Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/9cd08865b2655622f88cc505022438efb76d620econtent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 9cd08865b2655622f88cc505022438efb76d620e
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: 9cd08865b2655622f88cc505022438efb76d620e
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 858_D03
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CGGTAACGTTACTTCA-858_D03, ACGGTTAGTGTCACGG-858_D03, ACCTTGCTCACAGACT-858_D03, GAGCTGCTCTCGCCTG-858_D03, CTATTCAGTTTATTCG-858_D03 (top 5 of 4385 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
201,596,430
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 201596430
chr1 18349222
chr2 15325691
chr3 12635426
chr4 9844987
chr5 10711097
chr6 11323012
chr7 10192814
chr8 8742846
chr9 8662057
chr10 9549137
chr11 10744515
chr12 9696528
chr13 5357164
chr14 6745233
chr15 6296685
chr16 7359787
chr17 9599073
chr18 4408964
chr19 8462902
chr20 5266568
chr21 2431345
chr22 4273073
chrX 5542376
chrY 18362
GL000009.2 1618
GL000194.1 3752
GL000195.1 8044
GL000205.2 13679
GL000213.1 117
GL000218.1 3153
GL000219.1 15741
KI270711.1 758
KI270713.1 5103
KI270721.1 110
KI270726.1 164
KI270727.1 420
KI270728.1 4286
KI270731.1 189
KI270734.1 432

Fragment lengths

fragments min max mean median
fragments 201596430 1 5040 204.76 167
global fragment-length histogram

Files

Filename Size md5
9cd08865b2655622f88cc505022438efb76d620e.gz 1.83 GB e05cb385f1ddebab9fc888d8dcf91a53
9cd08865b2655622f88cc505022438efb76d620e.gz.tbi 1.01 MB 5f29c409f1d34bec7357f8cada525de4
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB f38424396ec3c43687fe27672171febd
statistics/