Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc6021content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc6021 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: hc6021
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549634
  • sample_id: hc6021
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell ACGTACCCAACACCTA-1, CACTTTGTCCCATAAA-1, TGGTTCTGTGACCTGG-1, CTGTACCTCGACAAAG-1, TTGTCCATCACAGACT-1 (top 5 of 633594 values)
count int

count
HISTOGRAM FOR count [1, 43]
n
273,404,477
mean
1.49
sd
0.826

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 273404477
chr1 24986241
chr2 21390079
chr3 17472071
chr4 13382549
chr5 14868730
chr6 15082954
chr7 14260644
chr8 12024713
chr9 12267086
chr10 12862973
chr11 14887360
chr12 13080086
chr13 7255274
chr14 9099674
chr15 8409537
chr16 9731346
chr17 12448526
chr18 6135613
chr19 11007686
chr20 6954459
chr21 3291914
chr22 5512354
chrX 6880413
chrY 30635
GL000009.2 2302
GL000194.1 4206
GL000195.1 12060
GL000205.2 16115
GL000213.1 386
GL000218.1 10137
GL000219.1 22980
KI270711.1 2227
KI270713.1 5136
KI270721.1 841
KI270726.1 687
KI270727.1 1025
KI270728.1 1480
KI270731.1 397
KI270734.1 1581

Fragment lengths

fragments min max mean median
fragments 273404477 1 5092 211.09 173
global fragment-length histogram

Files

Filename Size md5
GSM8549634_hc6021_atac_fragments.tsv.gz 2.79 GB fada033a5d705d915c947eaba095b81c
GSM8549634_hc6021_atac_fragments.tsv.gz.tbi 1.24 MB 80db5b7260793fd3cba40adc271bef98
GSM8549634_hc6021_atac_fragments.tsv.gz.tbi.gz 1.24 MB 31ac6104fe11e35be915233a98cc2304
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB 5c6383f02b00c22d5e9ca9af1bc2fa02
statistics/