Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/4825c56cf43477aec2aa98bfb72a76d4aeb0435bcontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 4825c56cf43477aec2aa98bfb72a76d4aeb0435b
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: 4825c56cf43477aec2aa98bfb72a76d4aeb0435b
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2517_C05
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell AAATGCCTCCTGGTCT-2517_C05, GCCAATTAGGCTAATC-2517_C05, GGAAACTCATAAAGCA-2517_C05, GAACCAAAGTATTGTG-2517_C05, CTAGTAGGTCCCGGAA-2517_C05 (top 5 of 5243 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
260,592,838
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 260592838
chr1 22101267
chr2 20772259
chr3 17448267
chr4 14860039
chr5 15135731
chr6 14740319
chr7 13915946
chr8 12548794
chr9 10734565
chr10 12098620
chr11 13349179
chr12 12528524
chr13 7711471
chr14 8523977
chr15 7596523
chr16 8588273
chr17 9741637
chr18 6452695
chr19 8129459
chr20 6457750
chr21 3176976
chr22 4581867
chrX 9292603
chrY 41465
GL000009.2 3811
GL000194.1 5635
GL000195.1 5956
GL000205.2 18038
GL000213.1 268
GL000218.1 4920
GL000219.1 14604
KI270711.1 576
KI270713.1 3533
KI270721.1 278
KI270726.1 19
KI270727.1 955
KI270728.1 5162
KI270731.1 249
KI270734.1 628

Fragment lengths

fragments min max mean median
fragments 260592838 1 5037 191.13 159
global fragment-length histogram

Files

Filename Size md5
4825c56cf43477aec2aa98bfb72a76d4aeb0435b.gz 2.5 GB 29bc0c32de69ae1d469ec51f02cc7da2
4825c56cf43477aec2aa98bfb72a76d4aeb0435b.gz.tbi 1.25 MB 25d6e4feb18c8b40e4558159ad8890da
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB a1326936ad0a3dddee856965da7a48b6
statistics/