|
| Status |
Public on Jun 26, 2023 |
| Title |
HiC-66_GAFcontrol_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
stage 5 embryo
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: stage 5 embryo
genotype: GFP-GAF
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Embryos were fixed in 5% formaldehyde with hexanes for 30 minutes and frozen, then dounced thoroughly, spun and washed repeatedly to clean nuclei.
TruSeq DNA
in situ Hi-C using MluCI (^AATT) enzyme
|
| |
|
| Library strategy |
Hi-C |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Low complexity Hi-C library of stage 5 GFP-GAF embryos
|
| Data processing |
Fastq files were processed using the nfCore Hi-C pipeline
Assembly: BDGP6
Supplementary files format and content: .cool files at 1000, 10000, 100000 bp resolution and .mcool file for each dataset
|
| |
|
| Submission date |
Mar 30, 2023 |
| Last update date |
Jun 26, 2023 |
| Contact name |
Melissa M Harrison |
| E-mail(s) |
mharrison3@wisc.edu
|
| Organization name |
University of Wisconsin Madison
|
| Department |
Biomolecular Chemistry
|
| Lab |
1135 Biochemical Sciences Bldg
|
| Street address |
420 Henry Mall
|
| City |
Madison |
| State/province |
WI |
| ZIP/Postal code |
53706 |
| Country |
USA |
| |
|
| Platform ID |
GPL25244 |
| Series (2) |
| GSE218020 |
Localization of the Drosophila pioneer factor GAF to subnuclear foci is driven by DNA binding and required to silence satellite repeat expression |
| GSE228614 |
Hi-C of GAF-depleted Drosophila melanogaster embryos |
|
| Relations |
| BioSample |
SAMN33996574 |
| SRA |
SRX19832639 |
