General Information
Name
mE_Early_Replication_Origins_cells
Species
D. melanogaster
Result type
FlyBase ID
FBlc0000188
Project
Data Provider
[modENCODE: Drosophila replication origins](http://www.modencode.org/macalpine/)
Title
Early replication origins, analysis of three cell lines (meta-peaks).
Status
Current
Accessions
Biosample Source
Overview
Strain
Stage
Sex
Tissue isolated
Other tissues studied
Cell component
Key genes
Sample preparation
Cells were grown to a density of 1.5E6 cells/ml and treated with 1mM hydroxyurea for 3 hours to stall replication forks and activate the intra-S-phase checkpoint. BrdU was added at 50ug/ml and cells were incubated for another 20 hours, resulting in labeling only of DNA sequences immediately adjacent to early activating origins of replication. Cells were frozen.
Biosamples analyzed by this result (3)
Biosample
Type
Title
D. melanogaster, Kc167 cell line, source for replication origins mapping.
D. melanogaster, ML-DmBG3-c2 cell line, source for replication origins mapping.
D. melanogaster, S2-DRSC cell line, source for replication origins mapping.
Data Analyzed
Assay
Assay methods
Key genes
Protocol
Mode of Assay
Raw Data Analyzed (3)
Assay / Reagent collection
Type
Title
Repli-chip of D. melanogaster, Kc167 cell line, source for replication origins mapping.
Repli-chip of D. melanogaster, S2-DRSC cell line, source for replication origins mapping.
Repli-chip of D. melanogaster, ML-DmBG3-c2 cell line, source for replication origins mapping.
Processed Data Analyzed (0)
Result
Type
Title
Analysis
Methods
Reference Genome
Reference Annotation
Data analysis
Quantile normalization was applied across arrays. Peaks were called with a p-value threshold of 0.001 using MA2C. The union of early activating origins of replication from all 3 cell lines was taken to generate a set of meta-peaks; each meta-peak represents a contiguous region covered by an early activating origin of replication present in at least one cell line. In total, 823 meta-peaks were called, 195 common to all three cell lines.
Comments
Associated Data
Size
Associated features
823 origin_of_replication(s)
Files
Additional Information
Synonyms and Secondary IDs (4)
Reported As
Symbol Synonym
Early_Replication_Origins_cells
early origin meta-peaks
mE_Early_Replication_Origins_cells
Name Synonyms
Early replication origins, analysis of three cell lines (meta-peaks).
Secondary FlyBase IDs
    References (3)