Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/a49bfd8e08762c838f5e42de772dd3f84f4457aacontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library a49bfd8e08762c838f5e42de772dd3f84f4457aa
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: a49bfd8e08762c838f5e42de772dd3f84f4457aa
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2495_1_D08
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GTAGGCGAGTCTTGAA-2495_1_D08, ATGTGAGAGCCGCAGT-2495_1_D08, ATGCAAACAGTTAAAG-2495_1_D08, AGTAATGCATAGGCGA-2495_1_D08, AGGTTAACAAGGTACG-2495_1_D08 (top 5 of 4154 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
245,396,550
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 245396550
chr1 21804551
chr2 19435200
chr3 16093281
chr4 12742803
chr5 13550147
chr6 13677251
chr7 13219535
chr8 11163075
chr9 10287818
chr10 11475942
chr11 12981455
chr12 12069718
chr13 6722670
chr14 8254629
chr15 7644377
chr16 8982191
chr17 10586749
chr18 5634027
chr19 9065611
chr20 6479912
chr21 2882305
chr22 5057758
chrX 5153337
chrY 382845
GL000009.2 1670
GL000194.1 4281
GL000195.1 4823
GL000205.2 12002
GL000213.1 10
GL000218.1 4863
GL000219.1 14530
KI270711.1 805
KI270713.1 4030
KI270721.1 196
KI270726.1 31
KI270727.1 311
KI270728.1 669
KI270731.1 176
KI270734.1 966

Fragment lengths

fragments min max mean median
fragments 245396550 1 5038 172.39 158
global fragment-length histogram

Files

Filename Size md5
a49bfd8e08762c838f5e42de772dd3f84f4457aa.gz 2.31 GB f70fc5d52b48e5bc1cf1580b9128c714
a49bfd8e08762c838f5e42de772dd3f84f4457aa.gz.tbi 1.12 MB 301bae52bb3c2e8a2a0b24be0bb44b6d
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 94f734b66266a469089157b97bfac948
statistics/