Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc8content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc8 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: hc8
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549639
  • sample_id: hc8
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TTGTGCGAGCTGAGGG-1, ATTACGTCAAGCTTAT-1, TAGACCAGTGCTCCGT-1, GCTTAGTAGTAACGGA-1, ATTGGTTCACATAGCC-1 (top 5 of 680074 values)
count int

count
HISTOGRAM FOR count [1, 27]
n
543,581,585
mean
1.64
sd
0.984

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 543581585
chr1 48105921
chr2 42656965
chr3 37071414
chr4 29057393
chr5 31132471
chr6 29909628
chr7 29913516
chr8 26194266
chr9 23812524
chr10 25808929
chr11 27981269
chr12 27132097
chr13 15432752
chr14 17900814
chr15 16206577
chr16 18409993
chr17 21586395
chr18 13701286
chr19 16749364
chr20 14337800
chr21 6719219
chr22 10709063
chrX 11881215
chrY 1005429
GL000009.2 15502
GL000194.1 20649
GL000195.1 21679
GL000205.2 33312
GL000213.1 777
GL000218.1 8541
GL000219.1 24189
KI270711.1 5172
KI270713.1 6952
KI270721.1 928
KI270726.1 826
KI270727.1 1945
KI270728.1 18929
KI270731.1 2243
KI270734.1 3641

Fragment lengths

fragments min max mean median
fragments 543581585 1 5092 231.96 180
global fragment-length histogram

Files

Filename Size md5
GSM8549639_hc8_atac_fragments.tsv.gz 5.56 GB 9f061bf0f2936ad4a6b8592e740d53a6
GSM8549639_hc8_atac_fragments.tsv.gz.tbi 1.69 MB f61828d54c4ae312c77464effd88b145
GSM8549639_hc8_atac_fragments.tsv.gz.tbi.gz 1.7 MB f0ff4e8b6d8a8ce07f978f9e97cdad5b
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.42 KB 22818542de8a16ef81779f082b5699ab
statistics/