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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
315
ChIP-seq
249
total RNA-seq
69
ATAC-seq
11
pCHi-C
8
Hi-C
6
MeRIP-seq
5
STARR-seq
4
Capture-C
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
2
single cell RNA-seq
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
315
DNA binding
253
Transcription
69
DNA accessibility
8
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
120
control
118
histone
118
histone modification
80
transcription factor
59
narrow histone mark
58
broad histone mark
13
RNA binding protein
8
recombinant protein
3
nucleotide modification
2
chromatin remodeller
Date released
153
May, 2021
122
February, 2021
86
August, 2021
67
August, 2017
66
November, 2017
39
February, 2018
29
December, 2017
28
October, 2019
22
February, 2023
21
November, 2019
19
March, 2020
8
January, 2019
6
November, 2020
5
January, 2018
5
November, 2018
2
December, 2019
2
March, 2023
1
August, 2018
1
December, 2018
1
May, 2020
1
October, 2022
Available data
873
bam
781
bigWig
568
fastq
536
bed narrowPeak
bigBed narrowPeak
250
tsv
60
bed broadPeak
60
bigBed broadPeak
60
tagAlign
28
bed bed3+
9
bedpe bed3+
7
bed bedgraph
6
bed bed3
6
hic
4
txt
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
680
Homo sapiens
Biosample type
2176
tissue
979
primary cell
377
in vitro differentiated cells
307
cell line
10
stem cell
Organ
109
liver
94
connective tissue
88
epithelium
88
pancreas
67
heart
66
artery
66
blood vessel
66
vasculature
37
embryo
18
kidney
7
blood
7
bodily fluid
1
adipose tissue
1
mammary gland
Project
673
AMP
9
T1D
2
community
Genome assembly (visualization)
459
hg19
391
GRCh38
4
hg18
Lab
583
AMP-T2D consortium
52
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
207
inconsistent ontology term
2
audit script error
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
19
inconsistent control read length
1
inconsistent assembly
files.file_type!
bigBed narrowPeak
BIOSAMPLE
ASSAY
684 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
MeRIP-seq
STARR-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
in vitro differentiated cells
adipocyte
67
5
6
1
cardiomyocytes
3
59
embryonic stem cell
40
7
6
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
+ See 31 more…
cell line
HepG2
85
14
1
2
2
2
1
1
EndoC_BH1
15
33
19
1
6
2
3
2
1
smooth muscle cell of the coronary artery
6
52
8
H1-hESC
8
Panc1
7
1
+ See 14 more…
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