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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
272
ChIP-seq
249
total RNA-seq
71
ATAC-seq
11
pCHi-C
8
Hi-C
6
MeRIP-seq
5
STARR-seq
4
Capture-C
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
3
DNase-seq
2
HiChIP
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
272
DNA binding
253
Transcription
74
DNA accessibility
8
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
150
histone
150
histone modification
120
control
89
recombinant protein
76
RNA binding protein
75
broad histone mark
74
narrow histone mark
33
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
137
May, 2021
117
February, 2021
75
August, 2021
74
November, 2017
46
August, 2017
39
February, 2018
32
December, 2017
31
October, 2019
22
February, 2023
20
November, 2019
19
March, 2020
9
January, 2019
6
November, 2020
5
January, 2018
4
November, 2018
3
December, 2018
2
December, 2019
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
487
bam
388
bigWig
250
tsv
198
fastq
152
bed narrowPeak
51
tagAlign
42
bigBed narrowPeak
22
bed bed3+
16
bed broadPeak
16
bigBed broadPeak
9
bedpe bed3+
7
bed bedgraph
6
bed bed3
6
hic
4
txt
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
642
Homo sapiens
Biosample type
2681
tissue
1078
primary cell
345
in vitro differentiated cells
301
cell line
10
stem cell
Organ
117
liver
99
epithelium
93
pancreas
75
connective tissue
63
heart
62
artery
62
blood vessel
62
vasculature
34
embryo
12
kidney
10
blood
10
bodily fluid
1
adipose tissue
1
mammary gland
Project
635
AMP
9
T1D
2
community
Genome assembly (visualization)
438
hg19
383
GRCh38
4
hg18
Lab
568
AMP-T2D consortium
40
Kyle Gaulton, UCSD
23
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
196
inconsistent ontology term
2
audit script error
1
inconsistent replicate
Audit category:
2
missing controlled_by
Audit category:
18
inconsistent control read length
1
inconsistent assembly
organ_slims!
pituitary gland
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
646 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
MeRIP-seq
STARR-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
DNase-seq
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
in vitro differentiated cells
adipocyte
45
5
8
1
1
cardiomyocytes
59
embryonic stem cell
28
7
6
1
neural progenitor cell
21
7
10
cardiac precursors (cardiac muscle cell)
19
1
1
+ See 31 more…
cell line
HepG2
81
14
1
2
2
2
1
1
EndoC_BH1
14
33
19
1
6
2
3
2
1
smooth muscle cell of the coronary artery
2
52
8
Panc1
13
1
1
GM12878
9
1
+ See 14 more…
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