Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/dd8682eb58852809b61ca6017fa4b3a8dbda16a3content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library dd8682eb58852809b61ca6017fa4b3a8dbda16a3
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: dd8682eb58852809b61ca6017fa4b3a8dbda16a3
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2006_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 GGTACCGGTTAGGCTA-2006_A05, AGTTGCGTCGCAGGCT-2006_A05, GTCCGTAAGGCCTAAT-2006_A05, AATCCCTGTCAGTAAT-2006_A05, GGTTGAGCACGTGCTG-2006_A05 (top 5 of 5870 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
342,716,165
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 342716165
chr1 30325542
chr2 26676580
chr3 22070078
chr4 17621628
chr5 18877976
chr6 18934243
chr7 18310301
chr8 15503807
chr9 14336124
chr10 15812813
chr11 18144259
chr12 16836086
chr13 9398313
chr14 11538399
chr15 10460668
chr16 12744313
chr17 15076494
chr18 7793001
chr19 13856812
chr20 9116125
chr21 4150048
chr22 7256991
chrX 7260455
chrY 539024
GL000009.2 1834
GL000194.1 10066
GL000195.1 12423
GL000205.2 20368
GL000213.1 30
GL000218.1 2971
GL000219.1 10774
KI270711.1 344
KI270713.1 9884
KI270721.1 385
KI270726.1 328
KI270727.1 784
KI270728.1 4474
KI270731.1 197
KI270734.1 1223

Fragment lengths

fragments min max mean median
fragments 342716165 1 5040 174.18 151
global fragment-length histogram

Files

Filename Size md5
dd8682eb58852809b61ca6017fa4b3a8dbda16a3.gz 3.17 GB 0256ab3f2c5900f323955cd7ae218acb
dd8682eb58852809b61ca6017fa4b3a8dbda16a3.gz.tbi 1.37 MB 785f2b5481ccbfa9a506a5e21f647252
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB bc2d9d65498299a463c54f2b0c4f9798
statistics/