Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc937content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc937 from zemke2024Epigenetic.
Description
Labels
  • assay: 10x_Multiome
  • brain_region: hippocampus
  • cell_meta_resource_id: summary/zemke2024Epigenetic/10x_multiomics_cell_meta_data
  • data_types: fragments
  • dataset: zemke2024Epigenetic
  • individual_id: hc937
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549624
  • sample_id: hc937
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TGTTGGCCATAGGCGA-1, GTTTGTTTCTCACATT-1, ACTATCCGTACCGGAT-1, TATTGACCAGTAGCCT-1, AGAAAGGCACTGGCCA-1 (top 5 of 648255 values)
count int

count
HISTOGRAM FOR count [1, 27]
n
233,166,312
mean
2.03
sd
1.31

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 233166312
chr1 21380047
chr2 17767689
chr3 14628896
chr4 12128847
chr5 12669937
chr6 12721764
chr7 11960168
chr8 10151638
chr9 10295081
chr10 10624608
chr11 12487897
chr12 11013632
chr13 6242153
chr14 7690068
chr15 6781798
chr16 8344708
chr17 10537690
chr18 5248969
chr19 10051860
chr20 5914269
chr21 2899000
chr22 4555105
chrX 6885132
chrY 57961
GL000009.2 7489
GL000194.1 15168
GL000195.1 26378
GL000205.2 20056
GL000213.1 20
GL000218.1 3767
GL000219.1 25988
KI270711.1 3466
KI270713.1 12500
KI270721.1 364
KI270726.1 1618
KI270727.1 1316
KI270728.1 8229
KI270731.1 246
KI270734.1 790

Fragment lengths

fragments min max mean median
fragments 233166312 1 5092 208.95 170
global fragment-length histogram

Files

Filename Size md5
GSM8549624_hc937_atac_fragments.tsv.gz 2.4 GB e49855bfff41937870080fbf723aa020
GSM8549624_hc937_atac_fragments.tsv.gz.tbi 1.17 MB 1741e0f126d620bf2efddd522ea119b1
GSM8549624_hc937_atac_fragments.tsv.gz.tbi.gz 1.17 MB 5d66b0fdf90f5d11ba4d454aadd6bc89
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.43 KB 385fb349a210e90ef5a5c978ac6f62df
statistics/