title: GSM4799628: ATAC-seq from UC Davis FAANG pig lung rep P350; Sus scrofa; ATAC-seq
library_construction_protocol: Cryopreserved nuclei prepared from fresh tissue were slowly thawed on ice, centrifuged for 5 minutes at 500 rcf, and resuspended in cold PBS. Nuclei were then washed once with cold ATAC-seq cell lysis buffer and resuspended with cold PBS for counting on a hemocytometer. Approximately 200K cryopreserved nuclei were centrifuged, supernatant aspirated, then treated with 50μl transposition mix (25μl TD buffer,2.5 μl TDE1, 22.5 μl ddH2O) for 1 hour at 37°C and 300 rpm. DNA was purified using the MinElute PCR purification kit (Qiagen, #28004, Germantown, MD) and diluted with 10μl EB buffer. DNA was amplified with primers whose detailed descriptions are found in Buenrostro et al. (2013). Libraries were purified using the MinElute PCR purification kit and run on Agilent Bioanalyzer (Agilent, Santa Clara, CA) for quality traces. Size-selection on libraries for 150-250bp fragments was performed on PippinHT system (Sage Science, Beverly, MA). Libraries were sequenced on Illumina's NextSeq with PE 40bp reads.
attributes.tag: GEO Accession
attributes.value: GSM4799628