Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc1216content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc1216 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: hc1216
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549644
  • sample_id: hc1216
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CCTAATAAGCAAACCT-1, TGGATTGGTGAATCGC-1, ATCCATAAGGCGGGTA-1, CCAGCCTGTCAGGCAT-1, GCGCCTTGTTAATGCG-1 (top 5 of 599705 values)
count int

count
HISTOGRAM FOR count [1, 93]
n
132,644,860
mean
1.34
sd
0.664

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 132644860
chr1 12357227
chr2 10080683
chr3 8226101
chr4 6107928
chr5 7005206
chr6 6872889
chr7 6815236
chr8 5739243
chr9 5878950
chr10 6169108
chr11 7289844
chr12 6494164
chr13 3309902
chr14 4326506
chr15 4132997
chr16 5106430
chr17 6475478
chr18 2838600
chr19 5945331
chr20 3654274
chr21 1522191
chr22 3043221
chrX 3189400
chrY 20053
GL000009.2 1915
GL000194.1 3727
GL000195.1 6161
GL000205.2 8671
GL000213.1 99
GL000218.1 2307
GL000219.1 9568
KI270711.1 1321
KI270713.1 4102
KI270721.1 371
KI270726.1 205
KI270727.1 657
KI270728.1 3085
KI270731.1 747
KI270734.1 962

Fragment lengths

fragments min max mean median
fragments 132644860 1 5093 213.79 173
global fragment-length histogram

Files

Filename Size md5
GSM8549644_hc1216_atac_fragments.tsv.gz 1.4 GB 1c262368ea66c64e534bbcde50f6d668
GSM8549644_hc1216_atac_fragments.tsv.gz.tbi 885.1 KB 911489c70e09cc873f468c3552bc8e1a
GSM8549644_hc1216_atac_fragments.tsv.gz.tbi.gz 885.25 KB 106e167a0456a1551e15362e2d2c83ab
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB d93724b38e9f956399cc5188adf9bfd5
statistics/