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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
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
682
DNA binding
253
Transcription
DNA accessibility
8
3D chromatin structure
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
67
August, 2017
61
November, 2018
43
December, 2017
39
February, 2018
32
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
843
bam
763
bigWig
567
fastq
502
bed narrowPeak
367
bigBed narrowPeak
249
tsv
60
tagAlign
58
bed broadPeak
58
bigBed broadPeak
23
bed bed3+
9
bedpe bed3+
6
hic
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
978
Homo sapiens
Biosample type
2307
tissue
800
primary cell
631
cell line
351
in vitro differentiated cells
9
stem cell
Organ
415
liver
83
epithelium
79
connective tissue
75
pancreas
60
blood
60
bodily fluid
59
heart
58
artery
58
blood vessel
58
vasculature
37
embryo
18
kidney
1
adipose tissue
1
mammary gland
Project
971
AMP
9
T1D
2
community
Genome assembly (visualization)
769
hg19
699
GRCh38
4
hg18
Lab
891
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_slims!
DNA accessibility
assay_title!
CRISPR RNA-seq
files.file_type!
bed bedgraph
BIOSAMPLE
ASSAY
982 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
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
+ See 14 more…
in vitro differentiated cells
adipocyte
67
5
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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