Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc1134content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc1134 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: hc1134
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549625
  • sample_id: hc1134
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TGCCATTGTCCCGGAA-1, CTTCAATTCTCTAGCC-1, TCGCATTGTCATGCAA-1, AAATGCCTCTTAATGG-1, CATAGACTCCTAAATG-1 (top 5 of 658473 values)
count int

count
HISTOGRAM FOR count [1, 24]
n
125,068,053
mean
1.96
sd
1.26

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 125068053
chr1 11663463
chr2 9527158
chr3 7684266
chr4 5832801
chr5 6577390
chr6 6541446
chr7 6438905
chr8 5286641
chr9 5575100
chr10 5847872
chr11 6736688
chr12 5959766
chr13 3196412
chr14 4114455
chr15 3862464
chr16 4863909
chr17 6174424
chr18 2696298
chr19 6005368
chr20 3391412
chr21 1545618
chr22 2757987
chrX 2554470
chrY 182689
GL000009.2 2465
GL000194.1 4161
GL000195.1 6306
GL000205.2 10148
GL000213.1 184
GL000218.1 3443
GL000219.1 9374
KI270711.1 1454
KI270713.1 8879
KI270721.1 260
KI270726.1 219
KI270727.1 843
KI270728.1 2172
KI270731.1 287
KI270734.1 856

Fragment lengths

fragments min max mean median
fragments 125068053 1 5092 193.59 164
global fragment-length histogram

Files

Filename Size md5
GSM8549625_hc1134_atac_fragments.tsv.gz 1.29 GB 627ecc9e00acfb68d7add8949ddccf28
GSM8549625_hc1134_atac_fragments.tsv.gz.tbi 854.75 KB 7d742806241f9d6885f817f2c26c7389
GSM8549625_hc1134_atac_fragments.tsv.gz.tbi.gz 854.0 KB 2ef785d72b3365ab15c6cbf08939d4e1
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB 402fdf9fc1457d6716e2d2d0ac345cb6
statistics/