Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc1745content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc1745 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: hc1745
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549629
  • sample_id: hc1745
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TGTATCCGTAATCGGC-1, CACAGGGAGGACCGCT-1, AGTAACGAGGAAGCTA-1, GGTACAAAGGCACAGG-1, TGCATGAGTAGGTTGC-1 (top 5 of 650590 values)
count int

count
HISTOGRAM FOR count [1, 20]
n
240,035,727
mean
1.52
sd
0.857

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 240035727
chr1 21943492
chr2 18488162
chr3 15255070
chr4 11784235
chr5 13099435
chr6 12952054
chr7 12421075
chr8 10642169
chr9 10561499
chr10 11273030
chr11 13003943
chr12 11434451
chr13 6263357
chr14 7861112
chr15 7395480
chr16 8774665
chr17 11099925
chr18 5303176
chr19 9759630
chr20 6380407
chr21 2847049
chr22 5151873
chrX 6200460
chrY 34465
GL000009.2 2823
GL000194.1 6951
GL000195.1 18648
GL000205.2 20162
GL000213.1 204
GL000218.1 11528
GL000219.1 27024
KI270711.1 2457
KI270713.1 7931
KI270721.1 397
KI270726.1 57
KI270727.1 1278
KI270728.1 3829
KI270731.1 703
KI270734.1 1521

Fragment lengths

fragments min max mean median
fragments 240035727 1 5092 215.45 176
global fragment-length histogram

Files

Filename Size md5
GSM8549629_hc1745_atac_fragments.tsv.gz 2.46 GB 0d6af047148ed92454c2c818882bbd22
GSM8549629_hc1745_atac_fragments.tsv.gz.tbi 1.17 MB fce2e57f40fae669833f2c446f3222ab
GSM8549629_hc1745_atac_fragments.tsv.gz.tbi.gz 1.17 MB 5298aa11c6a7123424413612eb01202d
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB 44c704afbb98c257447f253acc549703
statistics/