Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc73content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc73 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: hc73
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549648
  • sample_id: hc73
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell ATATGCTCAAGCGAGC-1, TTTGTTGGTCACCAAA-1, CTCCAAACAGGCTAGA-1, GGCTAGACAGCTCAAC-1, TAGTAGGAGCTGTCAG-1 (top 5 of 682095 values)
count int

count
HISTOGRAM FOR count [1, 113]
n
498,326,620
mean
1.7
sd
1.04

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 498326620
chr1 43731219
chr2 39133554
chr3 33671783
chr4 26870920
chr5 29063989
chr6 27981481
chr7 27133030
chr8 24182812
chr9 21469661
chr10 22992553
chr11 26174842
chr12 25057956
chr13 14313385
chr14 16388034
chr15 15207065
chr16 16366248
chr17 19449849
chr18 12227041
chr19 16577120
chr20 12680899
chr21 5980641
chr22 9430896
chrX 11162183
chrY 903509
GL000009.2 9378
GL000194.1 21938
GL000195.1 26405
GL000205.2 29676
GL000213.1 1121
GL000218.1 10077
GL000219.1 32487
KI270711.1 4140
KI270713.1 16355
KI270721.1 776
KI270726.1 1903
KI270727.1 2306
KI270728.1 13181
KI270731.1 1576
KI270734.1 4631

Fragment lengths

fragments min max mean median
fragments 498326620 1 5116 226.78 179
global fragment-length histogram

Files

Filename Size md5
GSM8549648_hc73_atac_fragments.tsv.gz 5.05 GB 18d67563b6d8ef8d26eda433582bf58c
GSM8549648_hc73_atac_fragments.tsv.gz.tbi 1.65 MB 7ff25e86acdc1e1e305c948bae119afc
GSM8549648_hc73_atac_fragments.tsv.gz.tbi.gz 1.65 MB 79589914a8c2c96d566043d078499fa7
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.43 KB db2c99c4a9a270a6968369e4b1a03d93
statistics/