Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc5614content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc5614 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: hc5614
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549621
  • sample_id: hc5614
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GACATAGAGCTGGCTA-1, GCCCGTTGTTTGCAGA-1, TTAACTGAGTAACCCG-1, CGCTAATAGGTAGCTT-1, ACAGCGCTCACTAATG-1 (top 5 of 555273 values)
count int

count
HISTOGRAM FOR count [1, 13]
n
230,127,971
mean
1.31
sd
0.627

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 230127971
chr1 20171470
chr2 18317137
chr3 15410952
chr4 12746461
chr5 13249810
chr6 12934803
chr7 12458217
chr8 10965979
chr9 9897582
chr10 10882361
chr11 12038773
chr12 11183458
chr13 6692986
chr14 7669776
chr15 6831268
chr16 7594322
chr17 9041317
chr18 5650154
chr19 7421429
chr20 5823479
chr21 2891062
chr22 4360458
chrX 5286812
chrY 517076
GL000009.2 8161
GL000194.1 9417
GL000195.1 10246
GL000205.2 17270
GL000213.1 41
GL000218.1 9306
GL000219.1 17035
KI270711.1 1439
KI270713.1 6564
KI270721.1 662
KI270726.1 62
KI270727.1 1557
KI270728.1 6840
KI270731.1 738
KI270734.1 1491

Fragment lengths

fragments min max mean median
fragments 230127971 1 5091 203.66 170
global fragment-length histogram

Files

Filename Size md5
GSM8549621_hc5614_atac_fragments.tsv.gz 2.44 GB 483edfe67ee32261a72fe17a29b64cb1
GSM8549621_hc5614_atac_fragments.tsv.gz.tbi 1.19 MB db0de36dcbf23e58978b856f38c66a12
GSM8549621_hc5614_atac_fragments.tsv.gz.tbi.gz 1.19 MB d98b6e0256cecb3625747b52fa110a5c
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB e424798bf0edfdfea35b53a8cf60291e
statistics/