Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/1bd1ba397395c801aaeff6e51c426c77ed14c44econtent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 1bd1ba397395c801aaeff6e51c426c77ed14c44e
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: 1bd1ba397395c801aaeff6e51c426c77ed14c44e
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2357_A03
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GGATACTTCACTAAGC-2357_A03, TGTTGCACAATATGGA-2357_A03, TGAACAACAGCTTAGC-2357_A03, CAATCGCCAGCAGGTA-2357_A03, TTAAGGTGTGTGCACG-2357_A03 (top 5 of 5579 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
229,054,748
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 229054748
chr1 20444899
chr2 17753783
chr3 14882551
chr4 11864526
chr5 12599964
chr6 12704155
chr7 12295582
chr8 10442285
chr9 9524835
chr10 10709600
chr11 12060960
chr12 11231277
chr13 6286659
chr14 7733093
chr15 7072145
chr16 8479397
chr17 9878746
chr18 5359480
chr19 8862717
chr20 6113884
chr21 2746429
chr22 4712865
chrX 4900182
chrY 345385
GL000009.2 944
GL000194.1 4993
GL000195.1 7497
GL000205.2 16117
GL000213.1 81
GL000218.1 2135
GL000219.1 10568
KI270711.1 517
KI270713.1 4548
KI270721.1 244
KI270726.1 41
KI270727.1 181
KI270728.1 757
KI270731.1 174
KI270734.1 552

Fragment lengths

fragments min max mean median
fragments 229054748 1 5040 184.61 157
global fragment-length histogram

Files

Filename Size md5
1bd1ba397395c801aaeff6e51c426c77ed14c44e.gz 2.19 GB 589a212815a56924ddfa9555109147af
1bd1ba397395c801aaeff6e51c426c77ed14c44e.gz.tbi 1.11 MB 644a198579aebb71c2cdda44f350000b
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB d2927fde72e2b9140101ba0b4145c53a
statistics/