Experiment / E4WGL9FC4Episomal Plasmid MPRA

SOLARR-seq enhancer-only validation library

Dual promoter–enhancer activities reflect a unified regulatory logic

SOLARR-seq used a QUASARR-derived plasmid configuration to measure intrinsic enhancer activity for the regulatory-element collection without the downstream promoter/paBC reporter. The table contains orientation-level enhancer measurements with three DNA and three RNA biological replicates plus source activity-call statistics.

Download processed table (CSV)Raw source data API documentation

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: Human
Taxonomy ID: NCBITaxon:9606
Biosample: CVCL:0004
Reference genome: GRCh38
Design focus: Region-focused
Region of interest: Not reported / not applicable

Perturbation & assay details

Basal / Untreated

SOLARR-seq is the enhancer-only derivative of the QUASARR-seq plasmid assay. Candidate TREs are assayed upstream of the reporter and enhancer barcode, with early polyadenylation sites downstream of the TRE to reduce read-through; no promoter paBC/egfp readout is included. The source workbook reports three DNA and three RNA biological replicates, with enhancer activity modeled from eaBC RNA/DNA abundance and source aggregate activity calls.

Processed data

50 rows per page. Click a cell to inspect its full value.

Visible columns (35 of 35)

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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 · 35 definitions

element_id: Unique source element identifier including strand orientation.
base_element_id: Orientation-free source element identifier.
orientation: Element orientation in the reporter construct (fwd or rev).
construct_type: Package classification of the source construct, such as candidate_TRE, variant, control, or positive_control.
mutation: Allele or mutation notation from the source mutation annotation; blank for non-variant constructs.
mutation_category: Source mutation category; blank for non-variant constructs.
chromosome: GRCh38 chromosome for the annotated genomic element.
start: GRCh38 start coordinate of the annotated element.
end: GRCh38 end coordinate of the annotated element.
reference_sequence: Reference or parent sequence used for the construct.
sequence_length: Reference sequence length in base pairs.
gc_content_percent: GC percentage calculated from reference_sequence.
gencode_distance_class: Source GENCODE proximity class (for example, Proximal or Distal).
procap_class: Source PRO-cap transcription class (Transcribed or Untranscribed where available).
protein_coding_status: Source annotation indicating overlap with protein-coding GENCODE elements.
lncRNA_status: Source annotation indicating overlap with lncRNA GENCODE elements.
procap_count: Source PRO-cap signal/count for the element.
enhancer_dna_normalized_rep1: Normalized eaBC DNA input abundance for enhancer replicate 1.
enhancer_dna_normalized_rep2: Normalized eaBC DNA input abundance for enhancer replicate 2.
enhancer_dna_normalized_rep3: Normalized eaBC DNA input abundance for enhancer replicate 3.
enhancer_rna_normalized_rep1: Normalized eaBC RNA abundance for enhancer replicate 1.
enhancer_rna_normalized_rep2: Normalized eaBC RNA abundance for enhancer replicate 2.
enhancer_rna_normalized_rep3: Normalized eaBC RNA abundance for enhancer replicate 3.
enhancer_log2_fold_change: Limma log2 fold-change activity estimate for enhancer eaBC RNA relative to DNA input.
enhancer_average_expression: Limma average-expression statistic for enhancer activity.
enhancer_t_statistic: Moderated limma t statistic for enhancer activity.
enhancer_p_value: Raw limma P value for enhancer activity.
enhancer_fdr: Benjamini-Hochberg adjusted limma P value for enhancer activity.
enhancer_log_odds: Limma B statistic (log-odds of differential activity) for enhancer activity.
enhancer_activity: Source aggregate enhancer activity score from the SOLARR call analysis.
enhancer_activity_z_score: Source aggregate enhancer activity Z score.
enhancer_activity_call: Source aggregate enhancer activity call (active or inactive), when available.
enhancer_call_z_score: Orientation-specific enhancer activity Z score from the source call analysis.
enhancer_call_q_value: Multiple-testing-adjusted Q value from the source enhancer activity call analysis.
source_data: Provenance of the SOLARR logFC and activity-call measurements and annotations.

Quality control

The authors' barcode preprocessing, UMI correction, negative-control calibration, and limma-based activity workflow was retained. Package QC retained 2,982 of 3,182 source element-orientation rows after requiring finite enhancer normalized DNA/RNA values across all three replicates, finite limma logFC/AveExpr/t/P.Value/adj.P.Val/B statistics, positive normalized DNA/RNA values, and P.Value and adj.P.Val in [0,1]. Rows with invalid or incomplete raw measurements were excluded. Source activity-call fields were retained when present; a missing aggregate call does not invalidate an otherwise complete raw activity row.

Curation notes

This experiment has enhancer measurements only; promoter columns are not applicable. The source workbook contains aggregate SOLARR activity and Z-score fields, while the logFC sheet contains orientation-level limma statistics. No negative-control-normalized boost index was added because the publisher's SOLARR source call sheet does not provide a directly corresponding boost field.

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