Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/90a6dc7c0465cf7084976b9df32a02d5d6421843content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 90a6dc7c0465cf7084976b9df32a02d5d6421843
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: 90a6dc7c0465cf7084976b9df32a02d5d6421843
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2013_C01
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TGAGCAAAGGGTGGAT-2013_C01, GTAAGGTCAGAACCGA-2013_C01, TGTTACTTCGGGATTT-2013_C01, CATGCATAGCGATAGA-2013_C01, GTTCTTGTCGTTTCCA-2013_C01 (top 5 of 4742 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
228,871,297
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 228871297
chr1 20127973
chr2 17950725
chr3 14852715
chr4 12099929
chr5 12773447
chr6 12720683
chr7 12310463
chr8 10546098
chr9 9568693
chr10 10577638
chr11 11981522
chr12 11327813
chr13 6386373
chr14 7713345
chr15 6990976
chr16 8307464
chr17 9745331
chr18 5282111
chr19 8785599
chr20 5969601
chr21 2800842
chr22 4679089
chrX 4939819
chrY 379233
GL000009.2 1518
GL000194.1 6982
GL000195.1 8062
GL000205.2 15733
GL000213.1 17
GL000218.1 2138
GL000219.1 7312
KI270711.1 279
KI270713.1 6214
KI270721.1 261
KI270726.1 277
KI270727.1 539
KI270728.1 3592
KI270731.1 130
KI270734.1 761

Fragment lengths

fragments min max mean median
fragments 228871297 1 5039 162.88 142
global fragment-length histogram

Files

Filename Size md5
90a6dc7c0465cf7084976b9df32a02d5d6421843.gz 2.13 GB 580064085c4092ad36cb84cfda38e594
90a6dc7c0465cf7084976b9df32a02d5d6421843.gz.tbi 1.1 MB 84422f1c763640fc67abfd366ebf82b5
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB d09487290f9fc174c659490cb373e8e8
statistics/