The synthesized oligo lentiMPRA library tiled MAPT-region candidate elements and additional regions of interest in HEK293FT cells. The processed table reports MPRAnalyze activity statistics for 270 bp oligos and scrambled negative controls.
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.
The library used 270 bp genomic oligos placed every 90 bp on both forward and reverse strands, giving nominal 6X coverage; orientations were combined into one ROI for analysis. Tested regions included MAPT chr17:45771561-46100061, upstream intervals chr17:44400964-44575474 and chr17:44605938-44718798, additional multiomics-selected regions, and scrambled negative controls. DNA/RNA barcode counts were generated with MPRAflow and analyzed with MPRAnalyze in three biological replicates per cell type; this is the HEK293FT comparison condition for the same library.
Processed data
50 rows per page. Click a cell to inspect its full value.
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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 · 18 definitions
element_id
Source label for the tested oligo or scrambled control.
chromosome
Chromosome reported by the supplementary table; blank for controls without genomic coordinates.
start_hg38
Oligo start coordinate as reported in the source table; blank for coordinate-free controls.
end_hg38
Oligo end coordinate as reported in the source table; blank for coordinate-free controls.
element_length_bp
Inclusive oligo length derived as end_hg38 minus start_hg38 plus one when coordinates are available.
control
Original source control flag, where 1 denotes a scrambled negative control and 0 denotes a genomic oligo.
is_control
Boolean form of the source control flag.
sequence_class
Derived class: genomic_oligo or negative_control.
activity_statistic
MPRAnalyze activity statistic for the oligo.
z_score
MPRAnalyze z-score.
mad_score
MPRAnalyze median-absolute-deviation score used for activity assessment.
p_value_empirical
Empirical p-value for activity.
p_value_mad
P-value associated with mad_score.
p_value_zscore
P-value associated with z_score.
significant_p_value_mad_0_05
Whether p_value_mad is at most 0.05.
activity_direction
Direction inferred from the sign of mad_score.
source_table
Supplementary table from which the row was curated.
source_geo_accession
GEO series accession for this MPRA.
Quality control
The authors used MPRAflow barcode association and DNA/RNA counting followed by MPRAnalyze. Package QC retained all 7,622 of 7,622 source rows because each row had finite activity statistics and p-value fields in the expected range. Eighty-five scrambled negative-control rows have NA genomic coordinates in the source and were retained as assay-valid controls; no significance filter was applied, so non-significant genomic oligos remain available for background modeling.
Curation notes
This child represents the HEK293FT condition of the Oligo MPRA; the matched neuronal condition is separate. The 85 coordinate-free scrambled controls are retained because their MPRAnalyze results are complete; they should not be interpreted as genomic loci. The supplementary workbook and small GEO annotation files are included in raw_data, while large barcode count matrices and sequence-read archives were omitted.