Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc1265content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc1265 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: hc1265
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549638
  • sample_id: hc1265
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell AATACCGGTTCAAGCA-1, GTTTGTAAGCATGTCG-1, ATCAGGTTCGATTTGA-1, TACTGGCCAGAGAGCC-1, CTTTGTCCAGTTAGCC-1 (top 5 of 592649 values)
count int

count
HISTOGRAM FOR count [1, 15]
n
296,243,045
mean
1.52
sd
0.848

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 296243045
chr1 28131960
chr2 22568691
chr3 17854075
chr4 13251768
chr5 15133354
chr6 15784454
chr7 15096575
chr8 11968535
chr9 13714946
chr10 14285479
chr11 16398012
chr12 13782557
chr13 7236524
chr14 9859572
chr15 9312565
chr16 11376942
chr17 15228078
chr18 6267982
chr19 13962126
chr20 7977996
chr21 3571833
chr22 6763505
chrX 6593656
chrY 28479
GL000009.2 4668
GL000194.1 11531
GL000195.1 17184
GL000205.2 16083
GL000213.1 286
GL000218.1 6214
GL000219.1 13530
KI270711.1 5623
KI270713.1 9356
KI270721.1 622
KI270726.1 26
KI270727.1 1657
KI270728.1 4814
KI270731.1 449
KI270734.1 1338

Fragment lengths

fragments min max mean median
fragments 296243045 1 5092 212.66 176
global fragment-length histogram

Files

Filename Size md5
GSM8549638_hc1265_atac_fragments.tsv.gz 2.95 GB 4a07bfdfcf959e0bf53cee1f72068df4
GSM8549638_hc1265_atac_fragments.tsv.gz.tbi 1.24 MB 92da837919e83861ae58f917b4e4bf70
GSM8549638_hc1265_atac_fragments.tsv.gz.tbi.gz 1.24 MB a5342fbfa15cb7af82c1fb160c0c8f78
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB a5391559c62248fb9e9d3445f4e9ac24
statistics/