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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
611
ChIP-seq
123
total RNA-seq
29
ATAC-seq
11
DNase-seq
11
WGBS
5
GRO-seq
3
RRBS
2
FAIRE-seq
1
Hi-C
1
pCHi-C
Assay category
611
DNA binding
123
Transcription
42
DNA accessibility
14
DNA methylation
1
3D chromatin structure
Target of assay
449
transcription factor
157
histone modification
156
histone
control
85
broad histone mark
84
RNA binding protein
82
recombinant protein
70
narrow histone mark
35
chromatin remodeller
5
other context
5
other post-translational modification
Date released
259
November, 2017
211
August, 2017
81
November, 2018
73
December, 2017
31
December, 2018
31
February, 2018
31
October, 2018
26
January, 2019
24
May, 2022
15
October, 2017
6
April, 2018
5
January, 2018
2
July, 2018
1
August, 2018
1
March, 2019
Available data
2543
bigWig
2509
bam
1522
bed narrowPeak
1329
tsv
933
bigBed narrowPeak
797
fastq
273
bed broadPeak
236
bigBed broadPeak
232
tagAlign
227
bed bed3+
161
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
19
bedpe bed3+
17
hic
11
bed bed3
7
bed bedgraph
6
csv
3
tar
2
ibed
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
791
Homo sapiens
Biosample type
primary cell
365
cell line
310
tissue
119
in vitro differentiated cells
3
stem cell
Organ
388
liver
195
pancreas
73
connective tissue
54
blood
54
bodily fluid
25
adipose tissue
20
embryo
16
epithelium
16
spleen
10
brain
2
musculature of body
Project
797
AMP
Genome assembly (visualization)
760
hg19
713
GRCh38
5
hg18
Lab
771
AMP-T2D consortium
24
Kyle Gaulton, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
28
inconsistent control
2
inconsistent ontology term
Audit category:
45
missing controlled_by
Audit category:
51
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
organ_slims!
mammary gland
target.investigated_as!
control
biosample_type!
primary cell
BIOSAMPLE
ASSAY
797 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
GRO-seq
RRBS
FAIRE-seq
Hi-C
pCHi-C
cell line
HepG2
304
5
1
1
GM12878
54
tissue
islet of Langerhans
21
103
20
1
1
liver
50
2
1
1
body of pancreas
25
4
2
2
pancreas
13
2
1
spleen
12
1
1
2
+ See 8 more…
in vitro differentiated cells
adipocyte
47
1
pancreatic endoderm
13
4
1
hepatocyte
14
definitive endodermal cell
6
2
1
primitive gut cell
6
2
1
+ See 7 more…
stem cell
hESC
2
1
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