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
241
ChIP-seq
Assay category
241
DNA binding
Target of assay
235
transcription factor
20
RNA binding protein
8
chromatin remodeller
6
histone
6
histone modification
6
other context
6
other post-translational modification
4
broad histone mark
2
narrow histone mark
Date released
59
October, 2011
53
August, 2012
52
May, 2012
33
September, 2011
12
December, 2014
10
July, 2011
10
June, 2012
5
February, 2011
5
February, 2012
2
April, 2017
Available data
241
bam
241
bed narrowPeak
241
bigBed narrowPeak
241
bigWig
241
fastq
13
bed broadPeak
13
bigBed broadPeak
Organism
157
Homo sapiens
84
Mus musculus
Biosample type
211
immortalized cell line
18
stem cell
10
primary cell
2
tissue
Organ
2
liver
Project
241
ENCODE
Genome assembly (visualization)
86
GRCh38
84
mm10
79
mm9
32
hg19
Audit category:
1
extremely low read depth
Audit category:
130
missing controlled_by
20
insufficient read depth
5
insufficient replicate concordance
4
insufficient read length
3
poor library complexity
3
severe bottlenecking
2
missing input control
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
241 results
search-icon
table-tab-icon
Clear Filters
ChIP-seq
immortalized cell line
MEL cell line
46
K562
41
CH12.LX
38
GM12878
32
HepG2
24
+ See 5 more…
stem cell
H1-hESC
18
primary cell
IMR-90
10
tissue
liver
2
See all biosamples
Download
Visualize