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| Status |
Public on Jul 29, 2009 |
| Title |
ML-DmBG3-c2 Replication Origins |
| Project |
modENCODE
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| Organism |
Drosophila melanogaster |
| Experiment type |
Other
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| Summary |
modENCODE_submission_711
This submission comes from a modENCODE project of David MacAlpine. For full list of modENCODE projects, see http://www.genome.gov/26524648
Project Goal: Early origins of replication were identified by treating cells with hydroxyurea (HU), a potent inhibitor of nucleotide synthesis, in the presence of the nucleotide analogue BrdU. Treatment of synchronized ML-DmBG3-c2 cells with HU stalls replication forks and activates the intra S-phase checkpoint, thereby limiting BrdU incorporation to those sequences mmediately adjacent to early activating replication origins. BrdU enriched sequences surrounding early origins of replication are then enriched by immunoprecipitation with an anti-BrdU antibody. Early origins are then detected by hybridization to Agilent genomic tiling arrays. Peaks are called using MA2C (http://liulab.dfci.harvard.edu/MA2C/MA2C.htm)
Keywords: CHIP-chip
For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf
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| Overall design |
EXPERIMENT TYPE: CHIP-chip. BIOLOGICAL SOURCE: Cell Line: ML-DmBG3-c2; Tissue: CNS-derived cell-line; Genotype: y v f mal; Sex: Unknown NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: Cell Line ML-DmBG3-c2
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| Web link |
http://www.ncbi.nlm.nih.gov/projects/geo/info/ENCODE.html
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| Contributor(s) |
MacAlpine D, MacAlpine H, DeNapoli L |
| Citation(s) |
21177973 |
| BioProject |
PRJNA63463 |
| |
| Submission date |
Jul 23, 2009 |
| Last update date |
Aug 31, 2012 |
| Contact name |
DCC modENCODE |
| E-mail(s) |
help@modencode.org
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| Phone |
416-673-8579
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| Organization name |
Ontario Institute for Cancer Research
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| Lab |
modENCODE DCC
|
| Street address |
MaRS Centre, South Tower, 101 College Street, Suite 800
|
| City |
Toronto |
| State/province |
Ontario |
| ZIP/Postal code |
M5G 0A3 |
| Country |
Canada |
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| Platforms (1) |
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| Samples (3) |
| GSM432732 |
ML-DmBG3-c2-R1 extraction1_array1_origin |
| GSM432733 |
ML-DmBG3-c2-R2 extraction2_array1_origin |
| GSM432734 |
ML-DmBG3-c2-R3 extraction3_array1_origin |
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