Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc9content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc9 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: hc9
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549654
  • sample_id: hc9
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CGCTAATAGAATGACG-1, CATGCAAGTACCAGGT-1, GCACGAACAAACCTAT-1, GCTGACCAGCAGGCCT-1, ACATTGCAGGGATGAC-1 (top 5 of 543078 values)
count int

count
HISTOGRAM FOR count [1, 29]
n
133,865,614
mean
2.7
sd
2

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 133865614
chr1 12063534
chr2 10209117
chr3 8532484
chr4 7020882
chr5 7321068
chr6 7277516
chr7 7074110
chr8 6219056
chr9 5900070
chr10 6290151
chr11 7160621
chr12 6470352
chr13 3662618
chr14 4471915
chr15 3819467
chr16 4707502
chr17 5609468
chr18 3217452
chr19 5048955
chr20 3513293
chr21 1720531
chr22 2701164
chrX 3774413
chrY 21683
GL000009.2 3473
GL000194.1 5999
GL000195.1 7976
GL000205.2 12638
GL000213.1 163
GL000218.1 4450
GL000219.1 9039
KI270711.1 1343
KI270713.1 4421
KI270721.1 281
KI270726.1 38
KI270727.1 863
KI270728.1 5898
KI270731.1 350
KI270734.1 1260

Fragment lengths

fragments min max mean median
fragments 133865614 1 5102 277.34 199
global fragment-length histogram

Files

Filename Size md5
GSM8549654_hc9_atac_fragments.tsv.gz 1.44 GB 63bdca49b740f497d3d1ac9f9f9a2f5a
GSM8549654_hc9_atac_fragments.tsv.gz.tbi 907.06 KB c0e078bc5e4d6232779908c59000365e
GSM8549654_hc9_atac_fragments.tsv.gz.tbi.gz 905.71 KB ce4b30ddc04b42f252729ea0c0970440
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.42 KB 44e41b77a7f227050b2225b38b9ce435
statistics/