The VSMC RNA-seq datasets for "Strategies for Arterial Grafts Optimization at Single Cell Level"

This dataset collection contains the human vascular smooth muscle cell (VSMC) bulk RNA-seq data generated in the study Strategies for Arterial Grafts Optimization at Single Cell Level.

Primary human VSMCs (CP-H167, Pricella) were cultured in DM/F12 medium supplemented with FBS, EGF, bFGF, insulin, and penicillin (CM-P167, Pricella). The media was replaced per 48 hours. VSMCs were treated with 100ng/ml MIF (HY-P7387, MCE) for 24 hours in the absence or presence of 50 µMol ISO1 (HY-16692, MCE). The VSMCs with the passage number 3 to 5 were used in the study.

Total RNA was extracted from cultured VSMC under different treatments using RNeasy Mini Kit (74104, Qiagen). A total amount of 1 µg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext® UltraTM RNA Library Prep Kit for Illumina® (NEB, USA) following manufacturer’s recommendations and index codes were added to attribute sequences to each sample. The library preparations were sequenced on an Illumina Novaseq platform and 150 bp paired-end reads were generated. The index of the reference genome was built using Hisat2 v2.0.5. and paired-end clean reads were aligned to the reference genome using Hisat2 v2.0.5.

The sample info for the BAM files and their index files are listed as follows:

SampleCode
Sample Description

C1
VSMC (replicate 1)

C2
VSMC (replicate 2)

C3
VSMC (replicate 3)

M1
VSMC treated with MIF (replicate 1)

M2
VSMC treated with MIF (replicate 2)

M3
VSMC treated with MIF (replicate 3)

M_I1
VSMC treated with MIF and ISO1 (replicate 1)

M_I2
VSMC treated with MIF and ISO1 (replicate 2)

M_I3
VSMC treated with MIF and ISO1 (replicate 3)