Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc12content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc12 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: hc12
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549646
  • sample_id: hc12
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GCCCAAATCATCCTGC-1, GATGCTTAGTCATTTC-1, ACGCTTGAGGAGGGTT-1, CATGCATAGCCTGACA-1, GCACATTAGGTCAAAG-1 (top 5 of 492882 values)
count int

count
HISTOGRAM FOR count [1, 27]
n
143,544,336
mean
2.76
sd
1.9

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 143544336
chr1 12701423
chr2 11200731
chr3 9638076
chr4 8302623
chr5 8307751
chr6 8090128
chr7 7704728
chr8 6969853
chr9 6386321
chr10 6640880
chr11 7488883
chr12 7093115
chr13 4185279
chr14 4830246
chr15 3854817
chr16 4656170
chr17 5444959
chr18 3690117
chr19 4748024
chr20 3547050
chr21 1950708
chr22 2520666
chrX 3258677
chrY 280901
GL000009.2 3715
GL000194.1 4579
GL000195.1 6157
GL000205.2 9719
GL000213.1 318
GL000218.1 5325
GL000219.1 13340
KI270711.1 1204
KI270713.1 4818
KI270721.1 196
KI270726.1 426
KI270727.1 675
KI270728.1 527
KI270731.1 324
KI270734.1 887

Fragment lengths

fragments min max mean median
fragments 143544336 1 5077 219.18 182
global fragment-length histogram

Files

Filename Size md5
GSM8549646_hc12_atac_fragments.tsv.gz 1.53 GB 461a689c3a7179145fe7d508b4db1369
GSM8549646_hc12_atac_fragments.tsv.gz.tbi 938.53 KB 0ede5a83baf0deb7a23baca808bdd16f
GSM8549646_hc12_atac_fragments.tsv.gz.tbi.gz 937.93 KB 553f2c23bfc950cf77a1810f5cbc39b3
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.43 KB bd2844abd02e0f79629b2e3fc8206ea3
statistics/