Focused BAC STAP-seq zfh1 eTSS mapping in Drosophila S2 cells
Genome-wide assessment of sequence-intrinsic enhancer responsiveness at single-base-pair resolutionA reduced-complexity library made from 34 BACs covering approximately 5% of the Drosophila genome was tested in S2 cells with the zfh1 developmental enhancer. The packaged table contains the authors' published focused-library eTSS coordinate calls after their mapping, UMI-collapsing, focused-region, replicate, and eTSS selection procedures.
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
Defined zfh1 developmental enhancer in a focused BAC library; enhancerless control library used for basal comparison
Focused STAP-seq used sonicated BAC DNA fragments in the same pGL3-derived reporter architecture as the genome-wide screen. The study performed three focused zfh1 S2 replicates and a focused enhancerless control; the linked compact result file is a coordinate-only eTSS call set, not a per-position count matrix.
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 · 6 definitions
- element_id
- Author-assigned focused-library eTSS identifier (TSS_num).
- chromosome
- Drosophila dm3 chromosome or chromosome arm for the eTSS.
- start
- 0-based inclusive genomic start coordinate from the author-supplied BED-like file.
- end
- 0-based exclusive genomic end coordinate; one base for the called +1 position.
- tss_position_1based
- 1-based genomic coordinate corresponding to the called transcription-initiation position.
- strand
- Strand of the reporter transcription-initiation event.
Quality control
The authors subsampled focused reads to 700,000 before mapping, removed fragments outside the BAC intervals, collapsed UMI duplicates, and reported three focused zfh1 S2 replicates with pairwise PCC ≥ 0.97. The included source call set is already filtered to published eTSS positions; malformed or non-single-base coordinate records were excluded during packaging. The file did not include quantitative count columns, so no count-based threshold was independently reapplied.
Curation notes
The focused zfh1 file contains 387 published eTSS coordinate rows but no induced/control tag counts or responsiveness values. It is retained as a useful positional result and explicitly labeled as coordinate-only. The paper also screened the focused BAC library with sgl, ham, ncm, ssp3, and tj enhancers, but no compact per-position result tables for those screens were linked; their sequencing data and QC summary remain represented in the raw-data manifest and source links rather than by fabricated child tables. S2 denotes Schneider 2 (Cellosaurus CVCL_Z232).