Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc81content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc81 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: hc81
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549631
  • sample_id: hc81
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell ATTTGTGAGGCGCTAC-1, ACTCCTCAGCGCAATT-1, GCAATGTTCGCTAGCA-1, GATCAGGCAATCGCAC-1, GAACACAAGCCGCTAA-1 (top 5 of 643055 values)
count int

count
HISTOGRAM FOR count [1, 21]
n
295,209,574
mean
1.47
sd
0.802

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 295209574
chr1 24224422
chr2 23845575
chr3 20408902
chr4 19593461
chr5 18699143
chr6 17294376
chr7 16176768
chr8 15338321
chr9 12329847
chr10 12909052
chr11 14905699
chr12 14139531
chr13 9831718
chr14 9729261
chr15 7123350
chr16 8122447
chr17 8568032
chr18 8356152
chr19 7386479
chr20 6752777
chr21 4045537
chr22 3972866
chrX 11251424
chrY 81468
GL000009.2 10189
GL000194.1 15256
GL000195.1 23157
GL000205.2 26333
GL000213.1 964
GL000218.1 6456
GL000219.1 18450
KI270711.1 1474
KI270713.1 6555
KI270721.1 367
KI270726.1 1603
KI270727.1 1564
KI270728.1 9357
KI270731.1 375
KI270734.1 866

Fragment lengths

fragments min max mean median
fragments 295209574 1 5090 191.16 164
global fragment-length histogram

Files

Filename Size md5
GSM8549631_hc81_atac_fragments.tsv.gz 2.96 GB 39321508f803b6b18fa144ad779deccc
GSM8549631_hc81_atac_fragments.tsv.gz.tbi 1.34 MB 242f762f52d739294bafad51b51dbb70
GSM8549631_hc81_atac_fragments.tsv.gz.tbi.gz 1.33 MB 62c0d6ec133b048065e8cb18f9e46c84
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.43 KB 83dabdd02b699dd485b68e80a1fe1d1c
statistics/