Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc13344content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc13344 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: hc13344
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549622
  • sample_id: hc13344
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GGACCTCAGGTCGATT-1, CATTGTGCAACCTAAT-1, GAGTGAGGTGTTTGTC-1, GATTACTCAAGCTACC-1, ACTTATGAGTAGCGCC-1 (top 5 of 561910 values)
count int

count
HISTOGRAM FOR count [1, 24]
n
153,527,630
mean
1.26
sd
0.57

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 153527630
chr1 13918346
chr2 11998699
chr3 9999403
chr4 7645704
chr5 8625611
chr6 8364984
chr7 8085582
chr8 7126520
chr9 6584651
chr10 7162054
chr11 8301224
chr12 7594698
chr13 4106152
chr14 5030967
chr15 4721351
chr16 5348321
chr17 6761919
chr18 3526529
chr19 5794872
chr20 3998851
chr21 1748525
chr22 3194844
chrX 3823040
chrY 17014
GL000009.2 1925
GL000194.1 5396
GL000195.1 10606
GL000205.2 9350
GL000213.1 162
GL000218.1 3237
GL000219.1 8593
KI270711.1 758
KI270713.1 4120
KI270721.1 292
KI270726.1 58
KI270727.1 1369
KI270728.1 421
KI270731.1 161
KI270734.1 1321

Fragment lengths

fragments min max mean median
fragments 153527630 1 5084 213.88 177
global fragment-length histogram

Files

Filename Size md5
GSM8549622_hc13344_atac_fragments.tsv.gz 1.63 GB 77b4fd8cd79efda3f4e1b21c4c12040a
GSM8549622_hc13344_atac_fragments.tsv.gz.tbi 953.24 KB a0858f8ae409edaacee0e28ad06ad94b
GSM8549622_hc13344_atac_fragments.tsv.gz.tbi.gz 954.85 KB 715b261e0df854157cd9fbf7d019ba8d
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB 0cd394ce33aba335aed672940faba397
statistics/