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| Status |
Public on Mar 04, 2024 |
| Title |
MOLM13 cells replicate 2 |
| Sample type |
SRA |
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| Source name |
MOLM13 cells
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| Organism |
Homo sapiens |
| Characteristics |
cell type: MOLM13 cells
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
ATAC-seq libraries were prepared in 3 experimental replicates according to the OMNI-ATAC protocol by Corces et al. Corces MR, Trevino AE, Hamilton EG, Greenside PG, Sinnott-Armstrong NA, Vesuna S et al. An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues. Nature methods 2017; 14: 959-962.
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| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
MOLM13_R2
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| Data processing |
Reads trimmed for adapter sequence
Reads mapped to rn6 genome using Bowtie2
Aligned reads shifted to accommodate Tn5 footprint
Peaks called by macs
Differential accessibility done in DiffBind
Assembly: hg38
Supplementary files format and content: Normalized read count table generated
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| Submission date |
Aug 25, 2023 |
| Last update date |
Mar 04, 2024 |
| Contact name |
Kimberly E Stephens |
| E-mail(s) |
kestephens@uams.edu
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| Phone |
501-364-3307
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| Organization name |
University of Arkansas for Medical Sciences
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| Department |
Pediatrics
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| Street address |
13 Children's Way
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| City |
Little Rock |
| State/province |
AR |
| ZIP/Postal code |
72202 |
| Country |
USA |
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| Platform ID |
GPL24676 |
| Series (1) |
| GSE241738 |
Enhancer-activated RET confers protection against oxidative stress to the MLL-rearranged acute myeloid leukemia cells |
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| Relations |
| BioSample |
SAMN37182149 |
| SRA |
SRX21499405 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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