|
| Status |
Public on Mar 16, 2017 |
| Title |
2xlink IgG ChIP-seq rep 2, 3-13-14 |
| Sample type |
SRA |
| |
|
| Source name |
S2_2xlink IgG ChIP-seq
|
| Organism |
Drosophila melanogaster |
| Characteristics |
cell line: S2 cells
chip antibody: Normal rabbit IgG
chip antibody information: Cell Signaling, catalog number 2729
crosslinker: 2mM ethylene glycol bis(succinimidyl succinate) and 1% formaldehyde
|
| Treatment protocol |
Crosslinked with ethylene glycol bis(succinimidyl succinate) and then crosslinked with formaldehyde
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cells were sonicated and cleared of cellular debris. Lysates were immunoprecipitated with the corresponding antibodies
Briefly, DNA ends were repaired with T4 DNA polymerase, Klenow Large Fragment DNA polyermerase and T4 polynclease kinase. DNA was purified with PEG bead slurry. Illumina short sequencing adaptor was ligated to DNA overnight. Library was purified with PEG beads
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina MiSeq |
| |
|
| Description |
bam file was generated from fastq files
|
| Data processing |
Base calling done with MiSeq (Illumina RTA version 1.18.54)
Reads aligned with BWA (v0.6.1), done using default parameters
Genome_build: BDGP release 5 (dm3)
Supplementary_files_format_and_content: wig files were generated from bam files
|
| |
|
| Submission date |
Sep 30, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Helen McNeill |
| E-mail(s) |
mcneill@lunenfeld.ca
|
| Organization name |
Lunenfeld Tanenbaum Research Institute
|
| Street address |
600 University Ave.
|
| City |
Toronto |
| State/province |
Ontario |
| ZIP/Postal code |
M5G1X5 |
| Country |
Canada |
| |
|
| Platform ID |
GPL16479 |
| Series (1) |
| GSE87509 |
ChIP-seq of Atrophin in Drosophila S2 cells |
|
| Relations |
| BioSample |
SAMN05853730 |
| SRA |
SRX2200903 |
