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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
684
ChIP-seq
243
total RNA-seq
69
ATAC-seq
6
Hi-C
6
MeRIP-seq
5
GRO-seq
5
STARR-seq
4
Capture-C
3
CRISPR genome editing followed by DNA sequencing
3
DNase-seq
3
pCHi-C
2
HiChIP
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
684
DNA binding
247
Transcription
72
DNA accessibility
6
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
410
transcription factor
151
histone
151
histone modification
121
control
89
recombinant protein
76
RNA binding protein
76
broad histone mark
74
narrow histone mark
33
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
153
May, 2021
122
February, 2021
86
August, 2021
68
August, 2017
61
November, 2018
46
December, 2017
39
February, 2018
38
October, 2019
28
December, 2018
23
January, 2019
March, 2020
22
February, 2023
21
November, 2019
6
January, 2018
6
November, 2020
4
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
869
bam
775
bigWig
572
fastq
537
bed narrowPeak
372
bigBed narrowPeak
235
tsv
60
bed broadPeak
60
bigBed broadPeak
60
tagAlign
31
bed bed3+
7
bed bedgraph
6
bed bed3
5
bedpe bed3+
4
hic
4
txt
3
tar
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
1035
Homo sapiens
Biosample type
tissue
primary cell
651
cell line
384
in vitro differentiated cells
6
stem cell
Organ
416
liver
98
epithelium
97
connective tissue
90
pancreas
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
37
embryo
17
kidney
1
adipose tissue
Project
1031
AMP
6
T1D
4
community
Genome assembly (visualization)
817
hg19
725
GRCh38
5
hg18
Lab
938
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.
4
Anna Gloyn, Oxford
Audit category:
193
inconsistent ontology term
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
19
missing controlled_by
Audit category:
45
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
biosample_type!
tissue
primary cell
audit.ERROR.category!
audit script error
month_released!
March, 2020
BIOSAMPLE
ASSAY
1041 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
Hi-C
MeRIP-seq
GRO-seq
STARR-seq
Capture-C
CRISPR genome editing followed by DNA sequencing
DNase-seq
pCHi-C
HiChIP
CRISPR RNA-seq
CRISPR genome editing followed by sgRNA sequencing
CRISPRi RNA-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
EndoC_BH1
14
31
17
1
6
2
3
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
+ See 10 more…
in vitro differentiated cells
adipocyte
67
5
8
1
1
cardiomyocytes
3
59
embryonic stem cell
40
7
6
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
+ See 30 more…
stem cell
hESC
3
1
SB Ad3.1
1
1
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