Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc13414content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc13414 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: hc13414
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549626
  • sample_id: hc13414
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CTTGCTCAGGCTGGCT-1, GATGACTTCTCCTCTT-1, GCAGCTATCTTAGGGT-1, AGGGCTACAGCAGGTA-1, AGTAGGATCGTTATCT-1 (top 5 of 660221 values)
count int

count
HISTOGRAM FOR count [1, 20]
n
308,353,399
mean
1.59
sd
0.92

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 308353399
chr1 28628087
chr2 23855462
chr3 19763074
chr4 15191283
chr5 16738655
chr6 16707418
chr7 15781818
chr8 13487388
chr9 13660519
chr10 14515185
chr11 16998119
chr12 14653220
chr13 8163584
chr14 10196658
chr15 9510531
chr16 11222890
chr17 14421914
chr18 6848854
chr19 12674039
chr20 8072616
chr21 3707771
chr22 6602931
chrX 6388945
chrY 448084
GL000009.2 5434
GL000194.1 11105
GL000195.1 20800
GL000205.2 21383
GL000213.1 442
GL000218.1 12494
GL000219.1 21071
KI270711.1 3722
KI270713.1 9369
KI270721.1 478
KI270726.1 382
KI270727.1 1032
KI270728.1 4404
KI270731.1 238
KI270734.1 2000

Fragment lengths

fragments min max mean median
fragments 308353399 1 5092 225.49 180
global fragment-length histogram

Files

Filename Size md5
GSM8549626_hc13414_atac_fragments.tsv.gz 3.16 GB a2d0531803ff4411a6d2bf24a8f85d46
GSM8549626_hc13414_atac_fragments.tsv.gz.tbi 1.33 MB 245843d0867b748424a71416e158a54b
GSM8549626_hc13414_atac_fragments.tsv.gz.tbi.gz 1.33 MB 84640c2ddd1b2e35ed87c778b0bb42b6
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB afa1efd683cc7aa4a370a8cc9e62ef06
statistics/