Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc1203content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc1203 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: hc1203
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549642
  • sample_id: hc1203
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GAGTATCTCTTGACCC-1, ACTTATCTCTTGTTCG-1, ATTATCCTCCCGCCTA-1, CAAACTGGTGTTTGAG-1, TATGGCCCACCCTCAC-1 (top 5 of 631043 values)
count int

count
HISTOGRAM FOR count [1, 27]
n
169,627,910
mean
1.65
sd
0.979

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 169627910
chr1 15776068
chr2 12932136
chr3 10560130
chr4 7977841
chr5 9025324
chr6 8928837
chr7 8733377
chr8 7325691
chr9 7671414
chr10 7915032
chr11 9219140
chr12 8133619
chr13 4313540
chr14 5554400
chr15 5312562
chr16 6432105
chr17 8281709
chr18 3701904
chr19 7367799
chr20 4547648
chr21 2016407
chr22 3783860
chrX 4031943
chrY 26014
GL000009.2 2093
GL000194.1 5304
GL000195.1 9697
GL000205.2 10164
GL000213.1 19
GL000218.1 4439
GL000219.1 15721
KI270711.1 768
KI270713.1 7041
KI270721.1 714
KI270726.1 41
KI270727.1 703
KI270728.1 948
KI270731.1 254
KI270734.1 1504

Fragment lengths

fragments min max mean median
fragments 169627910 1 5084 233.28 186
global fragment-length histogram

Files

Filename Size md5
GSM8549642_hc1203_atac_fragments.tsv.gz 1.76 GB 07bb5d86b7109de99328d53ede304bfb
GSM8549642_hc1203_atac_fragments.tsv.gz.tbi 980.28 KB 0b825a79ad3170ac32fa53b1bfc5dc7d
GSM8549642_hc1203_atac_fragments.tsv.gz.tbi.gz 980.12 KB b6d6f400d40390cd9303a403c15b17af
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB 26c4952afce56686dfc0884a3747ee79
statistics/