Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc46426content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc46426 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: hc46426
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549637
  • sample_id: hc46426
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TCGTGCTTCGCAGGCT-1, GCCTTAGAGGGTGAAC-1, GATGGCTGTGCTAGCG-1, AGGACTAAGCGAGGTG-1, ATCGGCCAGTGGCGGA-1 (top 5 of 681941 values)
count int

count
HISTOGRAM FOR count [1, 29]
n
241,322,688
mean
1.92
sd
1.22

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 241322688
chr1 23415311
chr2 17879116
chr3 13988994
chr4 10094063
chr5 11845216
chr6 12467135
chr7 12039427
chr8 9222603
chr9 11307037
chr10 11362652
chr11 13576675
chr12 11083264
chr13 5537415
chr14 7962487
chr15 7700225
chr16 10035545
chr17 13322900
chr18 4765172
chr19 13549043
chr20 6658834
chr21 2864324
chr22 5811555
chrX 4489520
chrY 237944
GL000009.2 2869
GL000194.1 6639
GL000195.1 30927
GL000205.2 18457
GL000213.1 126
GL000218.1 11497
GL000219.1 13182
KI270711.1 2627
KI270713.1 14451
KI270721.1 1000
KI270726.1 276
KI270727.1 944
KI270728.1 1929
KI270731.1 203
KI270734.1 1104

Fragment lengths

fragments min max mean median
fragments 241322688 1 5092 196.38 163
global fragment-length histogram

Files

Filename Size md5
GSM8549637_hc46426_atac_fragments.tsv.gz 2.4 GB e464d418c7c09d4bb4925ee4e2045c83
GSM8549637_hc46426_atac_fragments.tsv.gz.tbi 1.11 MB 1ce0de83334b1746466dd600c3b90c12
GSM8549637_hc46426_atac_fragments.tsv.gz.tbi.gz 1.11 MB ab0a090ca696be75da4bb457a225afdc
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB 4e77e6eabc489448157b3bf34979b311
statistics/