Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc1153content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc1153 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: hc1153
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549641
  • sample_id: hc1153
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CTAAAGCTCAAGCCTG-1, TTTCTCACACAGGAAT-1, GGTTCCCGTAACCTAG-1, TACTGGCCATGGAGGC-1, TCAGTGAGTGAATCGC-1 (top 5 of 420230 values)
count int

count
HISTOGRAM FOR count [1, 21]
n
89,818,232
mean
2.08
sd
1.33

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 89818232
chr1 8389492
chr2 6828628
chr3 5498007
chr4 4200412
chr5 4725072
chr6 4747242
chr7 4590104
chr8 3806193
chr9 4107727
chr10 4216050
chr11 4966106
chr12 4233259
chr13 2257478
chr14 2952577
chr15 2817155
chr16 3385302
chr17 4423204
chr18 1938591
chr19 4045596
chr20 2414504
chr21 1068551
chr22 1992152
chrX 2162268
chrY 8596
GL000009.2 858
GL000194.1 5165
GL000195.1 8129
GL000205.2 6905
GL000213.1 54
GL000218.1 4322
GL000219.1 12150
KI270711.1 735
KI270713.1 3161
KI270721.1 114
KI270726.1 83
KI270727.1 290
KI270728.1 993
KI270731.1 155
KI270734.1 852

Fragment lengths

fragments min max mean median
fragments 89818232 1 5063 202.39 178
global fragment-length histogram

Files

Filename Size md5
GSM8549641_hc1153_atac_fragments.tsv.gz 945.22 MB 1dbdf163b5cf4822b1fd317ddd7c83e3
GSM8549641_hc1153_atac_fragments.tsv.gz.tbi 746.36 KB 172273ca2d07caf1ce072fdc24b90d5e
GSM8549641_hc1153_atac_fragments.tsv.gz.tbi.gz 745.21 KB 3d8330baabaa1b1eb228fdafb95c43bf
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB d93e5adedba73fe903ced439e12b8f65
statistics/