Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/1d816c9ddce129a62def6dd8e869e4a6e4435f28content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 1d816c9ddce129a62def6dd8e869e4a6e4435f28
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: 1d816c9ddce129a62def6dd8e869e4a6e4435f28
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2531_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 GGTACCGGTTTACGTC-2531_C03, CAGCTCAAGGCTAGAA-2531_C03, GCTCACAAGTGAGGGT-2531_C03, TCGCGAGGTGACCTGG-2531_C03, AATCCTAAGTATCGCG-2531_C03 (top 5 of 3960 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
290,820,395
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 290820395
chr1 25573389
chr2 23014383
chr3 19246954
chr4 15418403
chr5 16324865
chr6 16303047
chr7 15583721
chr8 13396311
chr9 11921214
chr10 13601047
chr11 15220467
chr12 14301419
chr13 8076883
chr14 9690776
chr15 8956972
chr16 10369610
chr17 12040439
chr18 6799348
chr19 10173690
chr20 7493247
chr21 3440687
chr22 5762533
chrX 8033612
chrY 18110
GL000009.2 1747
GL000194.1 5571
GL000195.1 5394
GL000205.2 16417
GL000213.1 230
GL000218.1 3630
GL000219.1 16419
KI270711.1 662
KI270713.1 4089
KI270721.1 241
KI270726.1 17
KI270727.1 956
KI270728.1 2915
KI270731.1 271
KI270734.1 709

Fragment lengths

fragments min max mean median
fragments 290820395 1 5050 190.51 162
global fragment-length histogram

Files

Filename Size md5
1d816c9ddce129a62def6dd8e869e4a6e4435f28.gz 2.72 GB 0f3757561008394a2ed58ec004d1a670
1d816c9ddce129a62def6dd8e869e4a6e4435f28.gz.tbi 1.26 MB 9bc1b922f6d1704919dd1521707b3914
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 3fa4f0feecab3e5f14398d89a052cd2e
statistics/