Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/116779e51ff04e5a250c4610737fc5f4a2750a8acontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 116779e51ff04e5a250c4610737fc5f4a2750a8a
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: 116779e51ff04e5a250c4610737fc5f4a2750a8a
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2523_C07
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TGACCTTGTTGTTGGA-2523_C07, TCAATCGCATAAGCAA-2523_C07, TTTGGTGCAGGTTAAA-2523_C07, AAGCGGGTCCCTCAAC-2523_C07, ACTCCTCAGAGGAGTC-2523_C07 (top 5 of 2797 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
161,303,979
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 161303979
chr1 14283846
chr2 12743436
chr3 10611767
chr4 8423467
chr5 8890115
chr6 8965771
chr7 8604558
chr8 7319282
chr9 6749264
chr10 7574735
chr11 8511306
chr12 7845071
chr13 4458916
chr14 5391319
chr15 5024792
chr16 5768555
chr17 6800907
chr18 3774723
chr19 5725428
chr20 4250146
chr21 1923632
chr22 3274590
chrX 4340777
chrY 12524
GL000009.2 1208
GL000194.1 3357
GL000195.1 3691
GL000205.2 9202
GL000213.1 103
GL000218.1 2341
GL000219.1 9222
KI270711.1 391
KI270713.1 2319
KI270721.1 146
KI270726.1 16
KI270727.1 571
KI270728.1 1924
KI270731.1 126
KI270734.1 435

Fragment lengths

fragments min max mean median
fragments 161303979 1 5036 184.72 161
global fragment-length histogram

Files

Filename Size md5
116779e51ff04e5a250c4610737fc5f4a2750a8a.gz 1.53 GB 7c14bd8a11f523ec41a6be3f228c310d
116779e51ff04e5a250c4610737fc5f4a2750a8a.gz.tbi 949.2 KB a99f0f1ee1b3b7511cc7c32239da2258
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB f77f97d7e4cfc7279f83df49df6b718f
statistics/