Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc78content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc78 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: hc78
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549616
  • sample_id: hc78
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GGTACCGGTTAACGGC-1, CAGGACACAGTTAAAG-1, TGCTCCGTCCTAAATG-1, GCCAGGTTCATGCAAC-1, TATGACATCTCTAGCC-1 (top 5 of 574421 values)
count int

count
HISTOGRAM FOR count [1, 19]
n
183,505,374
mean
1.72
sd
1.03

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 183505374
chr1 14462651
chr2 15243928
chr3 13199401
chr4 13033311
chr5 12337733
chr6 11603875
chr7 10647274
chr8 10314140
chr9 7751716
chr10 8503050
chr11 9081936
chr12 9159830
chr13 6425622
chr14 6071806
chr15 4563005
chr16 4132354
chr17 4346702
chr18 5622257
chr19 3258095
chr20 3793070
chr21 2356794
chr22 1975530
chrX 5072921
chrY 494216
GL000009.2 8600
GL000194.1 8862
GL000195.1 6568
GL000205.2 11748
GL000213.1 469
GL000218.1 3156
GL000219.1 7386
KI270711.1 398
KI270713.1 2428
KI270721.1 240
KI270726.1 390
KI270727.1 1348
KI270728.1 1137
KI270731.1 429
KI270734.1 998

Fragment lengths

fragments min max mean median
fragments 183505374 1 5085 208.79 181
global fragment-length histogram

Files

Filename Size md5
GSM8549616_hc78_atac_fragments.tsv.gz 1.95 GB d867d5e0d25e2990ede03b1261786487
GSM8549616_hc78_atac_fragments.tsv.gz.tbi 1.12 MB ca394c82c360afea8df07a85dce38576
GSM8549616_hc78_atac_fragments.tsv.gz.tbi.gz 1.12 MB dd3301517b5efa0d04ec4bf1f181fb62
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.43 KB 340220620c6ceb2c4c3be05ae71a4dfa
statistics/