The 676-member core-promoter library was assayed by scMPRA in K562 cells alone across two biological replicates. Author summaries report mean promoter activity across G1, S, and G2/M cell-cycle phases and across CD34+/CD38−, differentiated, and CD24+ substates; these related analyses are combined into one promoter-level table.
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
CVCL:0004
Reference genome
Not reported / not applicable
Design focus
Region-focused
Region of interest
Not reported / not applicable
Perturbation & assay details
Basal / Untreated
Episomal K562 transfection of the two-level cBC/rBC core-promoter library followed by 10x scRNA-seq. Cell-cycle phase was assigned from transcriptome scores; cell-state analysis regressed out cell-cycle effects and compared CD34+/CD38−, differentiated, and CD24+ clusters. The table preserves the author’s mean activity scales and adds simple phase/state log2 ratios.
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 · 30 definitions
element_id
Unique core-promoter library identifier (genomic coordinate string or synthetic control name).
sequence
DNA sequence of the tested core-promoter insert from the author library.
sequence_length
Length of sequence in nucleotides.
chromosome
Chromosome field supplied by the author library annotation; blank for synthetic controls.
start
Start coordinate supplied by the author library annotation.
end
End coordinate supplied by the author library annotation.
strand
Strand supplied by the author library annotation.
supporting_dataset
Supporting dataset label supplied by the author library annotation.
gene_id
Host gene identifier supplied by the author library annotation.
gene_name
Host gene name supplied by the author library annotation.
housekeeping_vs_developmental
Author classification of the host promoter as housekeeping (hk) or developmental (dev).
initiation_type
Author annotation of transcription-initiation type.
library_class
Author composite promoter class based on motif and housekeeping/developmental annotations.
tata_box_motif_score
TATA-box motif score from the author library annotation.
tata_box_core_promoter
Author indicator/annotation for a TATA-box core promoter.
cpg_island_core_promoter
Author indicator/annotation for a CpG-island core promoter.
tct_motif_score
TCT motif score from the author library annotation.
tct_ribosomal_core_promoter
Author indicator/annotation for a TCT/ribosomal core promoter.
initiator_motif_score
Initiator motif score from the author library annotation.
dpe_motif_score
Downstream promoter element motif score from the author library annotation.
dpe_core_promoter
Author indicator/annotation for a DPE core promoter.
sc_activity_g1
Author Supplementary Table 3 mean scMPRA activity in G1-phase K562 cells.
sc_activity_s
Author Supplementary Table 3 mean scMPRA activity in S-phase K562 cells.
sc_activity_g2m
Author Supplementary Table 3 mean scMPRA activity in G2/M-phase K562 cells.
cell_cycle_peak
Phase with the largest of the three author-reported cell-cycle mean activities.
sc_activity_cd34_positive
Author Supplementary Table 4 mean activity in the CD34+/CD38− K562 substate (sheet label: CD34+).
sc_activity_differentiated
Author Supplementary Table 4 mean activity in the differentiated K562 substate.
sc_activity_cd24_positive
Author Supplementary Table 4 mean activity in the CD24+ K562 substate.
cd34_vs_differentiated_log2_ratio
Log2 of CD34+/CD38− mean activity divided by differentiated-state mean activity.
cd34_vs_cd24_log2_ratio
Log2 of CD34+/CD38− mean activity divided by CD24+ mean activity.
Quality control
Author QC removed cells with fewer than 1000 genes or high mitochondrial counts, used a 10-read elbow threshold for high-confidence K562-only quads with Hamming rescue, and removed cells with fewer than 100 associated scMPRA UMIs. Supplementary Table 3 contains 676 complete cell-cycle profiles and Supplementary Table 4 contains 675 complete cell-state profiles; the package retains the 675-element intersection with finite values for all six summaries.
Curation notes
The CD34+ column is the paper’s shorthand for the CD34+/CD38− substate. Cell-cycle and cell-substate columns are two analyses of the same K562-only scMPRA biological experiment, not separate libraries. The author paper does not state a reference genome assembly for the coordinate labels, so reference_genome is null.