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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
99
total RNA-seq
86
ChIP-seq
28
ATAC-seq
6
MeRIP-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
2
Capture-C
2
DNase-seq
2
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
101
Transcription
86
DNA binding
30
DNA accessibility
2
3D chromatin structure
Target of assay
64
transcription factor
23
control
histone
20
histone modification
11
RNA binding protein
10
broad histone mark
10
chromatin remodeller
10
narrow histone mark
7
recombinant protein
3
nucleotide modification
Date released
94
February, 2021
27
December, 2018
23
October, 2019
20
May, 2021
17
January, 2019
15
November, 2018
13
August, 2021
10
March, 2020
6
February, 2023
6
November, 2019
6
November, 2020
2
March, 2023
1
January, 2018
1
October, 2022
Available data
196
bam
171
bigWig
104
tsv
77
bed narrowPeak
59
fastq
55
bigBed narrowPeak
8
tagAlign
2
bed bed3+
1
bed broadPeak
1
bedpe bed3+
1
bigBed broadPeak
1
hdf5
1
hic
1
txt
Organism
237
Homo sapiens
Biosample type
1858
tissue
840
primary cell
279
in vitro differentiated cells
241
cell line
8
stem cell
Organ
liver
73
pancreas
67
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
60
blood
60
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
232
AMP
7
T1D
2
community
Genome assembly (visualization)
181
hg19
177
GRCh38
Lab
225
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
3
Bing Ren, UCSD
2
Anna Gloyn, Oxford
Audit category:
80
inconsistent ontology term
1
inconsistent control
Audit category:
1
inconsistent assembly
organ_slims!
liver
target.investigated_as!
histone
BIOSAMPLE
ASSAY
241 results
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total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
Capture-C
DNase-seq
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
cell line
EndoC_BH1
33
3
19
6
3
2
1
2
1
smooth muscle cell of the coronary artery
52
6
8
GM12878
59
1
H1-hESC
8
Panc1
6
1
1
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