|
| Status |
Public on Aug 31, 2020 |
| Title |
11-1-ctrl-Q_S1 |
| Sample type |
SRA |
| |
|
| Source name |
lower 1st molar
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype: Runx2fl/fl
Stage: PN7.5
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The apical halves of lower first molars was collected for ATAC-seq
DNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
raw reads were aligned using Bowtie2 with the mm10 genome
MACS2 was used for detecting genomic enrichment regions
Runx2 binding motifs were analyzed using HOMER
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files of number of motif counts
|
| |
|
| Submission date |
Jun 01, 2020 |
| Last update date |
Sep 01, 2020 |
| Contact name |
Quan Wen |
| E-mail(s) |
qw_354@usc.edu
|
| Organization name |
University of Southern California
|
| Street address |
2250 Alcazar St. CSA 123
|
| City |
Los Angeles |
| State/province |
Ca |
| ZIP/Postal code |
90033 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE151563 |
ATAC-seq (Assay for Transposase-Accessible Chromatin using sequencing) assess genome-wide chromatin accessibility of Runx2fl/fl Mouse Molar Transcriptomes |
|
| Relations |
| BioSample |
SAMN15075272 |
| SRA |
SRX8449152 |
