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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
104
total RNA-seq
41
ChIP-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
106
Transcription
41
DNA binding
29
DNA accessibility
2
3D chromatin structure
1
DNA sequencing
Target of assay
17
transcription factor
15
histone
15
histone modification
12
control
8
narrow histone mark
7
broad histone mark
3
nucleotide modification
2
RNA binding protein
Date released
96
February, 2021
44
August, 2021
October, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
553
bam
502
bigWig
fastq
389
bed narrowPeak
347
bigBed narrowPeak
115
tsv
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
201
Homo sapiens
Biosample type
1969
tissue
620
primary cell
245
in vitro differentiated cells
205
cell line
6
stem cell
Organ
77
epithelium
77
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
34
liver
8
embryo
4
kidney
1
blood
1
bodily fluid
1
mammary gland
Project
194
AMP
9
T1D
2
community
Genome assembly (visualization)
143
hg19
123
GRCh38
Lab
158
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
79
inconsistent ontology term
1
inconsistent replicate
files.file_type!
bed broadPeak
fastq
month_released!
October, 2019
BIOSAMPLE
ASSAY
205 results
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Clear Filters
total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
33
15
19
6
3
2
1
2
1
smooth muscle cell of the coronary artery
52
6
8
HepG2
9
18
1
2
2
1
1
H1-hESC
8
EndoC-BH1
1
1
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