Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/ef5704ee3eed96ac8f08bc7c53150ff060c9d583content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library ef5704ee3eed96ac8f08bc7c53150ff060c9d583
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: ef5704ee3eed96ac8f08bc7c53150ff060c9d583
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 1169_A01
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell AATCTTGAGGCCTAAT-1169_A01, GTAGGATCAACTCGCG-1169_A01, GAAACTGAGCCGCAAC-1169_A01, TGAGCTTAGTCCTTCA-1169_A01, AATTGTGTCTTGCAAA-1169_A01 (top 5 of 1982 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
28,512,063
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 28512063
chr1 2711132
chr2 2149675
chr3 1768978
chr4 1291312
chr5 1463076
chr6 1494705
chr7 1449788
chr8 1196930
chr9 1295922
chr10 1376299
chr11 1593554
chr12 1317854
chr13 693502
chr14 958493
chr15 933434
chr16 1117847
chr17 1456032
chr18 601159
chr19 1252782
chr20 792291
chr21 328871
chr22 680231
chrX 547411
chrY 35699
GL000009.2 116
GL000194.1 656
GL000195.1 710
GL000205.2 1191
GL000213.1 9
GL000218.1 440
GL000219.1 1112
KI270711.1 109
KI270713.1 315
KI270721.1 24
KI270726.1 5
KI270727.1 22
KI270728.1 266
KI270731.1 42
KI270734.1 69

Fragment lengths

fragments min max mean median
fragments 28512063 1 5029 197.9 169
global fragment-length histogram

Files

Filename Size md5
ef5704ee3eed96ac8f08bc7c53150ff060c9d583.gz 291.78 MB a7256d6e5fdc2fddf0cca4ed166792d1
ef5704ee3eed96ac8f08bc7c53150ff060c9d583.gz.tbi 585.21 KB 597071a48dd904d781b06b534dad74a6
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB d2be9df833299f675606a9a546b9dc95
statistics/