Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc11content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc11 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: hc11
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549647
  • sample_id: hc11
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TACTTCGTCTGGCATG-1, TCCGGTAAGTTTGCGG-1, TTGACGTAGAACCTGT-1, ACTCGCTTCGGGATTT-1, TAGTTTGAGAGAAGGG-1 (top 5 of 504466 values)
count int

count
HISTOGRAM FOR count [1, 10]
n
101,106,648
mean
1.23
sd
0.515

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 101106648
chr1 8095116
chr2 8525154
chr3 7430174
chr4 6612902
chr5 6518189
chr6 6167425
chr7 5807460
chr8 5562599
chr9 4187013
chr10 4732545
chr11 4996831
chr12 5008248
chr13 3423354
chr14 3422513
chr15 2676757
chr16 2628758
chr17 2663506
chr18 2920675
chr19 1941029
chr20 2290139
chr21 1323470
chr22 1300369
chrX 2580730
chrY 257203
GL000009.2 4300
GL000194.1 4971
GL000195.1 3743
GL000205.2 7763
GL000213.1 252
GL000218.1 2906
GL000219.1 6306
KI270711.1 423
KI270713.1 1098
KI270721.1 155
KI270726.1 43
KI270727.1 864
KI270728.1 841
KI270731.1 195
KI270734.1 629

Fragment lengths

fragments min max mean median
fragments 101106648 1 5074 182.25 168
global fragment-length histogram

Files

Filename Size md5
GSM8549647_hc11_atac_fragments.tsv.gz 1.1 GB d9e3ed7c857612d976362e7cd03b91b4
GSM8549647_hc11_atac_fragments.tsv.gz.tbi 835.05 KB 85675d9fccf1bdcc0834288dd3749a12
GSM8549647_hc11_atac_fragments.tsv.gz.tbi.gz 837.01 KB d99c23561da25fa66e0ab0227ffe841a
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.43 KB d30993837d4b30f26a5cd6bea6125a0d
statistics/