Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/3c45a782edfbaaece106514b21fda33e72517bdbcontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 3c45a782edfbaaece106514b21fda33e72517bdb
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: 3c45a782edfbaaece106514b21fda33e72517bdb
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 1001_A06
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell ATTGTCCGTAACCTAG-1001_A06, GATTCGCCACTAGGTC-1001_A06, TGGTTGAGTACGCGCA-1001_A06, GCCTGTGCACGGTTTA-1001_A06, GTCTTTAGTTTAGTCC-1001_A06 (top 5 of 2532 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
66,149,282
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 66149282
chr1 6262897
chr2 4929499
chr3 4138425
chr4 3002296
chr5 3441029
chr6 3574456
chr7 3265488
chr8 2947087
chr9 2939218
chr10 3201370
chr11 3670915
chr12 3149697
chr13 1635419
chr14 2204130
chr15 2106095
chr16 2467865
chr17 3372925
chr18 1435170
chr19 2936593
chr20 1811736
chr21 749617
chr22 1526324
chrX 1293349
chrY 70899
GL000009.2 245
GL000194.1 1465
GL000195.1 2049
GL000205.2 3517
GL000213.1 36
GL000218.1 691
GL000219.1 5500
KI270711.1 156
KI270713.1 1436
KI270721.1 29
KI270726.1 125
KI270727.1 154
KI270728.1 1171
KI270731.1 72
KI270734.1 137

Fragment lengths

fragments min max mean median
fragments 66149282 1 5010 163.8 152
global fragment-length histogram

Files

Filename Size md5
3c45a782edfbaaece106514b21fda33e72517bdb.gz 643.12 MB 875700eb5cd8493ea7f3f9c7fb3542dc
3c45a782edfbaaece106514b21fda33e72517bdb.gz.tbi 669.34 KB 4fa874221b2e5fc7f7c97e1bb78792e8
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB adfd3801387008fc431e5f74b961355f
statistics/