Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/f5c719593351ac58d13b0cf05acd4a7d99214c97content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library f5c719593351ac58d13b0cf05acd4a7d99214c97
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: f5c719593351ac58d13b0cf05acd4a7d99214c97
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2357_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 TACTTGTTCGATAACC-2357_D03, CCGCAAATCTTCAATC-2357_D03, ACTTCGCTCGGGACCT-2357_D03, GTACTTAAGGTTTACA-2357_D03, GTATCGCCAGGCATCT-2357_D03 (top 5 of 6105 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
286,592,242
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 286592242
chr1 25668557
chr2 22251595
chr3 18563849
chr4 14635851
chr5 15649630
chr6 15905351
chr7 15307516
chr8 12835111
chr9 11878548
chr10 13389841
chr11 15227471
chr12 14111956
chr13 7678767
chr14 9720036
chr15 8969581
chr16 10789005
chr17 12647405
chr18 6565081
chr19 11363085
chr20 7637723
chr21 3399096
chr22 5965914
chrX 5976515
chrY 396669
GL000009.2 968
GL000194.1 5842
GL000195.1 8979
GL000205.2 18113
GL000213.1 92
GL000218.1 2348
GL000219.1 12845
KI270711.1 664
KI270713.1 6001
KI270721.1 267
KI270726.1 40
KI270727.1 178
KI270728.1 887
KI270731.1 240
KI270734.1 625

Fragment lengths

fragments min max mean median
fragments 286592242 1 5039 187.74 158
global fragment-length histogram

Files

Filename Size md5
f5c719593351ac58d13b0cf05acd4a7d99214c97.gz 2.69 GB e79e9d8edd5878c4caacd5662ebcfcb2
f5c719593351ac58d13b0cf05acd4a7d99214c97.gz.tbi 1.25 MB 938809c6614009ad7a97767562c51065
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 1b7439d3533c89ef2360c2e08500f366
statistics/