Find additional information for your own tomo-seq experiment. Or reproduce our results on zebrafish embryos.

How to run your experiment:

Primers for tomo-seq can be found in the file 'tomoseq_primer_sequences.csv'.
A detailed protocol can be found here: Holler K and Junker JP, 2019.
Map your sequenced experiment with 'mapping_tomoseq_data.sh'. Depended on the sequencing depth this can take some hours.
Analyze the data in your favourite data mining language. We used R and appended our script to reproduce the figures of our paper. That file is named 'tomoseq_data_analysis_danioRerio.R'.

Name		Name	Last commit message	Last commit date
Latest commit History 17 Commits
DREME_motifs		DREME_motifs
README.md		README.md
mapping_tomoseq_data.sh		mapping_tomoseq_data.sh
section_barcodes.csv		section_barcodes.csv
tomoseq.zebrafish.rep1.UMIs.csv		tomoseq.zebrafish.rep1.UMIs.csv
tomoseq_data_analysis_danioRerio.R		tomoseq_data_analysis_danioRerio.R
tomoseq_primer_sequences.csv		tomoseq_primer_sequences.csv
vegetal.genes.dR.csv		vegetal.genes.dR.csv