Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc5021content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc5021 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: hc5021
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549627
  • sample_id: hc5021
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell ACCCAACCACATTGCA-1, CCAACATAGCCTCTCG-1, AACTAGTGTCATTGTC-1, GACTAATGTGAGCAAG-1, CCGGTTAAGCTGTCAG-1 (top 5 of 558575 values)
count int

count
HISTOGRAM FOR count [1, 21]
n
140,275,714
mean
1.62
sd
0.946

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 140275714
chr1 12666671
chr2 10718951
chr3 8803558
chr4 7050513
chr5 7594230
chr6 7530909
chr7 7246153
chr8 6291232
chr9 6183044
chr10 6518152
chr11 7538215
chr12 6643621
chr13 3773042
chr14 4651380
chr15 4212851
chr16 5063902
chr17 6330098
chr18 3186635
chr19 5820227
chr20 3710175
chr21 1721386
chr22 2932114
chrX 3998852
chrY 28864
GL000009.2 3359
GL000194.1 3272
GL000195.1 9892
GL000205.2 11064
GL000213.1 279
GL000218.1 2574
GL000219.1 16857
KI270711.1 2416
KI270713.1 2832
KI270721.1 273
KI270726.1 621
KI270727.1 775
KI270728.1 5367
KI270731.1 450
KI270734.1 908

Fragment lengths

fragments min max mean median
fragments 140275714 1 5089 199.87 169
global fragment-length histogram

Files

Filename Size md5
GSM8549627_hc5021_atac_fragments.tsv.gz 1.47 GB 39c0879197273806eed1d654bd6c3954
GSM8549627_hc5021_atac_fragments.tsv.gz.tbi 913.96 KB 9196c76fd0b49fe64d32d49eec4e3ee0
GSM8549627_hc5021_atac_fragments.tsv.gz.tbi.gz 912.74 KB 025354e1d14b42cb00273783512aa3de
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB fec80dd7db7e36bb8e3fc6077f09075e
statistics/