Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/fc3e7c0a0bcc9c1be4055b1e4db555b6e00e7efecontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library fc3e7c0a0bcc9c1be4055b1e4db555b6e00e7efe
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: fc3e7c0a0bcc9c1be4055b1e4db555b6e00e7efe
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 1075_B04
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TGAACAGAGGCATGTT-1075_B04, CAGGATGCATAATCGT-1075_B04, CTCCTCACAACTGGCT-1075_B04, CTGATCACACGTAAGG-1075_B04, TAAGCTATCCTAATTC-1075_B04 (top 5 of 4615 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
141,563,597
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 141563597
chr1 12877803
chr2 10847768
chr3 8964345
chr4 7178084
chr5 7657776
chr6 7851276
chr7 7195658
chr8 6219135
chr9 6194408
chr10 6689368
chr11 7701013
chr12 6704564
chr13 3735132
chr14 4731951
chr15 4340089
chr16 5033050
chr17 6499713
chr18 3155226
chr19 5788438
chr20 3636297
chr21 1668616
chr22 2920700
chrX 3921529
chrY 14737
GL000009.2 1476
GL000194.1 3031
GL000195.1 4807
GL000205.2 6372
GL000213.1 106
GL000218.1 2199
GL000219.1 10503
KI270711.1 471
KI270713.1 3305
KI270721.1 49
KI270726.1 111
KI270727.1 306
KI270728.1 3717
KI270731.1 129
KI270734.1 339

Fragment lengths

fragments min max mean median
fragments 141563597 1 5036 180.58 161
global fragment-length histogram

Files

Filename Size md5
fc3e7c0a0bcc9c1be4055b1e4db555b6e00e7efe.gz 1.3 GB aaac4f4f5c9dac4a9dfbd06323a54d79
fc3e7c0a0bcc9c1be4055b1e4db555b6e00e7efe.gz.tbi 866.27 KB 4a63637fb7befde4b7adf8ca6c297af1
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 4a271da8aff2ff20e8a325ae36cd7c21
statistics/