Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc5551content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc5551 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: hc5551
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549633
  • sample_id: hc5551
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TAGCATATCGGCCAGT-1, CCGCACACACGAATCC-1, CAAGCTAGTGGGTACT-1, GGCCAACTCCGCCTCA-1, TGGACTAGTGAACAAA-1 (top 5 of 678354 values)
count int

count
HISTOGRAM FOR count [1, 29]
n
342,203,933
mean
1.6
sd
0.934

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 342203933
chr1 31207001
chr2 26402333
chr3 21667259
chr4 17080632
chr5 18449820
chr6 18674853
chr7 17880947
chr8 15038555
chr9 15176085
chr10 16127344
chr11 18485414
chr12 16158566
chr13 8992502
chr14 11467479
chr15 10589701
chr16 12615553
chr17 15770559
chr18 7648411
chr19 14264663
chr20 9037747
chr21 4215245
chr22 7252675
chrX 7257553
chrY 589194
GL000009.2 7989
GL000194.1 6929
GL000195.1 26696
GL000205.2 27963
GL000213.1 694
GL000218.1 11189
GL000219.1 35309
KI270711.1 3516
KI270713.1 10739
KI270721.1 987
KI270726.1 2077
KI270727.1 2529
KI270728.1 14117
KI270731.1 820
KI270734.1 2288

Fragment lengths

fragments min max mean median
fragments 342203933 1 5093 211.24 169
global fragment-length histogram

Files

Filename Size md5
GSM8549633_hc5551_atac_fragments.tsv.gz 3.48 GB 65c8259f783bb4122d359a4d75976052
GSM8549633_hc5551_atac_fragments.tsv.gz.tbi 1.43 MB bb046ec044a2abfd2d7ead07f7218c8a
GSM8549633_hc5551_atac_fragments.tsv.gz.tbi.gz 1.43 MB 05b5f0db3f6acaf916f71e1a0f7e4f86
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB b07846c0b509ac0dfdb9186bda8a4974
statistics/