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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
663
ChIP-seq
249
total RNA-seq
60
ATAC-seq
10
pCHi-C
7
Hi-C
6
MeRIP-seq
5
STARR-seq
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
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
663
DNA binding
253
Transcription
62
DNA accessibility
7
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
404
transcription factor
142
histone
142
histone modification
115
control
89
recombinant protein
76
RNA binding protein
71
broad histone mark
70
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
117
February, 2021
84
August, 2021
61
August, 2017
61
November, 2018
39
February, 2018
36
October, 2019
31
December, 2017
28
December, 2018
23
January, 2019
21
November, 2019
19
March, 2020
15
February, 2023
6
November, 2020
5
January, 2018
2
December, 2019
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
873
bam
781
bigWig
568
fastq
536
bed narrowPeak
372
bigBed narrowPeak
250
tsv
60
bed broadPeak
60
bigBed broadPeak
60
tagAlign
bed bed3+
9
bedpe bed3+
bed bedgraph
6
bed bed3
6
hic
4
txt
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
1017
Homo sapiens
Biosample type
2572
tissue
1051
primary cell
659
cell line
362
in vitro differentiated cells
6
stem cell
Organ
415
liver
103
epithelium
93
pancreas
80
connective tissue
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
34
embryo
19
kidney
1
adipose tissue
1
mammary gland
Project
1010
AMP
9
T1D
2
community
Genome assembly (visualization)
792
hg19
708
GRCh38
4
hg18
Lab
925
AMP-T2D consortium
52
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Struan F.A. Grant, CHOP
Audit category:
204
inconsistent ontology term
2
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
19
missing controlled_by
Audit category:
35
inconsistent control read length
8
inconsistent control run_type
assay_title!
CRISPR RNA-seq
files.file_type!
bed bed3+
bed bedgraph
BIOSAMPLE
ASSAY
1021 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
MeRIP-seq
STARR-seq
GRO-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
1
2
2
1
1
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
+ See 14 more…
in vitro differentiated cells
adipocyte
60
5
3
1
cardiomyocytes
3
59
embryonic stem cell
40
7
5
1
neural progenitor cell
21
7
10
cardiac precursors (cardiac muscle cell)
19
1
1
+ See 29 more…
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