Genomic DNA from D. melanogaster, D. yakuba, and D. ananassae was screened in D. melanogaster ovarian somatic cells (OSCs), a common trans-regulatory environment. The table contains the study's combined two-biological-replicate enhancer peak calls after translation to dm3-compatible coordinates.
Processed tables are specific to each experiment. Column names, units, measurements, and table structure are not standardized across the database. Check this experiment’s column definitions and quality-control notes before comparing or combining data.
Organism
Fruit fly
Taxonomy ID
NCBITaxon:7227
Biosample
CVCL:IY73
Reference genome
dm3
Design focus
Region-focused
Region of interest
Unbiased whole-genome assay (*)
Perturbation & assay details
Basal / Untreated
Episomal self-transcribing enhancer assay using randomly sheared genomic fragments cloned downstream of a minimal promoter. Paired-end STARR-seq cDNA and input reads were mapped to each source-species assembly, PCR/redundancy-filtered, and species-specific fragments were lifted to the dm3 coordinate system; enhancer activity is reported as cDNA/input enrichment at the peak summit.
Processed data
50 rows per page. Click a cell to inspect its full value.
Visible columns (12 of 12)
Row
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
Page 1 · 50 rows · More results available
Filters apply to this table only. The CSV download contains the complete processed table; filtered rows are available through the API.
Column dictionary · 12 definitions
element_id
Unique row identifier derived from cell type, species code, and source peak rank.
cell_type
STARR-seq assay context; OSC for ovarian somatic cells.
species
Drosophila species from which the genomic DNA/library fragments were sourced.
species_code
Study shorthand for the source species (Dmel, Dyak, or Dana).
reference_genome
Common coordinate system used for the table after species-specific fragments were lifted to dm3.
chromosome
Chromosome name in the dm3-compatible coordinate system.
summit_position
STARR-seq peak summit coordinate reported by the source peak file.
enrichment_over_input
Fold enrichment of STARR-seq cDNA fragment density over input at the peak summit.
p_value
Peak-call P value reported by the study.
peak_call_set
Peak call generated from the combined biological replicates.
source_peak_file
Path of the source combined peak file within Supplementary_Data_Set_1.zip.
source_peak_rank
1-based row order of the peak in its source combined peak file.
Quality control
The study trimmed paired-end reads to 36 bp, mapped them with Bowtie to the relevant species assembly, collapsed PCR duplicates by identical fragment coordinates/strand, applied an additional redundancy filter for clustered sequence artifacts, and retained uniquely liftable fragments whose lifted length was 10–200% of the original. Peaks were called at enrichment >=3-fold over input and P <=0.001 (reported FDR <0.1%); two independent biological replicates were assessed for reproducibility. The processed table retains only rows from the combined peak-call files meeting those study thresholds; no source peak rows were removed.
Curation notes
OSCs are a D. melanogaster ovarian-derived immortalized line (Cellosaurus CVCL:IY73). The downloadable combined files contain 3,341 Dmel, 3,233 Dyak, and 2,859 Dana rows; the paper's Supplementary Table 1 reports 3,342, 3,233, and 2,859, respectively. The table preserves the downloadable file contents and uses the reported dm3-compatible coordinates. The accompanying RNA-seq follicle-cell data are not included in this MPRA table because they are an orthogonal validation readout.