Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/79ab0bf3d09490717aea2dd74fe07882ae2569e3content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 79ab0bf3d09490717aea2dd74fe07882ae2569e3
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: 79ab0bf3d09490717aea2dd74fe07882ae2569e3
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2468_D02
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CTATTACTCCCGTTAC-2468_D02, TATCACGCAATTAAGG-2468_D02, AGGATTGAGTTGTCCC-2468_D02, GTAAGCAAGCGCAATT-2468_D02, CTTACCTCATTGGGAG-2468_D02 (top 5 of 4109 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
242,215,350
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 242215350
chr1 21687615
chr2 19041115
chr3 15820276
chr4 12449526
chr5 13205696
chr6 13488105
chr7 12943307
chr8 11029095
chr9 10256538
chr10 11396217
chr11 12872117
chr12 11867352
chr13 6588636
chr14 8154143
chr15 7532178
chr16 8778984
chr17 10604094
chr18 5557156
chr19 9116954
chr20 6416244
chr21 2842882
chr22 5016337
chrX 5140261
chrY 361148
GL000009.2 1681
GL000194.1 4086
GL000195.1 5180
GL000205.2 11746
GL000213.1 5
GL000218.1 4913
GL000219.1 14654
KI270711.1 721
KI270713.1 4251
KI270721.1 171
KI270726.1 33
KI270727.1 247
KI270728.1 535
KI270731.1 151
KI270734.1 1000

Fragment lengths

fragments min max mean median
fragments 242215350 1 5037 188.36 161
global fragment-length histogram

Files

Filename Size md5
79ab0bf3d09490717aea2dd74fe07882ae2569e3.gz 2.26 GB 0fa7cfb9697f4dfbd2e9f7a183f5a8a9
79ab0bf3d09490717aea2dd74fe07882ae2569e3.gz.tbi 1.11 MB e1518dff5975c843095dc83bd7ddc044
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 25e821ee2d4d84a524f3a5c3059d5406
statistics/