Toggle navigation
ENCODE
Data
Matrix
Search
Search by region
Reference epigenomes
Publications
Encyclopedia
About
Matrix
Search
Materials & Methods
Antibodies
Biosamples
Genome references
Standards and guidelines
Ontologies
File formats
Software tools
Pipelines
Release policy
Data access
Help
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
67
ChIP-seq
8
small RNA-seq
6
polyA mRNA RNA-seq
4
CAGE
4
total RNA-seq
Assay category
67
DNA binding
22
Transcription
Target of assay
36
control
31
recombinant protein
31
transcription factor
Date released
56
May, 2016
22
March, 2014
5
September, 2016
4
January, 2017
2
July, 2016
Available data
89
fastq
71
bam
70
bigWig
31
bed narrowPeak
31
bigBed narrowPeak
Organism
63
Caenorhabditis elegans
22
Drosophila melanogaster
4
Drosophila pseudoobscura
Biosample type
69
whole organisms
18
immortalized cell line
2
tissue
Organ
2
gonad
1
ovary
1
testis
Project
67
modERN
22
modENCODE
Genome assembly (visualization)
63
ce11
62
ce10
7
dm3
4
dm6
Audit category:
4
missing controlled_by
4
missing possible_controls
1
poor library complexity
1
severe bottlenecking
Audit category:
2781
low read length
2377
mild to moderate bottlenecking
1798
low read depth
1068
moderate library complexity
945
inconsistent platforms
828
inconsistent control read length
730
control low read depth
560
antibody characterized with exemption
467
mixed read lengths
382
insufficient read depth
335
borderline replicate concordance
306
missing external identifiers
241
inconsistent target of control experiment
165
low spot score
148
mixed run types
128
inconsistent control run_type
110
missing spikeins
89
low replicate concordance
89
missing genotype
9
missing tag construct
1
high lambda C methylation ratio
BIOSAMPLE
ASSAY
89 results
search-icon
table-tab-icon
Clear Filters
ChIP-seq
small RNA-seq
polyA mRNA RNA-seq
CAGE
total RNA-seq
whole organisms
whole organism
67
carcass
2
immortalized cell line
CME-W1-Cl.8+
8
1
1
CME-L1
1
1
CME-W2
1
1
GM2
1
1
OSC
1
+ See 1 more…
tissue
ovary
1
testis
1
See all biosamples
Download
Visualize