Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc69984content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc69984 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: hc69984
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549643
  • sample_id: hc69984
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GAAAGCCAGTCAGTAC-1, TATGCATCATTATGGT-1, CCGCAAATCGCATTAA-1, TGAGGAGGTCAGGCCA-1, GCTAATATCAAAGGCA-1 (top 5 of 543472 values)
count int

count
HISTOGRAM FOR count [1, 96]
n
84,156,253
mean
2.47
sd
1.67

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 84156253
chr1 7614784
chr2 6531247
chr3 5420395
chr4 4565365
chr5 4712654
chr6 4670775
chr7 4392108
chr8 3831249
chr9 3729000
chr10 3897591
chr11 4506904
chr12 4028902
chr13 2327769
chr14 2775328
chr15 2376308
chr16 2887655
chr17 3632150
chr18 1961388
chr19 3400208
chr20 2120739
chr21 1047104
chr22 1627057
chrX 1909758
chrY 155323
GL000009.2 3090
GL000194.1 2401
GL000195.1 8694
GL000205.2 7001
GL000213.1 210
GL000218.1 2126
GL000219.1 3563
KI270711.1 868
KI270713.1 3640
KI270721.1 103
KI270726.1 187
KI270727.1 418
KI270728.1 1613
KI270731.1 125
KI270734.1 453

Fragment lengths

fragments min max mean median
fragments 84156253 1 5090 218.51 181
global fragment-length histogram

Files

Filename Size md5
GSM8549643_hc69984_atac_fragments.tsv.gz 917.04 MB 0fb3ea7b95d67dd443abb447a348ba3e
GSM8549643_hc69984_atac_fragments.tsv.gz.tbi 736.25 KB ac2e5afd08baa419423edc1fc20efe5a
GSM8549643_hc69984_atac_fragments.tsv.gz.tbi.gz 734.97 KB 26dac8d76189a9952a018a235d112ed6
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB 99a0bce714c11f743fc8e69fa7693c20
statistics/