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Experiment matrix

Enter search terms to filter the experiments included in the matrix.

Assay
  • ChIP-seq
    8698
  • DNase-seq
    834
  • polyA RNA-seq
    770
  • shRNA RNA-seq
    523
  • total RNA-seq
    486
  • eCLIP
    459
  • DNAme array
    257
  • small RNA-seq
    214
  • WGBS
    201
  • microRNA-seq
    184
  • ATAC-seq
    180
  • RNA microarray
    170
  • RAMPAGE
    168
  • RNA Bind-n-Seq
    158
  • genotyping array
    123
  • CAGE
    120
  • microRNA counts
    115
  • siRNA RNA-seq
    113
  • Repli-seq
    104
  • RRBS
    103
  • CRISPRi RNA-seq
    77
  • Repli-chip
    63
  • ChIA-PET
    57
  • CRISPR RNA-seq
    50
  • PAS-seq
    47
  • genetic modification DNase-seq
    46
  • RIP-seq
    45
  • Hi-C
    44
  • FAIRE-seq
    37
  • RIP-chip
    32
  • polyA depleted RNA-seq
    32
  • RNA-PET
    31
  • MS-MS
    14
  • single cell RNA-seq
    14
  • 5C
    13
  • genotyping HTS
    12
  • DNA-PET
    6
  • MRE-seq
    4
  • MeDIP-seq
    4
  • iCLIP
    3
  • whole genome sequencing assay
    3
  • 5' RLM RACE
    2
  • MNase-seq
    2
  • Switchgear
    2
  • Circulome-seq
    1
Assay category
  • 3D chromatin structure
    44
Date released
  • May, 2016
    12
  • October, 2018
  • January, 2019
    7
  • July, 2017
    7
  • August, 2017
    6
  • November, 2016
    5
  • May, 2017
    2
  • October, 2017
    2
  • February, 2018
    1
  • November, 2018
    1
  • September, 2017
    1
Available data
  • fastq
    44
  • bed bed3+
    20
  • bigWig
    20
  • hdf5
    20
  • hic
    6
  • bedpe
    5
  • tsv
    5
Experiment status
  • released
    44
Organism
  • Homo sapiens
    37
  • Mus musculus
    7
Biosample type
  • cell line
    25
  • primary cell
    11
  • tissue
    8
Organ
  • lung
    8
  • brain
    5
  • intestine
    5
  • large intestine
    5
  • musculature of body
    5
  • limb
    4
  • blood vessel
    3
  • epithelium
    3
  • kidney
    3
  • vasculature
    3
  • liver
    2
  • skin of body
    2
  • uterus
    2
  • connective tissue
    1
  • lymph node
    1
  • mammary gland
    1
  • pancreas
    1
  • prostate gland
    1
  • spinal cord
    1
Cell
  • cancer cell
    20
  • epithelial cell
    10
  • B cell
    6
  • hematopoietic cell
    6
  • leukocyte
    5
  • neural cell
    4
  • endothelial cell
    3
  • fibroblast
    2
  • lymphoblast
    1
  • neuroblastoma cell
    1
  • pericyte
    1
  • stem cell
    1
Project
  • ENCODE
    39
  • GGR
    5
Genome assembly
  • hg19
    21
  • GRCh38
    17
Lab
  • Job Dekker, UMass
    22
  • Bing Ren, UCSD
    9
  • Erez Lieberman-Aiden, Baylor
    8
  • Tim Reddy, Duke
    5
Audit category:
  • unreplicated experiment
    2
Audit category:
  • inconsistent assembly
    12
  • missing analysis_step_run
    12
  • inconsistent platforms
    1
month_released!
  • October, 2018
BIOSAMPLE
ASSAY

44 results

Clear Filters
Hi-C
cell line
A5496
ACHN1
CH12.LX1
Caki21
DLD11
primary cell
mature B cell5
astrocyte of the cerebellum1
astrocyte of the spinal cord1
brain microvascular endothelial cell1
brain pericyte1
tissue
gastrocnemius medialis4
transverse colon4
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