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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
682
ChIP-seq
249
total RNA-seq
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
3
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
682
DNA binding
253
Transcription
8
3D chromatin structure
3
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
410
transcription factor
150
histone
150
histone modification
120
control
89
recombinant protein
76
RNA binding protein
75
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
132
May, 2021
109
February, 2021
74
August, 2021
68
August, 2017
61
November, 2018
43
December, 2017
39
February, 2018
34
October, 2019
28
December, 2018
23
January, 2019
17
March, 2020
15
November, 2019
10
February, 2023
6
November, 2020
4
January, 2018
2
December, 2019
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
846
bam
766
bigWig
568
fastq
505
bed narrowPeak
370
bigBed narrowPeak
249
tsv
60
bed broadPeak
60
bigBed broadPeak
60
tagAlign
24
bed bed3+
9
bedpe bed3+
6
hic
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
981
Homo sapiens
Biosample type
2477
tissue
888
primary cell
633
cell line
352
in vitro differentiated cells
10
stem cell
Organ
415
liver
84
epithelium
80
connective tissue
76
pancreas
60
blood
60
bodily fluid
59
heart
58
artery
58
blood vessel
58
vasculature
37
embryo
19
kidney
1
adipose tissue
1
mammary gland
Project
974
AMP
9
T1D
2
community
Genome assembly (visualization)
772
hg19
702
GRCh38
4
hg18
Lab
894
AMP-T2D consortium
47
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:
178
inconsistent ontology term
2
audit script error
1
inconsistent control
Audit category:
19
missing controlled_by
Audit category:
43
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
ATAC-seq
BIOSAMPLE
ASSAY
985 results
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Clear Filters
ChIP-seq
total RNA-seq
pCHi-C
Hi-C
MeRIP-seq
STARR-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
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
2
2
2
1
1
EndoC_BH1
15
33
1
6
2
3
2
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
Panc1
13
1
1
+ See 14 more…
in vitro differentiated cells
adipocyte
67
5
1
1
cardiomyocytes
3
59
embryonic stem cell
40
7
1
neural progenitor cell
21
7
pancreatic endoderm
18
4
1
+ See 27 more…
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