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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
718
ChIP-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
718
DNA binding
Transcription
42
DNA accessibility
14
DNA methylation
1
3D chromatin structure
Target of assay
414
transcription factor
152
control
147
histone modification
146
histone
81
RNA binding protein
81
broad histone mark
81
recombinant protein
64
narrow histone mark
29
chromatin remodeller
5
other context
5
other post-translational modification
Date released
305
November, 2017
113
August, 2017
93
December, 2017
84
November, 2018
58
October, 2018
35
December, 2018
25
January, 2019
24
February, 2018
18
May, 2022
13
October, 2017
6
September, 2017
5
January, 2018
1
August, 2018
1
March, 2019
Available data
1585
bam
1506
bed narrowPeak
1366
bigWig
918
bigBed narrowPeak
781
fastq
294
tagAlign
271
bed broadPeak
236
bigBed broadPeak
222
bed bed3+
89
txt
64
xls
38
tsv
26
bed bedMethyl
26
bigBed bedMethyl
19
bedpe bed3+
17
hic
11
bed bed3
7
bed bedgraph
3
tar
2
ibed
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
774
Homo sapiens
Biosample type
409
cell line
248
tissue
120
in vitro differentiated cells
primary cell
4
stem cell
Organ
447
liver
100
pancreas
81
connective tissue
60
blood
60
bodily fluid
32
adipose tissue
24
spleen
22
embryo
19
epithelium
8
brain
2
musculature of body
Project
781
AMP
Genome assembly (visualization)
623
hg19
570
GRCh38
5
hg18
Lab
761
AMP-T2D consortium
18
Kyle Gaulton, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
28
inconsistent control
4
inconsistent ontology term
Audit category:
missing controlled_by
Audit category:
46
inconsistent control read length
2
inconsistent control run_type
1
inconsistent assembly
assay_slims!
Transcription
audit.NOT_COMPLIANT.category!
missing controlled_by
biosample_type!
primary cell
BIOSAMPLE
ASSAY
781 results
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ChIP-seq
ATAC-seq
DNase-seq
WGBS
GRO-seq
RRBS
FAIRE-seq
Hi-C
pCHi-C
cell line
HepG2
347
1
1
GM12878
60
tissue
liver
67
2
1
1
body of pancreas
33
4
2
2
islet of Langerhans
18
20
1
1
spleen
20
1
1
2
pancreas
16
2
1
+ See 7 more…
in vitro differentiated cells
adipocyte
48
1
pancreatic endoderm
17
1
hepatocyte
15
definitive endodermal cell
8
1
primitive gut cell
8
1
+ See 6 more…
stem cell
hESC
3
1
See all biosamples
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