Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/859ffa9a1d6f56eb9abcfb29d22e09288625b343content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 859ffa9a1d6f56eb9abcfb29d22e09288625b343
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: 859ffa9a1d6f56eb9abcfb29d22e09288625b343
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2447_C06
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GTAGGTGCAGGCCAAA-2447_C06, AAACCGGCAGGTTACC-2447_C06, AATTAGCGTGGGTACT-2447_C06, CCGACAGGTGTTGTGA-2447_C06, AGACAATAGTGAGGGT-2447_C06 (top 5 of 5461 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
236,250,482
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 236250482
chr1 21196455
chr2 18488652
chr3 15286118
chr4 12138114
chr5 12912683
chr6 13028736
chr7 12570791
chr8 10699311
chr9 10052916
chr10 11140793
chr11 12575845
chr12 11499463
chr13 6483312
chr14 7919365
chr15 7314736
chr16 8624154
chr17 10462109
chr18 5383221
chr19 9043797
chr20 6301930
chr21 2821052
chr22 4910646
chrX 4979399
chrY 366116
GL000009.2 1805
GL000194.1 4076
GL000195.1 5337
GL000205.2 12618
GL000213.1 5
GL000218.1 4877
GL000219.1 14505
KI270711.1 754
KI270713.1 4431
KI270721.1 192
KI270726.1 44
KI270727.1 286
KI270728.1 696
KI270731.1 190
KI270734.1 952

Fragment lengths

fragments min max mean median
fragments 236250482 1 5039 210.48 168
global fragment-length histogram

Files

Filename Size md5
859ffa9a1d6f56eb9abcfb29d22e09288625b343.gz 2.2 GB ed65c062d7f8bdcce5cc4c1551aa5ed7
859ffa9a1d6f56eb9abcfb29d22e09288625b343.gz.tbi 1.11 MB 0ae5dcc8c108437df952d0e88bf2ea29
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB acb51b4babf5f277dec75a0d2f782518
statistics/