Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/b1fe7a366b129f44f0b9930c1179622f6beb7011content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library b1fe7a366b129f44f0b9930c1179622f6beb7011
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: b1fe7a366b129f44f0b9930c1179622f6beb7011
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2289_E04
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell AGCCAGTGTACCGTTT-2289_E04, CTGCTCCCATGAATCT-2289_E04, GCCCATAAGCACAGGG-2289_E04, TTGAGCTAGAGGCTAA-2289_E04, TCATTGCGTATTGTCC-2289_E04 (top 5 of 5483 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
303,574,139
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 303574139
chr1 26674315
chr2 23997793
chr3 19959468
chr4 16004311
chr5 17125954
chr6 17045287
chr7 16407838
chr8 13741712
chr9 12348857
chr10 14066648
chr11 16011793
chr12 14951433
chr13 8264786
chr14 10248184
chr15 9304549
chr16 11038307
chr17 12717217
chr18 7070101
chr19 11155954
chr20 7854304
chr21 3509853
chr22 6009454
chrX 7965887
chrY 16476
GL000009.2 718
GL000194.1 7278
GL000195.1 7912
GL000205.2 21958
GL000213.1 81
GL000218.1 5304
GL000219.1 29000
KI270711.1 717
KI270713.1 2874
KI270721.1 131
KI270726.1 11
KI270727.1 495
KI270728.1 6532
KI270731.1 202
KI270734.1 445

Fragment lengths

fragments min max mean median
fragments 303574139 1 5040 183.33 160
global fragment-length histogram

Files

Filename Size md5
b1fe7a366b129f44f0b9930c1179622f6beb7011.gz 2.88 GB db9995afba9acddeb72b3d0e29bd5a4f
b1fe7a366b129f44f0b9930c1179622f6beb7011.gz.tbi 1.28 MB 84f71bb1a9ba026d825df179492c3eaa
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 14d3e300756ef94bf3ed5792c0a9c464
statistics/