Resource

Id summary/zemke2024Epigenetic/atac_fragments/hc1271content_copy
Type fragment_score
Version 0
Summary ATAC fragments for hc1271 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: hc1271
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/ucsc-hg38
  • resolution: single_nucleus
  • run_id: GSM8549640
  • sample_id: hc1271
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CAAACAACATAAAGCA-1, GCTCTGGCATTATGGT-1, GGTTAATGTGATTTGG-1, GGCTATTAGCAGCTCA-1, TAAGGCTTCCTTGAGG-1 (top 5 of 614085 values)
count int

count
HISTOGRAM FOR count [1, 27]
n
304,600,007
mean
1.88
sd
1.17

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 304600007
chr1 28789378
chr2 22929121
chr3 18405326
chr4 13554615
chr5 15624907
chr6 16103016
chr7 15334325
chr8 12581304
chr9 14149143
chr10 14373220
chr11 17125731
chr12 14304599
chr13 7510130
chr14 9991821
chr15 9435848
chr16 11855868
chr17 15683867
chr18 6309366
chr19 15467960
chr20 8173344
chr21 3673228
chr22 6968893
chrX 5823528
chrY 322249
GL000009.2 2299
GL000194.1 15326
GL000195.1 23944
GL000205.2 17987
GL000213.1 273
GL000218.1 2871
GL000219.1 15439
KI270711.1 2599
KI270713.1 21554
KI270721.1 549
KI270726.1 220
KI270727.1 1209
KI270728.1 2288
KI270731.1 469
KI270734.1 2193

Fragment lengths

fragments min max mean median
fragments 304600007 1 5090 200.91 172
global fragment-length histogram

Files

Filename Size md5
GSM8549640_hc1271_atac_fragments.tsv.gz 3.03 GB 3d49278a97b35bc099cfbe5c38817207
GSM8549640_hc1271_atac_fragments.tsv.gz.tbi 1.25 MB d7e95062174d5a2b231886f460af8d4c
GSM8549640_hc1271_atac_fragments.tsv.gz.tbi.gz 1.24 MB 316faa0d4969f512453fd391619eb8f1
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.44 KB a3b2773534e3783295156a05f5734f53
statistics/