Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/7c9edd2e40a96a57a38dfd8e5163b2febc6c7b1econtent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 7c9edd2e40a96a57a38dfd8e5163b2febc6c7b1e
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: 7c9edd2e40a96a57a38dfd8e5163b2febc6c7b1e
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 822_A01
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell AATTACCCACTAAGCC-822_A01, ACTGAAACAAGGGTTG-822_A01, CGCATGATCGTGCCTT-822_A01, CGCAAATTCAATGTCA-822_A01, ATTTGTGAGTGTTGCG-822_A01 (top 5 of 7448 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
251,268,068
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 251268068
chr1 21964459
chr2 20203157
chr3 16791681
chr4 13593557
chr5 14289165
chr6 14152075
chr7 13769560
chr8 11762017
chr9 10231903
chr10 11667517
chr11 13183430
chr12 12445586
chr13 6930070
chr14 8366493
chr15 7657113
chr16 9009711
chr17 10285501
chr18 5962156
chr19 8750206
chr20 6522983
chr21 2927452
chr22 4952228
chrX 5433232
chrY 374223
GL000009.2 868
GL000194.1 5128
GL000195.1 4311
GL000205.2 12276
GL000213.1 53
GL000218.1 3509
GL000219.1 10032
KI270711.1 458
KI270713.1 1851
KI270721.1 131
KI270726.1 10
KI270727.1 200
KI270728.1 2734
KI270731.1 267
KI270734.1 765

Fragment lengths

fragments min max mean median
fragments 251268068 1 5041 167.28 161
global fragment-length histogram

Files

Filename Size md5
7c9edd2e40a96a57a38dfd8e5163b2febc6c7b1e.gz 2.42 GB 4db57f16b061a1fe60a17127ce0e7172
7c9edd2e40a96a57a38dfd8e5163b2febc6c7b1e.gz.tbi 1.16 MB 44f5e84af0385ecec7ca2b008391dbfc
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 218f1523ff380523d001aae54cf80a21
statistics/