Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/ab47bd36ff91bb14fb127fd86860d0a4e41f5b91content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library ab47bd36ff91bb14fb127fd86860d0a4e41f5b91
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: ab47bd36ff91bb14fb127fd86860d0a4e41f5b91
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2328_C03
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CGTAGCGGTTTGGGTA-2328_C03, ACAGCGCTCTAAGTCA-2328_C03, TTAGTCAAGTCATTTC-2328_C03, GAAGGATGTGAAGCCT-2328_C03, AAGTAGCCAAGGAATC-2328_C03 (top 5 of 4424 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
190,583,335
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 190583335
chr1 17118666
chr2 14911170
chr3 12288136
chr4 9706611
chr5 10579074
chr6 10371879
chr7 10025956
chr8 8729100
chr9 8115890
chr10 9071811
chr11 10268973
chr12 9202908
chr13 5101723
chr14 6271988
chr15 5766954
chr16 6744539
chr17 8301997
chr18 4442743
chr19 7101681
chr20 5102955
chr21 2191270
chr22 3817221
chrX 5291552
chrY 14862
GL000009.2 583
GL000194.1 3991
GL000195.1 4491
GL000205.2 9032
GL000213.1 65
GL000218.1 2705
GL000219.1 14500
KI270711.1 481
KI270713.1 1971
KI270721.1 111
KI270726.1 10
KI270727.1 395
KI270728.1 4846
KI270731.1 101
KI270734.1 394

Fragment lengths

fragments min max mean median
fragments 190583335 1 5040 186.65 163
global fragment-length histogram

Files

Filename Size md5
ab47bd36ff91bb14fb127fd86860d0a4e41f5b91.gz 1.78 GB 9b257dc524e1afd8f20a66c06932649e
ab47bd36ff91bb14fb127fd86860d0a4e41f5b91.gz.tbi 1019.13 KB c6c4a26312865dcf3458074667338e3a
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 114028c977bcb3d394289833c7e9370f
statistics/