Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/20b329c57cb22a0e2b3f1c170608de3f10c32a37content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 20b329c57cb22a0e2b3f1c170608de3f10c32a37
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: 20b329c57cb22a0e2b3f1c170608de3f10c32a37
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2362_1_D05
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell AACCTCCTCCTTCTAG-2362_1_D05, TATGGATGTGTGCACG-2362_1_D05, AATCTTGAGCGATAGA-2362_1_D05, GTTTCAGCAAGGTAAC-2362_1_D05, GAGTGATCATAGCGAG-2362_1_D05 (top 5 of 4876 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
209,496,415
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 209496415
chr1 18667750
chr2 16172178
chr3 13492372
chr4 10687807
chr5 11461104
chr6 11653818
chr7 11256069
chr8 9363436
chr9 8633221
chr10 9726170
chr11 11201505
chr12 10387080
chr13 5587281
chr14 7158747
chr15 6534609
chr16 7919048
chr17 9276727
chr18 4744373
chr19 8508342
chr20 5557217
chr21 2469260
chr22 4406067
chrX 4311011
chrY 276715
GL000009.2 654
GL000194.1 4585
GL000195.1 6908
GL000205.2 13979
GL000213.1 60
GL000218.1 1770
GL000219.1 9769
KI270711.1 371
KI270713.1 4891
KI270721.1 179
KI270726.1 15
KI270727.1 127
KI270728.1 650
KI270731.1 118
KI270734.1 432

Fragment lengths

fragments min max mean median
fragments 209496415 1 5041 190.99 163
global fragment-length histogram

Files

Filename Size md5
20b329c57cb22a0e2b3f1c170608de3f10c32a37.gz 1.96 GB 5ca584e7405096f2ab3a3897d27513b1
20b329c57cb22a0e2b3f1c170608de3f10c32a37.gz.tbi 1.03 MB fae30a83d0b9bc2d46135661a75ff2e5
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 7d3c487e8aa8ce87f744bb9bb09edd98
statistics/