Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/4ab5f6ecc6d6d33becb6d779f2eb2827070e7de8content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 4ab5f6ecc6d6d33becb6d779f2eb2827070e7de8
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: 4ab5f6ecc6d6d33becb6d779f2eb2827070e7de8
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2013_B01
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CGTGCTGCATGTTGCA-2013_B01, GGGATTAAGCTAATCA-2013_B01, AAGCCACGTATCTGGA-2013_B01, TGCTTGCTCAGTGAAG-2013_B01, TAGGAGGGTCCTAACT-2013_B01 (top 5 of 3386 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
142,727,714
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 142727714
chr1 12862571
chr2 11070366
chr3 8974420
chr4 7092629
chr5 7741648
chr6 7873627
chr7 7487432
chr8 6330035
chr9 6236156
chr10 6738331
chr11 7672579
chr12 6952536
chr13 3857481
chr14 4766228
chr15 4293154
chr16 5224593
chr17 6534237
chr18 3287367
chr19 5913755
chr20 3809847
chr21 1766037
chr22 2916179
chrX 3077897
chrY 217611
GL000009.2 943
GL000194.1 3255
GL000195.1 5423
GL000205.2 7249
GL000213.1 13
GL000218.1 1003
GL000219.1 5002
KI270711.1 220
KI270713.1 4594
KI270721.1 151
KI270726.1 131
KI270727.1 418
KI270728.1 2166
KI270731.1 61
KI270734.1 369

Fragment lengths

fragments min max mean median
fragments 142727714 1 5040 174.21 153
global fragment-length histogram

Files

Filename Size md5
4ab5f6ecc6d6d33becb6d779f2eb2827070e7de8.gz 1.32 GB c79eb3aaa62678293dc717141942b6e2
4ab5f6ecc6d6d33becb6d779f2eb2827070e7de8.gz.tbi 880.67 KB 44b08d75f76833a3bf70b88e2d0cf36f
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB c6bd2726e71acd83da735d9d9ca4f76e
statistics/