A lentiviral MPRA tested 1,904 candidate cis-regulatory sequences selected from IL-13-responsive H3K27ac peaks in primary human bronchial epithelial cells from two donors. Cells were cultured at an air-liquid interface with or without IL-13, and the table reports pooled and donor-level RNA/DNA activity measurements and the authors' IL-13 response calls.
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
CL:0002328
Reference genome
GRCh38
Design focus
Region-focused
Region of interest
Not reported / not applicable
Perturbation & assay details
Untreated versus 10 ng/mL IL-13 added for the final 7 days of 23-day air-liquid-interface culture
A 230-nt oligo library contained 200-nt candidate sequences flanked by 15-nt primer-recognition sequences. Inserts were cloned upstream of a minimal promoter driving an eGFP reporter transcript with a barcode in a lentiviral reporter vector; approximately 50 barcodes per sequence were targeted and at least 30 barcodes per sequence were associated for analysis. 250,000 cells from each of two donors were transduced at multiplicity of infection 4, cultured at air-liquid interface for 23 days, and harvested with or without IL-13. MPRAflow produced pooled and donor-level RNA/DNA activity values, the IL-13/untreated fold change, and FDR-adjusted response statistics.
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
crs_id
Candidate cis-regulatory-sequence identifier from Table S11.
chromosome
Chromosome reported for the candidate sequence.
start_hg38
Reported hg38 start coordinate.
stop_hg38
Reported hg38 stop coordinate; the source sequence spans this inclusive interval.
interval_hg38
Convenience representation of the reported coordinate interval as chromosome:start-stop.
sequence
Source candidate DNA sequence, represented in lowercase.
sequence_length_bp
Length of the source candidate sequence in bases.
untreated_rna_dna
Pooled untreated reporter-RNA/plasmid-DNA activity ratio.
il13_rna_dna
Pooled IL-13-treated reporter-RNA/plasmid-DNA activity ratio.
il13_untreated_fold_change
Pooled IL-13/untreated activity fold change reported by Table S11.
fdr
FDR-adjusted p value for the pooled IL-13 response.
donor1_untreated_rna_dna
Untreated reporter-RNA/plasmid-DNA activity ratio for donor 1.
donor2_untreated_rna_dna
Untreated reporter-RNA/plasmid-DNA activity ratio for donor 2.
donor1_il13_rna_dna
IL-13-treated reporter-RNA/plasmid-DNA activity ratio for donor 1.
donor2_il13_rna_dna
IL-13-treated reporter-RNA/plasmid-DNA activity ratio for donor 2.
published_il13_response
Readable mapping of the source IL13_induced_repressed code: i=induced, r=repressed, n=not_called.
individually_tested
Source y/n flag indicating whether the CRS was selected for individual reporter validation.
Quality control
The published MPRAflow workflow filtered barcode associations for NM=0, mapping quality >0, and base quality >30, then required barcode coverage >3 and unique mapping to the enhancer sequence. Two donors were analyzed with at least 30 barcodes per sequence; donor concordance was R=0.87 for untreated and R=0.88 for IL-13, so the authors pooled the data. P values were FDR-adjusted. This package additionally required finite pooled and donor-level quantitative values, valid coordinates, and a sequence length matching the reported coordinate span; 1,898/1,904 rows passed. CRS IDs 146, 725, 792, 1067, 1780, and 1784 were excluded because at least one quantitative field contained NA or #N/A. Valid elements without a published response call were retained.
Curation notes
The source Table S11 contains 1,904 candidate CRS rows; its control sequences described in the methods are not included as separate rows in this workbook and were not reconstructed. The source reports 201-base sequences with inclusive start/stop coordinates. The processed table preserves the authors' pooled and donor-level values and maps their i/r/n response code to readable labels; it does not turn statistically non-called rows into negative findings.