMart("ensembl", dataset = "drerio_gene_ensembl") symbols<-getBM(attributes = c("ensembl_gene_id","zfin_id_symbol"), ...
written 12 weeks ago by sallehl0 • updated 12 weeks ago by genomax51k
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How to Deal With Multiple ZFIN_IDs
... Hi, I am making a heatmap to check the expression of some marker genes of different cell types in zebrafish. I have used biomaRt to convert the ensembl IDs to ZFIN IDs to more easily interpret the heatmap, however, in the object that biomaRt returned, there are many duplicates in the ensembl IDs i ...
ensembl biomart id convert zfin written 12 weeks ago by sallehl0 • updated 12 weeks ago by Emily_Ensembl15k
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One-to-Many RNA-Seq Gene Correlation
... Hi, I have a small scRNA dataset (~30 progenitor cells, manually isolated so assumed to be fairly homogeneous) and came across [this paper][1] where they compared the expression of previously identified marker genes in their single cells, and then also looked for additional genes that were highly c ...
gene R correlation rna-seq written 3 months ago by sallehl0

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