Mattioli et al. 2019 — HepG2 MPRA
Comprehensive mapping of genetic variation at Epromoters reveals pleiotropic association with multiple disease traitsVariant-focused MPRA dataset compiled by Wan et al. from Mattioli et al. 2019 in HepG2. The table contains the source study's significant allelic-impact calls with source provenance and Epromoter/GWAS annotations where an rsID match was available.
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
Perturbation not reported.
The paper merges calls from published source studies; source-specific reporter constructs, sequencing depth, and allele-effect scales are heterogeneous and were not reprocessed here.
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 · 16 definitions
- variant_id
- Variant identifier as reported in the merged source dataset, including rsIDs, ssIDs, and position:allele identifiers.
- variant_class
- Identifier type inferred from the source identifier format.
- variant_coordinate
- Chromosome and position when the source identifier encoded them; blank for rsIDs/ssIDs without coordinates.
- significant_allelic_activity
- True for a variant retained by the source study's allelic-impact threshold.
- source_and_cell_lines
- Comma-separated source dataset tokens from Supplemental Table 7.
- source_dataset_count
- Number of source dataset tokens associated with the variant.
- is_epromoter_gwas_snp
- True when the variant matches the Epromoter GWAS-SNP list in Supplemental Table 5.
- epromoter_gene
- Epromoter gene annotation from Supplemental Table 5, when available.
- epromoter_chr
- Epromoter chromosome annotation from Supplemental Table 5, when available.
- epromoter_start
- Epromoter start coordinate(s) from Supplemental Table 5, when available.
- epromoter_end
- Epromoter end coordinate(s) from Supplemental Table 5, when available.
- gwas_traits
- GWAS trait annotation(s) from Supplemental Table 5, when available.
- gwas_trait_num
- Number or source value for associated GWAS traits from Supplemental Table 5.
- epromoter_mpra_source
- MPRA allelic source annotation from Supplemental Table 5; this is provenance, not a numeric effect size.
- source_tested_snp_count
- Number of tested SNPs reported for the original source dataset in Supplemental Table 7.
- source_reported_significant_count
- Number of significant SNPs reported for the original source dataset in Supplemental Table 7; it may differ from merged provenance-token row count.
Quality control
Retained only non-empty unique variant IDs carrying the exact dataset provenance token from Supplemental Table 7. The paper states that each source study's original allelic-impact threshold was applied. The source-reported tested/significant counts are retained as provenance columns; merged-list rows were not artificially dropped to force agreement because the merged resource preserves multi-source associations and harmonized source identifiers.
Curation notes
Source: Mattioli et al. 2019, HepG2; source file/reference: Table S5. Supplemental Table 7 reports 1783 tested SNPs and 331 significant allelic-impact SNPs for this dataset. The merged provenance list contains 331 rows for this token, while the source summary reports 331 significant SNPs; these values were not forced to match because the merged list preserves multi-source associations and harmonized source identifiers. The packaged rows are significant calls and provenance only; the source summary does not provide a harmonized numeric effect-size column, so no log2 fold-change is fabricated. The Epromoter/GWAS fields are annotations from Supplemental Table 5.