Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc77content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc77 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: hc77
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549615
  • sample_id: hc77
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GCCAATTAGTAGCGGG-1, ACTAACGGTTGCACGG-1, GTTCGCGCACAACAGG-1, CGATGTCCAAGCGAGC-1, AGGTCTTAGACAGGCG-1 (top 5 of 481090 values)
count int

count
HISTOGRAM FOR count [1, 21]
n
115,904,502
mean
2.33
sd
1.53

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 115904502
chr1 9904497
chr2 9154807
chr3 7937244
chr4 7182608
chr5 7096209
chr6 6717684
chr7 6290979
chr8 5939035
chr9 4965033
chr10 5361333
chr11 6057408
chr12 5670782
chr13 3602876
chr14 3886279
chr15 3009070
chr16 3350524
chr17 3879976
chr18 3184333
chr19 3473024
chr20 2737927
chr21 1547076
chr22 1739943
chrX 2879133
chrY 289339
GL000009.2 4969
GL000194.1 4805
GL000195.1 5107
GL000205.2 6808
GL000213.1 451
GL000218.1 3361
GL000219.1 11643
KI270711.1 941
KI270713.1 2732
KI270721.1 116
KI270726.1 20
KI270727.1 792
KI270728.1 4887
KI270731.1 170
KI270734.1 581

Fragment lengths

fragments min max mean median
fragments 115904502 1 5049 188.09 171
global fragment-length histogram

Files

Filename Size md5
GSM8549615_hc77_atac_fragments.tsv.gz 1.22 GB 11c4259cf1fff96d5a41da07952b5798
GSM8549615_hc77_atac_fragments.tsv.gz.tbi 844.32 KB 7db00d5356f2ec08dd85b9fd340dd14e
GSM8549615_hc77_atac_fragments.tsv.gz.tbi.gz 843.6 KB d45b9184bc5e68997cfdf5e4d1b1d9cf
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.43 KB 9b771d6b4c984e021e757325a7a8ee7c
statistics/