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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
106
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
Assay category
106
DNA binding
Transcription
30
DNA accessibility
2
3D chromatin structure
Target of assay
64
transcription factor
23
control
20
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
27
December, 2018
26
October, 2019
18
January, 2019
17
May, 2021
16
February, 2021
15
November, 2018
15
November, 2019
7
March, 2020
6
February, 2023
6
November, 2020
5
August, 2021
1
January, 2018
1
October, 2022
Available data
117
bam
96
bed narrowPeak
91
bigWig
62
bigBed narrowPeak
60
fastq
8
tagAlign
5
tsv
2
bed bed3+
1
bed broadPeak
1
bedpe bed3+
1
bigBed broadPeak
1
hdf5
1
hic
1
txt
Organism
158
Homo sapiens
Biosample type
1323
tissue
643
primary cell
241
in vitro differentiated cells
160
cell line
8
stem cell
Organ
liver
61
blood
61
bodily fluid
59
pancreas
45
epithelium
15
kidney
14
artery
14
blood vessel
14
heart
14
vasculature
1
mammary gland
Project
153
AMP
7
T1D
Genome assembly (visualization)
101
hg19
97
GRCh38
Lab
146
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
3
Bing Ren, UCSD
Audit category:
56
inconsistent ontology term
1
inconsistent control
Audit category:
1
inconsistent assembly
assay_slims!
Transcription
organ_slims!
liver
BIOSAMPLE
ASSAY
160 results
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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
cell line
GM12878
60
1
EndoC_BH1
15
19
6
3
2
1
2
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
RCC 7860 HIF1a re-expression
4
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