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Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
76
ChIP-seq
21
RIP-seq
3
eCLIP
2
iCLIP
Assay category
76
DNA binding
26
RNA binding
Target of assay
88
transcription factor
52
RNA binding protein
48
chromatin remodeller
6
other post-translational modification
4
histone
4
histone modification
4
narrow histone mark
Date released
28
July, 2014
22
May, 2016
19
November, 2016
9
December, 2016
9
January, 2017
5
June, 2016
3
September, 2014
2
November, 2015
1
August, 2016
1
February, 2017
1
July, 2015
1
July, 2016
1
October, 2016
Available data
97
fastq
75
bam
52
bed narrowPeak
52
bigBed narrowPeak
50
bigWig
21
tsv
Organism
102
Homo sapiens
Biosample type
83
immortalized cell line
7
stem cell
6
in vitro differentiated cells
5
tissue
1
primary cell
Organ
7
liver
Project
102
ENCODE
Genome assembly (visualization)
52
hg19
48
GRCh38
Audit category:
1415
insufficient read depth
838
control insufficient read depth
579
missing controlled_by
476
insufficient read length
310
unreplicated experiment
209
poor library complexity
202
control low read depth
197
severe bottlenecking
120
insufficient spot score
102
partially characterized antibody
82
missing possible_controls
66
missing RNA fragment size
47
insufficient replicate concordance
44
missing documents
20
uncharacterized antibody
17
antibody not characterized to standard
10
missing spikeins
2
insufficient coverage
2
missing input control
Audit category:
42
mild to moderate bottlenecking
33
low read depth
31
low read length
19
borderline replicate concordance
19
moderate library complexity
15
inconsistent control read length
10
mixed read lengths
6
inconsistent control run_type
5
mixed run types
4
control low read depth
4
inconsistent platforms
1
antibody characterized with exemption
BIOSAMPLE
ASSAY
102 results
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ChIP-seq
RIP-seq
eCLIP
iCLIP
immortalized cell line
K562
9
14
2
2
GM12878
11
7
A549
17
MCF-7
4
HepG2
2
1
+ See 11 more…
stem cell
H1-hESC
7
in vitro differentiated cells
bipolar neuron
2
hepatocyte
2
neural cell
1
neural progenitor cell
1
tissue
liver
5
primary cell
neutrophil
1
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