Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/a3436b78cea0734f2e9eb4b94e7147ce6e2bc598content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library a3436b78cea0734f2e9eb4b94e7147ce6e2bc598
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: a3436b78cea0734f2e9eb4b94e7147ce6e2bc598
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2016_A03
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GGTCGGTTCGGGCCAT-2016_A03, CTTGCATGTTGTAAAC-2016_A03, TTTACGCGTTGGTGAC-2016_A03, AGCAAGGGTTCACTGT-2016_A03, CTGACCAAGGCCTTAG-2016_A03 (top 5 of 5633 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
146,446,040
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 146446040
chr1 13543733
chr2 11205419
chr3 9071310
chr4 7017809
chr5 7746310
chr6 7945758
chr7 7493764
chr8 6293604
chr9 6562668
chr10 6932986
chr11 7955017
chr12 7016549
chr13 3822776
chr14 4891482
chr15 4505303
chr16 5527760
chr17 7035061
chr18 3264191
chr19 6518197
chr20 3933628
chr21 1815059
chr22 3121985
chrX 2989537
chrY 202401
GL000009.2 865
GL000194.1 3555
GL000195.1 6231
GL000205.2 7610
GL000213.1 12
GL000218.1 1037
GL000219.1 5632
KI270711.1 235
KI270713.1 5366
KI270721.1 154
KI270726.1 140
KI270727.1 458
KI270728.1 2047
KI270731.1 61
KI270734.1 330

Fragment lengths

fragments min max mean median
fragments 146446040 1 5040 162.46 144
global fragment-length histogram

Files

Filename Size md5
a3436b78cea0734f2e9eb4b94e7147ce6e2bc598.gz 1.37 GB 100ee3dcb829034d2d28750553d8f625
a3436b78cea0734f2e9eb4b94e7147ce6e2bc598.gz.tbi 886.07 KB c9ee2af89edac3f2dfb80bcfd275d306
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 17c038d7653e16f7a115b8584f52bdb1
statistics/