Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc6052content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc6052 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: hc6052
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549620
  • sample_id: hc6052
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CGGCCATAGTAGCGCC-1, AATTAGCGTGTGTCCC-1, GGCCAACTCGAGGTGG-1, AGTGTGGCAATTGAGA-1, CTTATTGGTGTTTGAG-1 (top 5 of 427329 values)
count int

count
HISTOGRAM FOR count [1, 17]
n
86,845,782
mean
1.77
sd
1.08

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 86845782
chr1 8149717
chr2 6635517
chr3 5242287
chr4 4003345
chr5 4488438
chr6 4576568
chr7 4388950
chr8 3655782
chr9 3949519
chr10 4033779
chr11 4779196
chr12 4130949
chr13 2159838
chr14 2847535
chr15 2714698
chr16 3312824
chr17 4406533
chr18 1773840
chr19 4347150
chr20 2366242
chr21 1071297
chr22 1940997
chrX 1723891
chrY 110911
GL000009.2 759
GL000194.1 4424
GL000195.1 10506
GL000205.2 5621
GL000213.1 126
GL000218.1 1768
GL000219.1 4682
KI270711.1 1038
KI270713.1 4440
KI270721.1 100
KI270726.1 192
KI270727.1 461
KI270728.1 1197
KI270731.1 184
KI270734.1 481

Fragment lengths

fragments min max mean median
fragments 86845782 1 5090 209.07 173
global fragment-length histogram

Files

Filename Size md5
GSM8549620_hc6052_atac_fragments.tsv.gz 922.76 MB 9174ec00a0fafd0ecb1b089e569024db
GSM8549620_hc6052_atac_fragments.tsv.gz.tbi 742.02 KB 27fc3c6dee60c45ce36b729aa153b86c
GSM8549620_hc6052_atac_fragments.tsv.gz.tbi.gz 738.52 KB 2292b059e11960faf0c63e39b9bc36bb
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB 3c66aa4975204b5b75ab1b8f3beb19bc
statistics/