ENCODE
    • Matrix
    • Search
    • Search by region
    • Reference epigenomes
    • Publications
    • About
    • Matrix
    • Search
    • Antibodies
    • Biosamples
    • Genome references
    • Standards and guidelines
    • Ontologies
    • File formats
    • Software tools
    • Pipelines
    • Release policy
    • Data access
    • Getting started
    • REST API
    • Project overview
    • Tutorials
    • News
    • Acknowledgements
    • Contact

Experiment Matrix

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

Assay
  • 17polyA mRNA RNA-seq
  • 1ChIP-seq
Assay category
  • 17Transcription
  • 1DNA binding
Target of assay
  • 1transcription factor
Date released
  • 16January, 2012
  • 1February, 2011
  • 1March, 2014
Available data
  • 11322fastq
  • 10052bam
  • 8882bigWig
  • 5733bed narrowPeak
  • 5391bigBed narrowPeak
  • 2248bed broadPeak
  • 2138tsv
  • 1777bigBed broadPeak
  • 1434tagAlign
  • 331sra
  • 288bed bedRnaElements
  • 288bigBed bedRnaElements
  • 277idat
  • 269gtf
  • 223bed tss_peak
  • 223bigBed tss_peak
  • 223gff gff3
  • 220bed bedMethyl
  • 220bigBed bedMethyl
  • 122bed idr_peak
  • 122bigBed idr_peak
  • 115bed bed6+
  • 115bigBed bed6+
  • 115rcc
  • 110tar
  • 64bed bedLogR
  • 63bigBed bedLogR
  • 59sam
  • 59wig
  • 43bed bed12
  • 43bigBed bed12
  • 30bed bedGraph
  • 27bed bedExonScore
  • 27bigBed bedExonScore
  • 25csfasta
  • 18bed bed9
  • 18bigBed bed9
  • 13csqual
  • 12bed bed3+
  • 12hdf5
  • 10bigBed bed3+
  • 9vcf
  • 8bed peptideMapping
  • 8bigBed peptideMapping
  • 7bed bed3
  • 7bigBed bed3
  • 6bed modPepMap
  • 6bed pepMap
  • 6bigBed modPepMap
  • 6bigBed pepMap
  • 5bedpe
  • 5hic
  • 4CEL
  • 3fasta
Organism
  • 17Homo sapiens
  • 1Mus musculus
Biosample type
  • 10immortalized cell line
  • 4primary cell
  • 2stem cell
  • 1in vitro differentiated cells
  • 1tissue
Organ
  • 1blood vessel
  • 1connective tissue
  • 1liver
  • 1lung
  • 1skin of body
  • 1vein
Project
  • 18ENCODE
Genome assembly (visualization)
  • 1mm10
  • 1mm9
Audit category:
  • 1insufficient replicate concordance
Audit category:
  • 5inconsistent platforms
  • 1low read length
  • 1mild to moderate bottlenecking
BIOSAMPLE
ASSAY

18 results

search-icontable-tab-icon
Clear Filters
polyA mRNA RNA-seq
ChIP-seq
immortalized cell line
GM128782
GM128911
GM128921
HCT1161
HeLa-S31
primary cell
endothelial cell of umbilical vein1
fibroblast of lung1
keratinocyte1
skeletal muscle myoblast1
stem cell
H1-hESC2
in vitro differentiated cells
myocyte1
tissue
liver1
  • Contact
  • Terms of Use
  • Submitter sign-in

©2017 Stanford University.

  • ENCODE
  • UC Santa Cruz
  • Stanford University