Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc73787content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc73787 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: hc73787
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549636
  • sample_id: hc73787
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TGAAGCAAGGCTACTG-1, TTACGTTTCAAGTGAG-1, ATATGTCCAGATTCAT-1, GTGCTCAAGCACTAAC-1, GCAAGTGCAGGAACTG-1 (top 5 of 635607 values)
count int

count
HISTOGRAM FOR count [1, 60]
n
266,959,689
mean
1.88
sd
1.18

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 266959689
chr1 22598134
chr2 21528105
chr3 18462173
chr4 16495616
chr5 16173226
chr6 15568896
chr7 14587121
chr8 13552089
chr9 11292499
chr10 12297164
chr11 13850404
chr12 13160662
chr13 8306277
chr14 8913433
chr15 7039984
chr16 7956355
chr17 9061236
chr18 7025746
chr19 7759633
chr20 6151758
chr21 3473474
chr22 4261090
chrX 6649185
chrY 667504
GL000009.2 12938
GL000194.1 6968
GL000195.1 21181
GL000205.2 23235
GL000213.1 498
GL000218.1 14175
GL000219.1 21436
KI270711.1 2070
KI270713.1 6098
KI270721.1 514
KI270726.1 1135
KI270727.1 1544
KI270728.1 13165
KI270731.1 212
KI270734.1 2756

Fragment lengths

fragments min max mean median
fragments 266959689 1 5095 228.12 186
global fragment-length histogram

Files

Filename Size md5
GSM8549636_hc73787_atac_fragments.tsv.gz 2.82 GB 9130b72ac9cf4b2d66ed7b4532dcf9d5
GSM8549636_hc73787_atac_fragments.tsv.gz.tbi 1.29 MB c0daad61c6848e0f92a8e01ec3d0252c
GSM8549636_hc73787_atac_fragments.tsv.gz.tbi.gz 1.28 MB bd1fc616124216c94dde852cee512d2a
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB f5afe822b283d17ebb3584b9ea9e7b79
statistics/