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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
81
ChIP-seq
63
total RNA-seq
9
ATAC-seq
3
CRISPR genome editing followed by DNA sequencing
2
DNase-seq
2
HiChIP
2
STARR-seq
2
pCHi-C
1
CRISPR genome editing followed by sgRNA sequencing
1
Hi-C
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
81
DNA binding
65
Transcription
11
DNA accessibility
1
3D chromatin structure
Target of assay
56
transcription factor
15
control
10
RNA binding protein
10
chromatin remodeller
8
histone
8
histone modification
4
broad histone mark
4
narrow histone mark
Date released
68
February, 2021
27
December, 2018
18
January, 2019
17
October, 2019
15
November, 2018
10
August, 2021
6
February, 2023
4
March, 2020
2
March, 2023
1
January, 2018
1
October, 2022
Available data
154
bam
132
bigWig
75
bed narrowPeak
65
tsv
62
bigBed narrowPeak
60
fastq
8
tagAlign
2
bed bed3+
1
bed broadPeak
1
bigBed broadPeak
1
hdf5
1
txt
Organism
165
Homo sapiens
Biosample type
2285
tissue
1021
primary cell
264
in vitro differentiated cells
169
cell line
9
stem cell
Organ
liver
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
16
pancreas
8
embryo
4
kidney
3
epithelium
1
mammary gland
Project
162
AMP
5
T1D
2
community
Genome assembly (visualization)
140
hg19
139
GRCh38
Lab
160
AMP-T2D consortium
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
2
Bing Ren, UCSD
Audit category:
inconsistent ontology term
1
inconsistent control
Audit category:
1
inconsistent assembly
audit.ERROR.category!
inconsistent ontology term
organ_slims!
liver
BIOSAMPLE
ASSAY
169 results
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ChIP-seq
total RNA-seq
ATAC-seq
CRISPR genome editing followed by DNA sequencing
DNase-seq
HiChIP
STARR-seq
pCHi-C
CRISPR genome editing followed by sgRNA sequencing
Hi-C
MPRA
shRNA RNA-seq
siRNA RNA-seq
cell line
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
EndoC_BH1
3
2
1
EndoC-BH1
1
1
HEK293T
2
early embryonic cell
2
glomerular visceral epithelial cell
1
1
iPSC derived cell line
2
MCF-7
1
MIN6
1
fibroblast cell line
1
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