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Series GSE151403 Query DataSets for GSE151403
Status Public on Jul 23, 2020
Title Bulk-ATAC sequencing in RUNX-altered murine lung adenocarcinoma cell lines
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Here, we using CRISPR activation and knockout studies to assess the implication of dysregulation of RUNX transcription factors on chromatin accessibility using bulk ATAC-sequencing. Tumor cell lines were derived from primary Kras G12D; p53 mutant mice (KP model) after initiation of tumors with SPC-Cre, resulting in lung adenocarcinoma. Cell lines were then expanded and profiled using bulk ATAC-sequencing.
Overall design Primary tumor derived cell lines were modified using CRISPR knockout and activation. Bulk ATAC-sequencing was completed on these cell lines.
Contributor(s) LaFave LM, Kartha VK
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Submission date May 28, 2020
Last update date Jul 23, 2020
Contact name Lindsay M LaFave
Organization name MIT
Department Biology
Lab Dr. Tyler Jacks
Street address 77 Massachusetts Avenue; 76-453
City Cambridge
State/province MA
ZIP/Postal code 02139
Country USA
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (81)
GSM4577316 1183T3_Cas9_Control_rep1
GSM4577317 1183T3_Cas9_Control_rep2
GSM4577318 1183T3_Cas9_Control_rep3
BioProject PRJNA635682
SRA SRP265155

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Supplementary file Size Download File type/resource
GSE151403_ATACseq_mouse_lung_peaks.bed.gz 2.2 Mb (ftp)(http) BED
GSE151403_crisprCounts_mat.txt.gz 12.8 Mb (ftp)(http) TXT
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Processed data are available on Series record

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