Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/52afd7a57a09315bbdb96f32bb361f5373f39ec8content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 52afd7a57a09315bbdb96f32bb361f5373f39ec8
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: 52afd7a57a09315bbdb96f32bb361f5373f39ec8
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 1036_C03
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GCATTGCCAGCACCAT-1036_C03, GCAAACCGTTGTCATC-1036_C03, AAGTGTTGTTACGCGG-1036_C03, GCATGAAAGAAAGCAT-1036_C03, GCCTTTATCCTAAATG-1036_C03 (top 5 of 6745 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
281,639,707
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 281639707
chr1 24810012
chr2 22602194
chr3 18835414
chr4 14896903
chr5 15938642
chr6 15747977
chr7 15264317
chr8 13213022
chr9 11553277
chr10 13242608
chr11 14885738
chr12 13804109
chr13 7811483
chr14 9363978
chr15 8647206
chr16 10033727
chr17 11715284
chr18 6603211
chr19 9699817
chr20 7500067
chr21 3254332
chr22 5590334
chrX 6168776
chrY 413236
GL000009.2 802
GL000194.1 5056
GL000195.1 4917
GL000205.2 12987
GL000213.1 72
GL000218.1 3054
GL000219.1 10803
KI270711.1 485
KI270713.1 1865
KI270721.1 154
KI270726.1 19
KI270727.1 217
KI270728.1 2462
KI270731.1 284
KI270734.1 866

Fragment lengths

fragments min max mean median
fragments 281639707 1 5037 208.13 172
global fragment-length histogram

Files

Filename Size md5
52afd7a57a09315bbdb96f32bb361f5373f39ec8.gz 2.73 GB 034125d0cc4b31ccd9a2fd4dd88fc449
52afd7a57a09315bbdb96f32bb361f5373f39ec8.gz.tbi 1.23 MB fd4ff056d9108ff25f8e5c7f2d0c1615
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 3f07d39968a27d4559a03831a90b3e0d
statistics/