Functional Characterization Experiment summary for ENCSR576KQE
Summary
- Status
- released
- Assay
- STARR-seq
- Biosample summary
- Mus musculus strain C57BL/6NJ activated T-helper 17 cell genetically modified (episome) using transient transfection
- Biosample Type
- primary cell
- Replication type
- isogenic
- Treatments
- 0.25 μg/mL anti-CD3e for 3 days, 1 μg/mL anti-CD28 for 3 days, 2 μg/mL anti-Interleukin-4 for 3 days, 2 μg/mL anti-Interferon-gamma for 3 days, 10 ng/mL Interleukin-6 (UniProtKB:P08505) for 3 days, 0.3 ng/mL Transforming growth factor beta-1 proprotein (UniProtKB:P01137) for 3 days
- Nucleic acid type
- RNA
- Library starting quantity
- 30µg
- Size range
- 200-400
- Extraction method
- Qiagen RNA extraction
- Strand specificity
- unstranded
- Platform
- Illumina NextSeq 500
- Controls
- Elements references
Attribution
ENCODE4 project
- Lab
- Tim Reddy, Duke
- Award
- UM1HG009428 (Tim Reddy, Duke)
- Project
- ENCODE
- Aliases
- tim-reddy:mmTh17-atac-starrseq
- Date submitted
- August 31, 2021
- Date released
- October 5, 2023
- Submitter comment
- The ATAC-seq library introduced in the activated T-helper 17 cells in this functional characterization experiment is a collection of fragments pooled from transposase-accessible chromatin (ATAC) regions in the mouse CD4-positive cell types (Th0, Th1, Th2, Th17 and Treg).
Isogenic replicates
Isogenic replicate | Technical replicate | Summary | Biosample | Modifications | Library |
|---|---|---|---|---|---|
| 3 | 1 | Mus musculus strain C57BL/6NJ activated T-helper 17 primary cell genetically modified (episome) using transient transfection treated with 0.25 μg/mL anti-CD3e for 3 days, 1 μg/mL anti-CD28 for 3 days, 2 μg/mL anti-Interleukin-4 for 3 days, 2 μg/mL anti-Interferon-gamma for 3 days, 10 ng/mL Interleukin-6 for 3 days, 0.3 ng/mL Transforming growth factor beta-1 proprotein for 3 days | ENCBS583SGH | ENCGM590GEJ | ENCLB978OYP |
| 1 | 1 | Mus musculus strain C57BL/6NJ activated T-helper 17 primary cell genetically modified (episome) using transient transfection treated with 0.25 μg/mL anti-CD3e for 3 days, 1 μg/mL anti-CD28 for 3 days, 2 μg/mL anti-Interleukin-4 for 3 days, 2 μg/mL anti-Interferon-gamma for 3 days, 10 ng/mL Interleukin-6 for 3 days, 0.3 ng/mL Transforming growth factor beta-1 proprotein for 3 days | ENCBS628IKM | ENCGM590GEJ | ENCLB418BEB |
| 2 | 1 | Mus musculus strain C57BL/6NJ activated T-helper 17 primary cell genetically modified (episome) using transient transfection treated with 0.25 μg/mL anti-CD3e for 3 days, 1 μg/mL anti-CD28 for 3 days, 2 μg/mL anti-Interleukin-4 for 3 days, 2 μg/mL anti-Interferon-gamma for 3 days, 10 ng/mL Interleukin-6 for 3 days, 0.3 ng/mL Transforming growth factor beta-1 proprotein for 3 days | ENCBS282HUO | ENCGM590GEJ | ENCLB632GXM |
| 4 | 1 | Mus musculus strain C57BL/6NJ activated T-helper 17 primary cell genetically modified (episome) using transient transfection treated with 0.25 μg/mL anti-CD3e for 3 days, 1 μg/mL anti-CD28 for 3 days, 2 μg/mL anti-Interleukin-4 for 3 days, 2 μg/mL anti-Interferon-gamma for 3 days, 10 ng/mL Interleukin-6 for 3 days, 0.3 ng/mL Transforming growth factor beta-1 proprotein for 3 days | ENCBS375WKA | ENCGM590GEJ | ENCLB797ECE |