Whole-genome sheared Drosophila melanogaster fragments were screened in ovarian somatic cells (OSCs) with STARR-seq reporters carrying the RpS12 housekeeping core promoter or the DSCP developmental core promoter. The table contains author-merged two-replicate peak calls for both promoter contexts and the derived 501-bp specificity class.
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
Not reported / not applicable
Perturbation & assay details
Basal / Untreated
Episomal plasmid STARR-seq reporter in which cloned genomic candidate fragments are assayed through their presence in self-transcribed reporter RNA. The comparison varies the RpS12/hkCP versus DSCP/dCP core-promoter sequence while screening the same whole-genome sheared-DNA source; paired-end sequencing data were processed against dm3 and author-merged across independent transfections.
Processed data
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Visible columns (17 of 17)
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Filters apply to this table only. The CSV download contains the complete processed table; filtered rows are available through the API.
Column dictionary · 17 definitions
element_id
Stable identifier composed of cell type, core promoter, chromosome, and reported summit.
core_promoter
Core-promoter sequence carried by the STARR-seq reporter.
cell_type
Drosophila cell context; OSC for this experiment.
library_scope
Genome-wide sheared-genomic-DNA library.
chromosome
dm3 chromosome or heterochromatin contig from the deposited peak call.
summit
Peak summit coordinate as reported in the GEO file.
peak_window_501bp_start
Start of the reported-coordinate +/-250-bp window used for the paper's 501-bp specificity comparison.
peak_window_501bp_end
End of the reported-coordinate +/-250-bp window used for the paper's 501-bp specificity comparison.
enrichment_over_input
Author-deposited STARR-seq enrichment over input at the peak summit.
log2_enrichment_over_input
Derived log2 of enrichment_over_input.
p_value
Author peak-call p-value from the input comparison; zero denotes underflow in the source file.
specificity_class_vs_RpS12_DSCP
For RpS12 and DSCP rows, hkCP-specific, dCP-specific, or shared using the paper's 501-bp summit-window rule; not_assessed for other promoters.
bac_id
Blank because this is the genome-wide library, not the focused BAC library.
replicate_status
Author-merged biological replicates for each promoter context.
source_accession
GEO series and sample accession provenance for the source peak file.
source_file
Relative path to the compressed source peak file in raw_data.
qc_status
Packaging QC result; all retained rows are pass.
Quality control
The authors mapped uniquely to dm3, excluded chrU/chrUextra/chrM, removed clustered or redundant fragments, called peaks against input with hypergeometric tests, and merged biological replicates. For packaging, rows were retained only when they had exactly four tab-separated fields, a chromosome-like dm3 coordinate, an integer summit >=1, finite positive enrichment, and a finite p-value in [0,1]; p=0 was retained as numerical underflow. All 11,991 deposited peak rows passed these checks and no rows were rejected; no new peak calling was performed.
Curation notes
OSC is the spontaneously immortalized Drosophila ovarian somatic cell line (Cellosaurus CVCL:IY73). DSCP data were obtained from the earlier GSE40739 STARR-seq study and reanalyzed by the paper; the compact source archive is retained in raw_data. Only the RpS12 and DSCP genome-wide peak files were deposited for OSC in the compact GSE57876 processed-data set. Derived specificity counts are 3,357 hkCP-specific, 2,909 dCP-specific, and 5,725 shared rows, matching Supplementary Table 1's reported counts.