Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/39f15ad2da2e3b3f16f5cea5735d0a0cec6586bccontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 39f15ad2da2e3b3f16f5cea5735d0a0cec6586bc
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: 39f15ad2da2e3b3f16f5cea5735d0a0cec6586bc
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2235_E03
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell AGATGCTTCCCTCAGT-2235_E03, TAATCACCAGGCTTGT-2235_E03, GGCTGAGAGTGTTGCG-2235_E03, TGAAGTGAGTTGGCCA-2235_E03, GCGCCTTGTAGCTGGT-2235_E03 (top 5 of 8271 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
218,397,985
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 218397985
chr1 19255617
chr2 16748177
chr3 13899885
chr4 11127084
chr5 11785127
chr6 11885124
chr7 11497734
chr8 9789735
chr9 9132118
chr10 10106353
chr11 11644312
chr12 10511324
chr13 5884825
chr14 7284771
chr15 6687041
chr16 8316943
chr17 9640441
chr18 4991511
chr19 8793073
chr20 5868010
chr21 2641473
chr22 4739931
chrX 6088422
chrY 21842
GL000009.2 1460
GL000194.1 10159
GL000195.1 7887
GL000205.2 14375
GL000213.1 173
GL000218.1 2631
GL000219.1 11524
KI270711.1 410
KI270713.1 3321
KI270721.1 325
KI270726.1 21
KI270727.1 608
KI270728.1 3311
KI270731.1 394
KI270734.1 513

Fragment lengths

fragments min max mean median
fragments 218397985 1 5037 132.82 98
global fragment-length histogram

Files

Filename Size md5
39f15ad2da2e3b3f16f5cea5735d0a0cec6586bc.gz 2.11 GB 815cad6464169bda619e4d1c05268e46
39f15ad2da2e3b3f16f5cea5735d0a0cec6586bc.gz.tbi 1.08 MB dac1603fd12537dfed6036fd0205cfd3
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB c842b6042fcd05e35f48264761f97631
statistics/