GSM7412752: MH-S cells, control RNA-seq rep1 [CC1]; Mus musculus; RNA-Seq
For RNA extraction, a 1% agarose gel was used to detect RNA degradation and contamination. RNA-seq: Sequencing libraries were generated using the NEBNext® UltraTM RNA Library Prep Kit for Illumina® (NEB, E7530L) and index codes were added to the attribute sequences of each sample and sequenced using the TruSeq PE Cluster Kit v3-cBot-HS (Illumina, PE-401-3001) on the cBot Cluster Generation System to cluster the index-coded samples. ATAC-seq: Resuspended the cell pellets with 50 μL of lysis buffer and the nuclei were pelletized by centrifugation at 500 × g for 10 min at 4°C.   The supernatant was discarded and the nuclei were resuspended with a reaction buffer containing Tn5 transposase 2.5 μL and TD (Nextera Illumina) 22.5 μL.   Incubate at 37°C for 30 minutes.   Labeled DNA was isolated using the MinElute PCR Purification Kit (Qiagen). ATAC-seq: 10 cycles of libraries amplification and 2 × SPRI Cleanup (Agencourt) were used to purify. Using the LabChip GXII Touch HT (PerkinElmer), library sizes were calculated. NextSeq500 (Illumina) was then used to do 2 × 75 paired-end sequencings, which produced an average of 50 M reads/sample.