Genome-wide STARR-seq enhancer activity across six Lasioglossum albipes populations
Repeated Shifts in Sociality Are Associated With Fine-tuning of Highly Conserved and Lineage-Specific Enhancers in a Socially Flexible BeeA genome-wide episomal STARR-seq assay tested Covaris-sheared Lasioglossum albipes genomic DNA libraries from three social and three solitary populations in Drosophila S2-DRSC cells. Three independent transfection flasks were assayed per population, producing 18 matched plasmid-input DNA and plasmid-derived RNA libraries; enhancer activity was analyzed as normalized RNA relative to DNA input.
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
Basal / Untreated
Episomal pSTARR-seq_fly reporter plasmid with 450–750 bp genomic DNA inserts; the insert is transcribed from the reporter and plasmid-derived mRNA is isolated using a synthetic-intron junction PCR. Libraries were transfected into Drosophila melanogaster S2-DRSC cells (DGRC stock 181; source Cellosaurus accession CVCL_Z992) and sequenced as 2 × 50 nt paired-end NovaSeq libraries. The six population conditions are AIL, RIM, and WIM (social) and ANO, TOM, and VEN (solitary).
Processed data
50 rows per page. Click a cell to inspect its full value.
Visible columns (23 of 23)
| Row | |||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | |||||||||||||||||||||||
| 2 | |||||||||||||||||||||||
| 3 | |||||||||||||||||||||||
| 4 | |||||||||||||||||||||||
| 5 | |||||||||||||||||||||||
| 6 | |||||||||||||||||||||||
| 7 | |||||||||||||||||||||||
| 8 | |||||||||||||||||||||||
| 9 | |||||||||||||||||||||||
| 10 | |||||||||||||||||||||||
| 11 | |||||||||||||||||||||||
| 12 | |||||||||||||||||||||||
| 13 | |||||||||||||||||||||||
| 14 | |||||||||||||||||||||||
| 15 | |||||||||||||||||||||||
| 16 | |||||||||||||||||||||||
| 17 | |||||||||||||||||||||||
| 18 | |||||||||||||||||||||||
| 19 | |||||||||||||||||||||||
| 20 | |||||||||||||||||||||||
| 21 | |||||||||||||||||||||||
| 22 | |||||||||||||||||||||||
| 23 | |||||||||||||||||||||||
| 24 | |||||||||||||||||||||||
| 25 | |||||||||||||||||||||||
| 26 | |||||||||||||||||||||||
| 27 | |||||||||||||||||||||||
| 28 | |||||||||||||||||||||||
| 29 | |||||||||||||||||||||||
| 30 | |||||||||||||||||||||||
| 31 | |||||||||||||||||||||||
| 32 | |||||||||||||||||||||||
| 33 | |||||||||||||||||||||||
| 34 | |||||||||||||||||||||||
| 35 | |||||||||||||||||||||||
| 36 | |||||||||||||||||||||||
| 37 | |||||||||||||||||||||||
| 38 | |||||||||||||||||||||||
| 39 | |||||||||||||||||||||||
| 40 | |||||||||||||||||||||||
| 41 | |||||||||||||||||||||||
| 42 | |||||||||||||||||||||||
| 43 | |||||||||||||||||||||||
| 44 | |||||||||||||||||||||||
| 45 | |||||||||||||||||||||||
| 46 | |||||||||||||||||||||||
| 47 | |||||||||||||||||||||||
| 48 | |||||||||||||||||||||||
| 49 | |||||||||||||||||||||||
| 50 |
Filters apply to this table only. The CSV download contains the complete processed table; filtered rows are available through the API.
Column dictionary · 23 definitions
- enhancer_id
- Stable peak identifier parsed from the source Parent=peakN field.
- source_peak
- Original peak identifier from the published enhancer map.
- chromosome
- L. albipes v3 source contig/chromosome name.
- start
- Published start coordinate for the consensus enhancer region.
- end
- Published end coordinate for the consensus enhancer region.
- length_bp
- Region length calculated as end minus start from the source coordinates.
- priority_feature
- Highest-priority annotated genomic feature assigned by the authors.
- priority_gene
- Strict-priority proximal L. albipes gene identifier; blank when unannotated.
- all_genes
- Lenient proximal L. albipes gene identifiers from the source annotation.
- ortholog_protein
- Drosophila ortholog protein identifier, when available.
- ortholog_name
- Drosophila ortholog gene name, when available.
- ortholog_symbol
- Drosophila ortholog gene symbol, when available.
- dae_status
- Published differential-enhancer direction: social-biased, solitary-biased, or not_dae.
- dae_interaction_effect
- Published sociality × library interaction effect (int_effect) for a DAE.
- dae_qvalue
- Published q-value (int_qval) for the differential-enhancer interaction.
- eqtl_all_snp_count
- Number of all public enhancer–SNP association rows for this peak.
- eqtl_sig_snp_count_fdr_lt_0_10
- Number of enhancer–SNP rows with repository uni_fdr < 0.10, the published eQTL threshold.
- eqtl_sig_snp_count_fdr_lt_0_05
- Number of enhancer–SNP rows with repository uni_fdr < 0.05.
- eqtl_best_fdr
- Smallest repository uni_fdr among enhancer–SNP rows for this peak; blank when none pass 0.10.
- eqtl_top_snp
- SNP string for the enhancer–SNP row with the smallest uni_fdr; format is contig:position:ref,alt.
- eqtl_top_pvalue
- Nominal MatrixEQTL p-value for eqtl_top_snp.
- eqtl_top_beta
- MatrixEQTL beta for eqtl_top_snp.
- eqtl_top_statistic
- MatrixEQTL association statistic for eqtl_top_snp.
Quality control
Study QC used fastp with default quality/adaptor processing, bwa mem alignment, and samtools sorting. MACS2 was run separately for each flask with matched input DNA controls (-f BAMPE, -g 3.44e8, --keep-dup all, -q 0.05); the consensus set retained peaks detected in at least 2 of 18 flasks and no longer than 10 kb, yielding 36,216 regions. Mean within-population replicate correlations were 92.8% for input genomic coverage and 90.3% for STARR RNA; input libraries had 97.5% of sampled bases covered at >=10 reads and 93.3% at >=20 reads. Differential activity used limma/variancePartition Dream with a sociality × library interaction and population and sequencing batch as random effects; DAE calls used q < 0.05. The processed table retains all 36,216 consensus regions, joins only the 1,182 DAE rows with q < 0.05, and summarizes the complete public eQTL output using the repository's published FDR < 0.10 criterion (7,608 significant SNP–enhancer pairs in 4,071 enhancers); FDR < 0.05 counts are also included.
Curation notes
This single study-level experiment represents one genome-wide STARR-seq assay with six population library conditions and three biological flask replicates per population. The tested sequence organism is L. albipes, while the reporter host is D. melanogaster S2-DRSC. The article describes per-replicate normalized STARR RNA/DNA log2 activity scores, but the public repository does not provide the full per-replicate activity matrix; the table therefore preserves the complete published consensus enhancer map, published DAE interaction statistics, and enhancer-level summaries of the complete 342,829-row eQTL output. Coordinates and peak names are retained in the repository's LALB_v3 conventions. The source DAE file contains 1,192 rows, including 10 rows marked not_tested/NA; those 10 are not called DAEs and are represented as not_dae in the table.