|Public on Dec 02, 2021
|Peripheral blood mononuclear cells_control
|cell type: Immune cells
tissue: Peripheral blood
patient diagnosis: SLE
|Human PBMCs derived from an SLE patient were cultured with Medium (Control) or Medium supplemented with human hemoglobin (Test) for 24 hours.
|PBMCs were isolated from human blood using Ficoll (Amersham) gradient separation at 20°C, 400g for 40 min
The sequencing library was prepared by random fragmentation of the DNA or cDNA sample, followed by 5' and 3' adapter ligation. Alternatively, "tagmentation" combines the fragmentation and ligation reactions into a single step that greatly increases the efficiency of the library preparation process. Adapter-ligated fragments are then PCR amplified and gel purified.
|Illumina NovaSeq 6000
|Raw reads are filtered based on length (read length should be greater than 50) and quality using Trimmomatic-0.39
Filtered reads are aligned using STAR-Aligner v 2.5.4b
HTSeq v0.11.2 is used to get read count of genes
Insert size and SD are calculated from BAM files using RSeQC v3.0.1
Supplementary_files_format_and_content: Tab deliminated files include gene name and their raw counts in each sample
|Dec 02, 2019
|Last update date
|Dec 02, 2021
|National Institute of Immunology
|Aruna Asaf Ali Marg
|Hemoglobin induced changes in the transcriptome of lupus patients.