Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/a9bbfeeac0d7cb34a8ddd220e1cb2be1de62d177content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library a9bbfeeac0d7cb34a8ddd220e1cb2be1de62d177
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: a9bbfeeac0d7cb34a8ddd220e1cb2be1de62d177
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2435_E06
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell ACCTGGATCGAAGTAG-2435_E06, GGCTTAAGTTGTAAAC-2435_E06, TTGTTGTTCATCAGTA-2435_E06, TTTGTGAAGCTCGCTT-2435_E06, ACCTAAGGTTTACTTG-2435_E06 (top 5 of 1610 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
88,904,334
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 88904334
chr1 8108469
chr2 6867493
chr3 5695374
chr4 4330553
chr5 4854762
chr6 4810204
chr7 4611198
chr8 3995506
chr9 3869801
chr10 4314101
chr11 4817925
chr12 4234488
chr13 2282741
chr14 2933653
chr15 2794243
chr16 3246297
chr17 4053923
chr18 2036134
chr19 3339992
chr20 2451489
chr21 1008891
chr22 1893439
chrX 2325584
chrY 6372
GL000009.2 263
GL000194.1 2044
GL000195.1 2216
GL000205.2 5058
GL000213.1 30
GL000218.1 1454
GL000219.1 6772
KI270711.1 249
KI270713.1 789
KI270721.1 63
KI270726.1 2
KI270727.1 226
KI270728.1 2236
KI270731.1 67
KI270734.1 233

Fragment lengths

fragments min max mean median
fragments 88904334 1 5038 176.26 158
global fragment-length histogram

Files

Filename Size md5
a9bbfeeac0d7cb34a8ddd220e1cb2be1de62d177.gz 837.8 MB 772db01daa209f0e77ddfb75895138e6
a9bbfeeac0d7cb34a8ddd220e1cb2be1de62d177.gz.tbi 729.75 KB 83308ad4e851e1fbd18d79fd0db0e4f1
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 076adad28fa85839b15eabc38a5976a5
statistics/