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Experiment Matrix

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

Assay
  • 1424ChIP-seq
  • 40polyA mRNA RNA-seq
  • 7small RNA-seq
  • 1total RNA-seq
Assay category
  • 1424DNA binding
  • 48Transcription
Target of assay
  • 1036histone
  • 1036histone modification
  • 884broad histone mark
  • 295transcription factor
  • 140narrow histone mark
  • 93control
  • 91RNA binding protein
  • 40chromatin remodeller
  • 8recombinant protein
  • 2other context
  • 2other post-translational modification
Date released
  • 402July, 2013
  • 155February, 2011
  • 96July, 2011
  • 87March, 2012
  • 86June, 2014
  • 79October, 2011
  • 67August, 2012
  • 47May, 2016
  • 46March, 2011
  • 42January, 2017
  • 40July, 2014
  • 38February, 2012
  • 36December, 2014
  • 36October, 2016
  • 34September, 2012
  • 22April, 2012
  • 22June, 2011
  • 20November, 2016
  • 19November, 2011
  • 17May, 2012
  • 14July, 2016
  • 11January, 2012
  • 6April, 2016
  • 6December, 2016
  • 6September, 2014
  • 5January, 2015
  • 4August, 2011
  • 4June, 2012
  • 4May, 2011
  • 3February, 2014
  • 2July, 2012
  • 2June, 2016
  • 2June, 2017
  • 2March, 2017
  • 2November, 2010
  • 2September, 2016
  • 1August, 2016
  • 1February, 2017
  • 1October, 2014
  • 1September, 2011
Available data
  • 1469fastq
  • 1392bam
  • 1351bigWig
  • 1178bed narrowPeak
  • 1164bigBed narrowPeak
  • 641bed broadPeak
  • 483tagAlign
  • 481bigBed broadPeak
  • 48tsv
  • 14gtf
  • 8tar
  • 7bed bedRnaElements
  • 7bigBed bedRnaElements
  • 3fasta
Organism
  • 1127Homo sapiens
  • 332Mus musculus
  • 8Drosophila melanogaster
  • 5Caenorhabditis elegans
Biosample type
  • 480immortalized cell line
  • 439tissue
  • 274primary cell
  • 121in vitro differentiated cells
  • 112stem cell
  • 33induced pluripotent stem cell line
  • 13whole organisms
Organ
  • 74brain
  • 61connective tissue
  • 54heart
  • 47lung
  • 44embryonic structure
  • 44skin of body
  • 39intestine
  • 36liver
  • 33muscle organ
  • 31blood vessel
  • 26extraembryonic component
  • 26kidney
  • 22vein
  • 20spleen
  • 19stomach
  • 18small intestine
  • 16thymus
  • 15pancreas
  • 14mammary gland
  • 13adrenal gland
  • 12bone element
  • 12large intestine
  • 11gonad
  • 9placenta
  • 8esophagus
  • 8testis
  • 6thyroid gland
  • 4adipose tissue
  • 4spinal cord
  • 3bronchus
  • 3ovary
  • 3penis
  • 2urinary bladder
  • 1vagina
Project
  • 1056ENCODE
  • 403Roadmap
  • 13modERN
Genome assembly (visualization)
  • 828GRCh38
  • 782hg19
  • 303mm10
  • 162mm9
  • 8dm3
  • 8dm6
  • 5ce10
  • 5ce11
Audit category:
  • 58control extremely low read depth
  • 47extremely low read depth
  • 9extremely low read length
Audit category:
  • 1472insufficient read depth
  • 880control insufficient read depth
  • 624missing controlled_by
  • 481insufficient read length
  • 310unreplicated experiment
  • 224poor library complexity
  • 213severe bottlenecking
  • 203control low read depth
  • 120insufficient spot score
  • 111partially characterized antibody
  • 83missing possible_controls
  • 68missing RNA fragment size
  • 49missing documents
  • 47insufficient replicate concordance
  • 27antibody not characterized to standard
  • 26uncharacterized antibody
  • 10missing spikeins
  • 2insufficient coverage
  • 2missing input control
Audit category:
  • 1120low read length
  • 728mild to moderate bottlenecking
  • 359moderate library complexity
  • 357inconsistent control read length
  • 270low read depth
  • 263inconsistent platforms
  • 242control low read depth
  • 207mixed read lengths
  • 55antibody characterized with exemption
  • 54inconsistent control run_type
  • 51borderline replicate concordance
  • 33mixed run types
  • 26missing spikeins
  • 20inconsistent target of control experiment
  • 15low replicate concordance
  • 3missing external identifiers
  • 0insufficient read depth
BIOSAMPLE
ASSAY

1472 results

search-icontable-tab-icon
Clear Filters
ChIP-seq
polyA mRNA RNA-seq
small RNA-seq
total RNA-seq
immortalized cell line
K562893
GM12878421
HepG22742
MEL cell line221
A54922
tissue
heart34
lung312
liver292
kidney221
spleen173
primary cell
common myeloid progenitor, CD34-positive28
endothelial cell of umbilical vein2011
CD4-positive helper T cell20
keratinocyte18
B cell16
in vitro differentiated cells
trophoblast cell16
myotube12
neuronal stem cell11
myocyte10
cardiac mesoderm9
stem cell
H1-hESC4811
H915
ES-Bruce4101
ES-E1410
H7-hESC6
induced pluripotent stem cell line
induced pluripotent stem cell8
iPS-20b6
iPS DF 19.115
iPS DF 6.94
iPS-15b4
whole organisms
whole organism13
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