Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc4781content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc4781 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: hc4781
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549630
  • sample_id: hc4781
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell ACCCAACCAATCCCTT-1, CAAGGCTGTCCAAGAC-1, GATGCTTAGGACTAAG-1, TCCGGTTTCATGTCAA-1, GAAGGCTAGGAGGCAT-1 (top 5 of 642972 values)
count int

count
HISTOGRAM FOR count [1, 23]
n
189,021,369
mean
1.85
sd
1.17

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 189021369
chr1 17203603
chr2 14507803
chr3 11870810
chr4 9775427
chr5 10293689
chr6 10342829
chr7 9782970
chr8 8402578
chr9 8388659
chr10 8723397
chr11 10156641
chr12 8953031
chr13 5108665
chr14 6180843
chr15 5688251
chr16 6915697
chr17 8658175
chr18 4337408
chr19 8028541
chr20 4943390
chr21 2369828
chr22 3859851
chrX 4105989
chrY 354480
GL000009.2 5744
GL000194.1 7554
GL000195.1 8140
GL000205.2 15850
GL000213.1 270
GL000218.1 8606
GL000219.1 10340
KI270711.1 2536
KI270713.1 5882
KI270721.1 249
KI270726.1 284
KI270727.1 570
KI270728.1 1118
KI270731.1 366
KI270734.1 1305

Fragment lengths

fragments min max mean median
fragments 189021369 1 5089 216.35 174
global fragment-length histogram

Files

Filename Size md5
GSM8549630_hc4781_atac_fragments.tsv.gz 1.96 GB d0e658a0d8aa867f392c97d5ce584b4b
GSM8549630_hc4781_atac_fragments.tsv.gz.tbi 1.04 MB fdf99c634a62f7ac546d2a65be99b99f
GSM8549630_hc4781_atac_fragments.tsv.gz.tbi.gz 1.04 MB b58d1aa261a772c0093edc251f568fdc
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB bdbfe890377d86d4b926ada9f0890ad7
statistics/