Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/39ea42d0e2e15970e3c51736a5b5d0207d728aa7content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 39ea42d0e2e15970e3c51736a5b5d0207d728aa7
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: 39ea42d0e2e15970e3c51736a5b5d0207d728aa7
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2275_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 GAGAAACGTTTACCGT-2275_D02, TTAAGTGTCCGCCAAA-2275_D02, CTACCGGCAAAGCGGC-2275_D02, GATTATGTCTTGCAGG-2275_D02, ACACTAATCGCACAAT-2275_D02 (top 5 of 5132 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
320,345,845
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 320345845
chr1 28140314
chr2 24957008
chr3 20834024
chr4 16789563
chr5 17751150
chr6 17858412
chr7 16894510
chr8 14416777
chr9 13367245
chr10 14819777
chr11 16959830
chr12 15593569
chr13 8920167
chr14 10718655
chr15 9809499
chr16 11626830
chr17 13669288
chr18 7381001
chr19 12055235
chr20 8265980
chr21 3853839
chr22 6473239
chrX 9090259
chrY 25313
GL000009.2 1908
GL000194.1 12435
GL000195.1 10343
GL000205.2 19643
GL000213.1 237
GL000218.1 3334
GL000219.1 15347
KI270711.1 618
KI270713.1 4595
KI270721.1 343
KI270726.1 34
KI270727.1 808
KI270728.1 3708
KI270731.1 474
KI270734.1 534

Fragment lengths

fragments min max mean median
fragments 320345845 1 5040 190.14 160
global fragment-length histogram

Files

Filename Size md5
39ea42d0e2e15970e3c51736a5b5d0207d728aa7.gz 3.0 GB 55c583ea4ad8c65a2110b3212afb9ccd
39ea42d0e2e15970e3c51736a5b5d0207d728aa7.gz.tbi 1.34 MB 970317a9f275bb2d5e1300b1918e11b7
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 60ca4dc4de3b71508c4f2c0b62adfceb
statistics/