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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
157
ChIP-seq
113
total RNA-seq
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
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
157
DNA binding
115
Transcription
4
3D chromatin structure
2
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
120
transcription factor
31
RNA binding protein
27
control
23
histone
23
histone modification
23
recombinant protein
15
chromatin remodeller
narrow histone mark
11
broad histone mark
3
nucleotide modification
Date released
November, 2017
87
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
27
October, 2019
22
January, 2019
11
November, 2019
8
March, 2020
6
February, 2023
6
November, 2020
4
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
248
bam
239
bigWig
133
bed narrowPeak
118
tsv
111
fastq
102
bigBed narrowPeak
8
tagAlign
3
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bed broadPeak
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
txt
1
vcf
Organism
302
Homo sapiens
Biosample type
2139
tissue
767
primary cell
306
cell line
293
in vitro differentiated cells
8
stem cell
Organ
83
liver
64
pancreas
59
blood
59
bodily fluid
58
artery
58
blood vessel
58
heart
58
vasculature
54
epithelium
19
kidney
8
embryo
1
mammary gland
Project
297
AMP
7
T1D
2
community
Genome assembly (visualization)
239
hg19
227
GRCh38
Lab
261
AMP-T2D consortium
32
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
67
inconsistent ontology term
1
inconsistent control
Audit category:
3
missing controlled_by
Audit category:
5
inconsistent control read length
4
inconsistent control run_type
1
inconsistent assembly
assay_title!
ATAC-seq
assembly!
hg18
month_released!
November, 2017
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
306 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
61
14
2
2
2
1
1
GM12878
59
smooth muscle cell of the coronary artery
6
52
EndoC_BH1
9
33
6
1
3
2
2
1
Panc1
10
1
1
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