Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/b61002d5b6867a7eb2a36feaf1cbc0e522d57739content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library b61002d5b6867a7eb2a36feaf1cbc0e522d57739
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: b61002d5b6867a7eb2a36feaf1cbc0e522d57739
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2012_C05
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CTTTAGGCAGCATGAG-2012_C05, GAGCTTAGTGGACATC-2012_C05, CTGGATGTCCCATAGG-2012_C05, GGGTTTCCAGCTCAAC-2012_C05, CCGTTTGGTATTGAGT-2012_C05 (top 5 of 5421 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
227,057,454
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 227057454
chr1 20514486
chr2 17471519
chr3 14401393
chr4 11229592
chr5 12224460
chr6 12641936
chr7 11802354
chr8 10100472
chr9 9648703
chr10 10693503
chr11 12143819
chr12 11144041
chr13 6070671
chr14 7681376
chr15 7015980
chr16 8516059
chr17 10455841
chr18 5049981
chr19 9543277
chr20 6012492
chr21 2772071
chr22 4735128
chrX 4818865
chrY 315234
GL000009.2 1198
GL000194.1 5670
GL000195.1 9571
GL000205.2 14116
GL000213.1 20
GL000218.1 1697
GL000219.1 8490
KI270711.1 263
KI270713.1 8256
KI270721.1 234
KI270726.1 235
KI270727.1 611
KI270728.1 3133
KI270731.1 96
KI270734.1 611

Fragment lengths

fragments min max mean median
fragments 227057454 1 5040 179.37 158
global fragment-length histogram

Files

Filename Size md5
b61002d5b6867a7eb2a36feaf1cbc0e522d57739.gz 2.09 GB ea77994c64da7f6b9704a155a3c5e3f7
b61002d5b6867a7eb2a36feaf1cbc0e522d57739.gz.tbi 1.08 MB 61a490ae00603518d4c3b7634cc4afeb
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 3ec09cf2fea9595eabe4ce31700f32ba
statistics/