Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc13394content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc13394 from zemke2024Epigenetic.
Description
Labels
  • assay: 10x_Multiome
  • brain_region: hippocampus
  • cell_meta_resource_id: summary/zemke2024Epigenetic/10x_multiomics_cell_meta_data
  • data_types: fragments
  • dataset: zemke2024Epigenetic
  • individual_id: hc13394
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549635
  • sample_id: hc13394
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CCTTCGTAGCACAGGG-1, GTTACCTGTTGGTTCT-1, GTGAATCTCCTAACGG-1, ATTGCAGGTTGTTGGA-1, GGAACGGTCACCAATA-1 (top 5 of 676252 values)
count int

count
HISTOGRAM FOR count [1, 22]
n
317,456,294
mean
1.69
sd
1.02

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 317456294
chr1 29463582
chr2 24236308
chr3 19788256
chr4 14813632
chr5 16925094
chr6 16834322
chr7 16125366
chr8 13611884
chr9 14038641
chr10 14772395
chr11 17344204
chr12 15198018
chr13 8180150
chr14 10478650
chr15 9815829
chr16 11980777
chr17 15385042
chr18 6837717
chr19 14264738
chr20 8524637
chr21 3815489
chr22 7043777
chrX 7801717
chrY 43312
GL000009.2 6768
GL000194.1 12698
GL000195.1 17500
GL000205.2 25881
GL000213.1 709
GL000218.1 4017
GL000219.1 33237
KI270711.1 3331
KI270713.1 17916
KI270721.1 810
KI270726.1 45
KI270727.1 1459
KI270728.1 4764
KI270731.1 554
KI270734.1 3068

Fragment lengths

fragments min max mean median
fragments 317456294 1 5096 218.18 174
global fragment-length histogram

Files

Filename Size md5
GSM8549635_hc13394_atac_fragments.tsv.gz 3.23 GB d6f72f80893c82efcd6e47f0b32b79e7
GSM8549635_hc13394_atac_fragments.tsv.gz.tbi 1.35 MB 2293950d3c563139b36739bf99940110
GSM8549635_hc13394_atac_fragments.tsv.gz.tbi.gz 1.35 MB 31cfa4d5448174aae0407564c86f4c67
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB 99791690796efea03bbed4e763388107
statistics/