Dual-luciferase validation of six STARR-seq candidate enhancers
Influence of genetic polymorphism on transcriptional enhancer activity in the malaria vector Anopheles coluzziiEach candidate interval was cloned into an episomal pGL-Gateway-DSCP firefly-luciferase reporter and co-transfected with pRL-ubi-63E Renilla control in A. coluzzii 4a3A cells. Activity was normalized to the DLX negative-control construct.
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.
Perturbation & assay details
Basal / Untreated; 24 h after reporter transfection
96-well assay with 1 × 10^5 4a3A cells per well; six-fold replication within a plate across at least two independent plates; values were corrected by Renilla and normalized to the same-plate DLX mean.
Episomal dual-luciferase reporter validation: candidate insert in pGL-Gateway-DSCP drives firefly luciferase, pRL-ubi-63E provides a Renilla internal control, and the readout is normalized firefly/Renilla RLU rather than barcode counts; this is not a barcode-count MPRA.
Processed data
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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
- Paper element identifier.
- proximal_gene
- Nearest annotated gene used to name the candidate enhancer.
- gene_id
- Gene identifier reported in Table 1.
- chromosome
- Chromosome arm in PEST AgamP4 coordinates.
- coordinate_start
- 1-based inclusive interval start from Table 1.
- coordinate_end
- 1-based inclusive interval end from Table 1.
- interval_length_bp
- Inclusive interval length calculated from the published coordinates.
- construct_label
- Candidate construct tested in the luciferase validation panel.
- reporter_vector
- Firefly reporter and Renilla internal-control plasmids.
- cell_line
- Reporter-assay cell line and Cellosaurus identifier.
- activity_measure
- Paper’s within-well Renilla-corrected firefly activity normalized to DLX background.
- relative_luciferase_activity_median_approx
- Approximate median relative luciferase activity digitized from the Figure 2 median bar; not a machine-readable source value.
- n_measurements
- Plotted well measurements; methods report six-fold replication across at least two plates, yielding at least 12 measurements.
- p_value_vs_DLX
- Paper-reported significance threshold for each candidate versus DLX background.
- above_DLX_background
- Paper’s candidate-level above-background call.
- source_figure
- Publication figure supporting the measurement.
- qc_pass
- Retained because the paper reports p < 0.005 versus DLX for all six candidates and at least 12 wells per condition.
Quality control
Applied the paper’s QC: within-well Renilla correction, DLX background normalization, at least 12 measurements per candidate, and non-parametric comparison to DLX. All six candidate constructs passed the reported p < 0.005 threshold.
Curation notes
The paper publishes these values only as plotted points/median bars. Values in the activity column are approximate digitizations from the publisher Figure 2 PNG retained in raw_data; they should not be treated as exact raw RLU values.