Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc26content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc26 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: hc26
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549650
  • sample_id: hc26
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CAGATTCAGTCATGCG-1, AGGCTAAAGACACTTA-1, TGGATTCAGCATTTCT-1, CCAACCAAGCGGATAA-1, ACCTGGTCAATTTAGC-1 (top 5 of 543896 values)
count int

count
HISTOGRAM FOR count [1, 36]
n
188,416,201
mean
2.85
sd
1.98

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 188416201
chr1 17435010
chr2 14758577
chr3 12051062
chr4 10022865
chr5 10341673
chr6 10491705
chr7 9887993
chr8 8297536
chr9 8506668
chr10 8750440
chr11 10145313
chr12 8852656
chr13 5118053
chr14 6307677
chr15 5423674
chr16 6496003
chr17 8499468
chr18 4409523
chr19 7406081
chr20 4709119
chr21 2449661
chr22 3777803
chrX 3907504
chrY 301268
GL000009.2 3563
GL000194.1 8660
GL000195.1 15710
GL000205.2 12257
GL000213.1 215
GL000218.1 3428
GL000219.1 8592
KI270711.1 2879
KI270713.1 7578
KI270721.1 213
KI270726.1 521
KI270727.1 810
KI270728.1 2533
KI270731.1 444
KI270734.1 1466

Fragment lengths

fragments min max mean median
fragments 188416201 1 5084 228.92 183
global fragment-length histogram

Files

Filename Size md5
GSM8549650_hc26_atac_fragments.tsv.gz 2.0 GB 54b303c0150d37ad46b7373a49cf99e5
GSM8549650_hc26_atac_fragments.tsv.gz.tbi 1.02 MB aa92d6ed622fba7097b73f89f645c349
GSM8549650_hc26_atac_fragments.tsv.gz.tbi.gz 1.01 MB 64cd2a55b14c1a6586e1d1975fd231c6
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.43 KB 360bcbda6a35d79ba656d04d319200ea
statistics/