HI,

I'm starting a experiment with some cells from mice embryos. I want to be sure, my primers are correct before to do all the experiment.

I'm a little confused how to orders the primers for ATAC-seq: For each sample, I should be order:

Sample1:

Ad1_noMX: (Primer without index) Ad2.1_index: (Primer with index1)

Sample2: Ad1_noMX:(Primer without index) Ad2.2_index: (Primer with index2)

etc

In terms to order the primers if I follow the list from (Jason D Buenrostro paper https://media.nature.com/original/nature-assets/nmeth/journal/v10/n12/extref/nmeth.2688-S1.pdf):

I should be order:

Ad1_noMX: AATGATACGGCGACCACCGAGATCTACACTCGTCGGCAGCGTCAGATGTG

Basically the second primer I have to put the index sequence to order: index+sequence? Ad2.1_TAAGGCGA: TAAGGCGA-CAAGCAGAAGACGGCATACGAGATTCGCCTTAGTCTCGTGGGCTCGGAGATGT

Thanks