Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc76content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc76 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: hc76
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549618
  • sample_id: hc76
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CCCAAACCAAATGCCC-1, GCGCTTAAGTAAGTCC-1, TTCAGGTAGAAGGTGC-1, CATAGTCAGGAGGCAT-1, GCTGTGATCATTTGTC-1 (top 5 of 520072 values)
count int

count
HISTOGRAM FOR count [1, 23]
n
122,010,256
mean
2.45
sd
1.62

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 122010256
chr1 10944169
chr2 9421608
chr3 7967778
chr4 6673322
chr5 6828517
chr6 6796966
chr7 6453231
chr8 5634688
chr9 5307812
chr10 5517160
chr11 6457437
chr12 5924928
chr13 3444718
chr14 4113211
chr15 3418893
chr16 4073442
chr17 5156963
chr18 2943937
chr19 4536789
chr20 3006000
chr21 1555582
chr22 2325720
chrX 3433956
chrY 22210
GL000009.2 4439
GL000194.1 4237
GL000195.1 6527
GL000205.2 9832
GL000213.1 341
GL000218.1 2600
GL000219.1 14166
KI270711.1 934
KI270713.1 4285
KI270721.1 227
KI270726.1 27
KI270727.1 399
KI270728.1 2047
KI270731.1 198
KI270734.1 960

Fragment lengths

fragments min max mean median
fragments 122010256 1 5089 218.46 184
global fragment-length histogram

Files

Filename Size md5
GSM8549618_hc76_atac_fragments.tsv.gz 1.3 GB b40be6f487ff090354fd1bd67b15ba75
GSM8549618_hc76_atac_fragments.tsv.gz.tbi 864.26 KB 5a358a220b9e7481b204d128baa60d07
GSM8549618_hc76_atac_fragments.tsv.gz.tbi.gz 863.86 KB c4f2f5c8541d6594d6fb453b8643708d
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.43 KB d9c3fd65d398e86743bf18c778286b42
statistics/