Experiment / E51T9K83GSingle-Cell MPRA (scMPRA / sc-lentiMPRA)

Human promoter benchmark across three cell lines with bulk MPRA and scQers

Multiplex profiling of developmental cis-regulatory elements with quantitative single-cell expression reporters

Five promoter constructs (noP, minP, UBCp, Pgk1p and EEF1A1p) were tested with barcode-linked reporters in HEK293T, HepG2 and K562. The table retains matched author-provided bulk RNA/DNA activity and single-cell reporter activity at the mBC/oBC level.

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: Not reported / not applicable
Reference genome: Not reported / not applicable
Design focus: Other
Region of interest: Not reported / not applicable

Perturbation & assay details

Basal / Untreated

PiggyBac-mediated random genomic integration was used for dual RNA cassette reporters. The Pol III Tornado oBC supports reporter detection and the Pol II mBC reports promoter activity; the source table combines bulk MPRA RNA/DNA activity with scQer normalized mBC UMI activity across three human cell lines.

Processed data

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

Visible columns (12 of 12)

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Page 1 · 50 rows · More results available

Filters apply to this table only. The CSV download contains the complete processed table; filtered rows are available through the API.

Column dictionary · 12 definitions

element_id: Promoter construct identifier.
element_class: Regulatory element class; all rows are promoter constructs.
promoter_id: Promoter identifier used by the study.
cell_line: Human cell line; Hek293 was normalized to HEK293T.
biological_replicate: Biological replicate identifier from the source data.
reporter_barcode: mBC sequence identifying the Pol II reporter transcript.
detection_barcode: oBC sequence identifying reporter integration/detection in single cells.
bulk_activity_rna_dna: Author-provided bulk MPRA normalized RNA/DNA activity.
single_cell_activity_norm_mBC_umi: Author-provided mean single-cell normalized mBC UMI activity.
single_cell_cells: Number of single cells contributing to the activity estimate.
qc_pass: TRUE for rows passing the ingestion QC filters.
source_table: Supplementary source table used to create the row.

Quality control

The paper's high-confidence source-data rows were retained only when bulk activity and scQer activity were finite and at least 5 single-cell observations were available. Fourteen rows lacking bulk activity were excluded; the source table already applied the authors' barcode representation and reporter-detection filters.

Curation notes

The raw GSE217680 promoter count matrix is included in raw_data/geo. This processed table uses the matched source-data rows from MOESM21 so bulk and single-cell measurements remain directly aligned.

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