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Experiment Matrix

Click or enter search terms to filter the experiments included in the matrix.

Assay
  • 346ChIP-seq
  • 90ATAC-seq
  • 46total RNA-seq
  • 21pCHi-C
  • 20DNase-seq
  • 19RRBS
  • 9Hi-C
  • 8WGBS
  • 7snATAC-seq
  • 6MeRIP-seq
  • 6single cell RNA-seq
  • 4STARR-seq
  • 3CRISPR genome editing followed by DNA sequencing
  • 1FAIRE-seq
Assay category
  • 346DNA binding
  • 118DNA accessibility
  • 52Transcription
  • 27DNA methylation
  • 93D chromatin structure
Target of assay
  • 183transcription factor
  • 126histone
  • 126histone modification
  • 64broad histone mark
  • 62narrow histone mark
  • 50RNA binding protein
  • 40control
  • 23chromatin remodeller
  • 7recombinant protein
  • 3nucleotide modification
  • 2other context
  • 2other post-translational modification
Date released
  • 144November, 2017
  • 74October, 2019
  • 56May, 2020
  • 32December, 2017
  • 32February, 2021
  • 32June, 2019
  • 24December, 2018
  • 24July, 2019
  • 23November, 2019
  • 21November, 2018
  • 20August, 2017
  • 18August, 2021
  • 16March, 2020
  • 14May, 2019
  • 14May, 2021
  • 11January, 2019
  • 7December, 2019
  • 7October, 2018
  • 6February, 2023
  • 6November, 2020
  • 3January, 2021
  • 1April, 2019
  • 1July, 2018
Available data
  • 441bam
  • 398bigWig
  • 352bed narrowPeak
  • 286bigBed narrowPeak
  • 265fastq
  • 91bed broadPeak
  • 91bigBed broadPeak
  • 64tsv
  • 39bed bed3+
  • 25tagAlign
  • 20bed bedMethyl
  • 20bigBed bedMethyl
  • 7bed bedgraph
  • 6bedpe bed3+
  • 5hdf5
  • 4hic
  • 4tar
  • 3txt
  • 2ibed
  • 1bed bed3
Organism
  • 586Homo sapiens
Biosample type
  • 261cell line
  • 172primary cell
  • 80tissue
  • 70in vitro differentiated cells
  • 3stem cell
Organ
  • 191liver
  • 88epithelium
  • 63pancreas
  • 42blood
  • 42bodily fluid
  • 42vasculature
  • 39kidney
  • 37blood vessel
  • 25brain
  • 18vein
  • 16heart
  • 13musculature of body
  • 11embryo
  • 10connective tissue
  • 7artery
  • 5limb
  • 4eye
  • 1bone element
  • 1bone marrow
  • 1mammary gland
  • 1pericardium
  • 1thymus
Project
  • 557AMP
  • 23T1D
  • 6HPAP
Genome assembly (visualization)
  • 454hg19
  • 370GRCh38
Lab
  • 542AMP-T2D consortium
  • 19Kyle Gaulton, UCSD
  • 6Bing Ren, UCSD
  • 6Klaus Kaestner, Upenn
  • 6Rohit N. Kulkarni, M.D., Ph.D.
  • 4Katalin Susztak, Upenn
  • 3Struan F.A. Grant, CHOP
Audit category:
  • 83inconsistent ontology term
  • 2audit script error
  • 1inconsistent control
  • 1inconsistent replicate
Audit category:
  • 12missing controlled_by
Audit category:
  • 27inconsistent control read length
  • 8inconsistent control run_type
  • 2inconsistent assembly
files.platform.term_name!
  • Illumina HiSeq 2000
BIOSAMPLE
ASSAY

586 results

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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
pCHi-C
DNase-seq
RRBS
Hi-C
WGBS
snATAC-seq
MeRIP-seq
single cell RNA-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
FAIRE-seq
cell line
HepG21531212
GM1287842
EndoC_BH122263
Panc11111
H1-hESC8
primary cell
CD4-positive, alpha-beta memory T cell22
naive thymus-derived CD4-positive, alpha-beta T cell22
endothelial cell of umbilical vein1611
skeletal muscle myoblast14111
macrophage11
tissue
islet of Langerhans1911
body of pancreas7
brain511
liver511
thoracic aorta7
in vitro differentiated cells
cardiac precursors (cardiac muscle cell)1191
hepatocyte15
cardiomyocytes (cardiac muscle cell)12122
Pancreatic progenitors (progenitor cell of endocrine pancreas)4
adipocyte4
stem cell
hESC3
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