Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc212191content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc212191 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: hc212191
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549652
  • sample_id: hc212191
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GTATGTTCATAATTGC-1, CGCATATAGCACTAGT-1, GAGGTTAAGCCTGAGC-1, TTTACGCGTGATTACG-1, TTCATTCAGCGAGGTG-1 (top 5 of 498690 values)
count int

count
HISTOGRAM FOR count [1, 21]
n
146,900,321
mean
1.67
sd
0.989

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 146900321
chr1 13372393
chr2 11256600
chr3 9276896
chr4 7329325
chr5 8015114
chr6 7835232
chr7 7631782
chr8 6646112
chr9 6428127
chr10 6907845
chr11 7948014
chr12 7072615
chr13 3866568
chr14 4796671
chr15 4494249
chr16 5357967
chr17 6613044
chr18 3277861
chr19 5951600
chr20 3909581
chr21 1735940
chr22 3067614
chrX 4018897
chrY 25777
GL000009.2 2660
GL000194.1 6405
GL000195.1 8879
GL000205.2 11076
GL000213.1 155
GL000218.1 4890
GL000219.1 11941
KI270711.1 1322
KI270713.1 8302
KI270721.1 438
KI270726.1 34
KI270727.1 1063
KI270728.1 5865
KI270731.1 380
KI270734.1 1087

Fragment lengths

fragments min max mean median
fragments 146900321 1 5091 206.74 174
global fragment-length histogram

Files

Filename Size md5
GSM8549652_hc212191_atac_fragments.tsv.gz 1.55 GB a41ec91c4cf8612c9049db4d362273b1
GSM8549652_hc212191_atac_fragments.tsv.gz.tbi 940.13 KB 22b06d30383f2fdabfffbd5b9882856c
GSM8549652_hc212191_atac_fragments.tsv.gz.tbi.gz 939.9 KB fb2170bcf4e80ba28fae321b271ccccf
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB d9c5070e198bc7e846424150cdc5007f
statistics/