A captured mouse DNase-I hypersensitive-region library was assayed with CapStarr-seq in the P5424 mouse lymphoma cell line. The table reports the source activity class for each assayed region.
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
Mouse
Taxonomy ID
NCBITaxon:10090
Biosample
CVCL:WG84
Reference genome
mm9
Design focus
Region-focused
Region of interest
Not reported / not applicable
Perturbation & assay details
Basal / Untreated
Capture-enriched STARR-seq in an episomal mammalian STARR-seq reporter vector. The underlying mouse series used input/plasmid controls, poly(A)+ reporter RNA and plasmid-DNA recovery, and normalized sequencing signal; this condition is the P5424 activity column from Supplementary Table 1.
Processed data
50 rows per page. Click a cell to inspect its full value.
Visible columns (9 of 9)
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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 · 9 definitions
element_id
Source genomic interval in chromosome:start-end form
chromosome
Mouse chromosome from the source interval
start_mm9
Interval start coordinate from the source mm9 table
end_mm9
Interval end coordinate from the source mm9 table
element_length_bp
End minus start in base pairs
associated_genes
Genes associated with the assayed region in the source table
distance_to_nearest_tss_bp
Source distance to the nearest transcription start site; blank when the source cell was #REF!
activity_class
P5424 CapStarr-seq activity class: Inactive, weak, or strong
qc_pass
TRUE for rows passing the package QC filters
Quality control
Rows were retained only when chromosome was present, start and end were finite integers with end greater than start, and the P5424 activity label was one of Inactive, weak, or strong. All 7,151 source rows passed this structural/activity QC. Source distance cells containing Excel #REF! errors were retained as blank because the assayed region itself remains valid.
Curation notes
P5424 is represented by Cellosaurus CVCL:WG84. The supplementary methods describe 7,542 captured mouse regions, while the packaged activity workbook contains 7,151 rows; this table uses the available rows in that workbook. The mouse assay is linked to the underlying/related GEO series GSE60029 (sample accessions GSM1463992 and GSM1463993 are P5424 replicates). Activity labels were normalized by trimming source whitespace. This is a regulatory activity screen, not a variant/allele assay.