Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/5875a6b47d77ef336850b7222cbdb0d2ac450f83content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 5875a6b47d77ef336850b7222cbdb0d2ac450f83
Description
Labels
  • assay: 10x_Multiome
  • brain_region: basal ganglia
  • cell_meta_resource_id: summary/johansen2025Crossspecies/10x_multiomics_cell_meta_data
  • data_types: fragments
  • dataset: johansen2025Crossspecies
  • library: 5875a6b47d77ef336850b7222cbdb0d2ac450f83
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 1233_A02
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GCCTGTGCAGCCAGTT-1233_A02, AAGTTACGTGTTTGCT-1233_A02, ATTGGCTAGTTATTCC-1233_A02, AATCCCTGTTGGTTCT-1233_A02, CGTAATGGTATTCGTC-1233_A02 (top 5 of 265 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
4,058,601
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 4058601
chr1 387507
chr2 305409
chr3 243420
chr4 173442
chr5 204226
chr6 213967
chr7 203531
chr8 168143
chr9 183895
chr10 192642
chr11 225686
chr12 184790
chr13 96938
chr14 137633
chr15 133082
chr16 160163
chr17 214806
chr18 84700
chr19 205124
chr20 111564
chr21 49558
chr22 98680
chrX 74016
chrY 4591
GL000009.2 6
GL000194.1 107
GL000195.1 109
GL000205.2 210
GL000218.1 38
GL000219.1 405
KI270711.1 19
KI270713.1 118
KI270721.1 1
KI270726.1 2
KI270727.1 17
KI270728.1 45
KI270731.1 1
KI270734.1 10

Fragment lengths

fragments min max mean median
fragments 4058601 2 4990 178.7 158
global fragment-length histogram

Files

Filename Size md5
5875a6b47d77ef336850b7222cbdb0d2ac450f83.gz 35.7 MB 3b6009fe897ad6b5035bcb7ad0e74f4f
5875a6b47d77ef336850b7222cbdb0d2ac450f83.gz.tbi 940.67 KB ef857bac42f8c812c2fef870f137c718
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 8781abb40560b0bb0cd011de56fdad2c
statistics/