Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc98content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc98 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: hc98
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549645
  • sample_id: hc98
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GATCAGGCAGGCCAAA-1, TCAAGAACAGTTAGCC-1, GATCAGTTCCGTAAAC-1, TAATGCATCCTAAATG-1, GTAGGCGAGGGTCTAT-1 (top 5 of 647766 values)
count int

count
HISTOGRAM FOR count [1, 22]
n
308,664,359
mean
2.05
sd
1.31

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 308664359
chr1 29311850
chr2 22820833
chr3 18403530
chr4 13888505
chr5 15574657
chr6 16344767
chr7 15473804
chr8 12380368
chr9 14500698
chr10 14412297
chr11 17104116
chr12 14518755
chr13 7430472
chr14 10241336
chr15 9348705
chr16 12117391
chr17 15992492
chr18 6304492
chr19 15711246
chr20 8320207
chr21 3796971
chr22 6920895
chrX 7566298
chrY 32996
GL000009.2 2490
GL000194.1 9382
GL000195.1 32919
GL000205.2 28534
GL000213.1 246
GL000218.1 11180
GL000219.1 32672
KI270711.1 3436
KI270713.1 17622
KI270721.1 568
KI270726.1 268
KI270727.1 905
KI270728.1 3909
KI270731.1 587
KI270734.1 1960

Fragment lengths

fragments min max mean median
fragments 308664359 1 5089 212.68 174
global fragment-length histogram

Files

Filename Size md5
GSM8549645_hc98_atac_fragments.tsv.gz 3.11 GB 5e68e921407455e206a4efa5f4ae2f04
GSM8549645_hc98_atac_fragments.tsv.gz.tbi 1.29 MB a57e16c77e1657798a64dd6729de2dff
GSM8549645_hc98_atac_fragments.tsv.gz.tbi.gz 1.29 MB 1e7bd551c321575809c6629724a46b7f
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.43 KB 5ae3274401d2217118dc31151e2e5fa0
statistics/