|
| Status |
Public on Aug 14, 2014 |
| Title |
Suz12_PS7_1 |
| Sample type |
SRA |
| |
|
| Source name |
Suz12_PS7
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: embryo
age: 5-13h
tissue subtype: parasegment 7
chip antibody: anti-SU(Z)12
chip antibody ref.: Müller et al 2002
|
| Growth protocol |
Eggs were harvested 5-13h after laying, nuclei extracted and marked parasegment-specific nuclei sorted by FACS
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Nuclei were sonicated and ChIP performed using the appropriate antibody.
Libraries were prepared as described in Bowman et al., 2013.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
OLB 1.9.0 / RTA 1.13 used for base-calling
CHIPseq reads aligned to dm3 using BWA, allowing up to 1 mismatch and otherwise default settings
Data were filtered for reads aligning to multiple positions, pcr duplicates, and inferred fragment size <100 or >800.
Genome_build: dm3
Supplementary_files_format_and_content: Wig files generated using SPP's "smoothed.density" function, following default guidelines estimating peak separation distance and removing low quality and anomalous tags.
|
| |
|
| Submission date |
Aug 07, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Ruslan Sadreyev |
| Organization name |
Massachusetts General Hospital
|
| Department |
Molecular Biology
|
| Lab |
Bioinfomatics
|
| Street address |
185 Cambridge Street
|
| City |
Boston |
| State/province |
Massachusetts |
| ZIP/Postal code |
02114 |
| Country |
USA |
| |
|
| Platform ID |
GPL16479 |
| Series (1) |
| GSE55257 |
H3K27 modifications define segmental regulatory domains in the Drosophila bithorax complex. |
|
| Relations |
| BioSample |
SAMN02954552 |
| SRA |
SRX671950 |
