Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/f77c34d49975fe47b3f6d0e849d360f7f8b67fa2content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library f77c34d49975fe47b3f6d0e849d360f7f8b67fa2
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: f77c34d49975fe47b3f6d0e849d360f7f8b67fa2
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2517_A05
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GGTAGGAGTTGGCGTG-2517_A05, GAGCTTGTCGCTATAA-2517_A05, CGGGACAAGGTCCGTA-2517_A05, CCGGTTAAGCTCATAA-2517_A05, GTAGGTGCACAAAGGT-2517_A05 (top 5 of 3150 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
189,472,371
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 189472371
chr1 15961350
chr2 15327837
chr3 13037899
chr4 10981990
chr5 11152077
chr6 10804036
chr7 10331995
chr8 9138939
chr9 7681117
chr10 8748262
chr11 9658041
chr12 9283776
chr13 5663969
chr14 6142762
chr15 5544054
chr16 6191439
chr17 6873455
chr18 4738722
chr19 5629034
chr20 4593776
chr21 2284670
chr22 3312081
chrX 6325919
chrY 23644
GL000009.2 2003
GL000194.1 3619
GL000195.1 3565
GL000205.2 11954
GL000213.1 172
GL000218.1 2947
GL000219.1 10457
KI270711.1 455
KI270713.1 2088
KI270721.1 158
KI270726.1 12
KI270727.1 525
KI270728.1 2989
KI270731.1 144
KI270734.1 439

Fragment lengths

fragments min max mean median
fragments 189472371 1 5039 197.03 164
global fragment-length histogram

Files

Filename Size md5
f77c34d49975fe47b3f6d0e849d360f7f8b67fa2.gz 1.82 GB 9214a315f84aa98b45a21f88b9d9673f
f77c34d49975fe47b3f6d0e849d360f7f8b67fa2.gz.tbi 1.1 MB 8fd9670a0abb55001b3f750fc6fd7bf4
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 8d4c1da12dd04bef104bdcbe0356a1ea
statistics/