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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
471
ChIP-seq
231
total RNA-seq
55
ATAC-seq
7
Hi-C
3
pCHi-C
2
Capture-C
1
DNase-seq
Assay category
471
DNA binding
231
Transcription
56
DNA accessibility
7
3D chromatin structure
Target of assay
345
transcription factor
102
histone
102
histone modification
85
recombinant protein
64
RNA binding protein
54
narrow histone mark
47
broad histone mark
29
chromatin remodeller
19
control
1
other context
1
other post-translational modification
Date released
208
November, 2017
119
February, 2021
94
May, 2021
56
August, 2021
54
November, 2018
48
August, 2017
41
December, 2017
31
February, 2018
27
December, 2018
27
October, 2019
20
January, 2019
19
November, 2019
13
March, 2020
12
February, 2023
1
January, 2018
Available data
776
bam
773
bigWig
533
bed narrowPeak
488
fastq
368
bigBed narrowPeak
232
tsv
bed broadPeak
60
bigBed broadPeak
34
tagAlign
31
bed bed3+
8
bedpe bed3+
7
bed bedgraph
6
bed bed3
6
hic
3
tar
3
txt
2
ibed
1
hdf5
Organism
770
Homo sapiens
Biosample type
tissue
primary cell
471
cell line
296
in vitro differentiated cells
3
stem cell
Organ
286
liver
72
connective tissue
72
epithelium
65
heart
64
artery
64
blood vessel
64
vasculature
59
pancreas
55
blood
55
bodily fluid
29
embryo
12
kidney
Project
766
AMP
4
T1D
Genome assembly (visualization)
770
hg19
686
GRCh38
5
hg18
Lab
743
AMP-T2D consortium
15
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
5
Kyle Gaulton, UCSD
Audit category:
168
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
17
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.file_type!
bed broadPeak
biosample_type!
tissue
primary cell
BIOSAMPLE
ASSAY
770 results
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ChIP-seq
total RNA-seq
ATAC-seq
Hi-C
pCHi-C
Capture-C
DNase-seq
cell line
HepG2
264
5
1
1
1
smooth muscle cell of the coronary artery
4
52
8
GM12878
54
1
EndoC_BH1
13
33
3
1
H1-hESC
8
+ See 7 more…
in vitro differentiated cells
cardiomyocytes
3
59
adipocyte
48
4
8
1
neural progenitor cell
12
7
10
cardiac precursors (cardiac muscle cell)
19
1
1
pancreatic endoderm
13
4
+ See 30 more…
stem cell
hESC
3
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