Interferon Regulatory Factor 4 plays a pivotal role in the development of aGVHD-associated colitis
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ABSTRACT: These RNA Seq data derive from re-isolated WT or IRF4 knockout CD4+ T cells 15 days after transplantation in a C57BL/6 → BALB/c acute GVHD model.
In brief, BALB/c recipient mice were lethally irradiated with 8Gy at day 0. CD90.2 depleted bone marrow cells were isolated from C57BL/6 donors, and transplanted with a concentration of 5x10^6 bone marrow cells per recipient at day 1. CD4+ T cells were isolated from spleens of F2- and F3-generation C57BL/6 IRF4-/- CD45.1-Luc+ (Irf4 -/-) or wild type C57BL/6 IRF4 +/+ CD45.1-Luc+ (WT) mice and transplanted with a concentration of 1x10^6 cells per BALB/c recipient. At day 15, CD4+ T cells were re-isolated from the host spleens via CD4+ T cell isolation Kit II (Miltenyi) and FACS sorting for NKp46 negative, CD8 negative CD3 positive CD4 positive CD45.1 positive cells. Cells were sorted with a purity >99%. RNA was isolated using the RNeasy Mini or Micro Kit (Quiagen) depending on the cell number. RNA libraries for sequencing were prepared with Paired-End TruSeq Cluster Kit and sequenced on an Illumina HiSeq 4000 instrument (2x76 bp) with an average read depth of 23 million reads. Adapter sequences were trimmed (Trimmomatic v0.36) (40) and low-quality reads were filtered out. Reads were mapped to Ensembl Gencode GRCm38 using STAR v2.5.3a (41). RSEM v1.3.0 (42) was used to quantify the expression of transcripts
ORGANISM(S): Mus musculus (mouse)
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PROVIDER: S-BSST1167 | biostudies-other |
REPOSITORIES: biostudies-other
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