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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
624
ChIP-seq
249
total RNA-seq
71
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
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
624
DNA binding
253
Transcription
72
DNA accessibility
8
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
366
transcription factor
136
histone
136
histone modification
120
control
89
recombinant protein
72
RNA binding protein
68
narrow histone mark
67
broad histone mark
29
chromatin remodeller
3
nucleotide modification
1
other context
1
other post-translational modification
Date released
257
November, 2017
153
May, 2021
122
February, 2021
86
August, 2021
67
August, 2017
61
November, 2018
43
December, 2017
39
February, 2018
37
October, 2019
28
December, 2018
23
January, 2019
22
February, 2023
21
November, 2019
19
March, 2020
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
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
992
Homo sapiens
Biosample type
2561
tissue
1039
primary cell
603
cell line
393
in vitro differentiated cells
10
stem cell
Organ
358
liver
103
epithelium
96
connective tissue
94
pancreas
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
37
embryo
19
kidney
1
adipose tissue
1
mammary gland
Project
985
AMP
9
T1D
2
community
Genome assembly (visualization)
767
hg19
683
GRCh38
4
hg18
Lab
895
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 control
1
inconsistent replicate
Audit category:
19
missing controlled_by
Audit category:
30
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.file_type!
bigBed broadPeak
BIOSAMPLE
ASSAY
996 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
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
320
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
GM12878
60
1
Panc1
13
1
+ See 14 more…
in vitro differentiated cells
adipocyte
67
5
8
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…
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