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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
672
ChIP-seq
245
total RNA-seq
71
ATAC-seq
9
pCHi-C
8
Hi-C
6
MeRIP-seq
4
Capture-C
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
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
672
DNA binding
249
Transcription
73
DNA accessibility
8
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
403
transcription factor
150
histone
150
histone modification
117
control
82
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
153
May, 2021
122
February, 2021
84
August, 2021
68
August, 2017
61
November, 2018
43
December, 2017
39
February, 2018
28
December, 2018
23
January, 2019
23
October, 2019
22
February, 2023
21
November, 2019
17
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
858
bam
769
bigWig
568
fastq
528
bed narrowPeak
371
bigBed narrowPeak
244
tsv
60
bed broadPeak
60
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
1033
Homo sapiens
Biosample type
2383
tissue
1010
primary cell
643
cell line
394
in vitro differentiated cells
10
stem cell
Organ
416
liver
103
epithelium
97
connective tissue
95
pancreas
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
37
embryo
kidney
1
adipose tissue
1
mammary gland
Project
1026
AMP
9
T1D
2
community
Genome assembly (visualization)
815
hg19
717
GRCh38
4
hg18
Lab
938
AMP-T2D consortium
52
Kyle Gaulton, UCSD
32
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
192
inconsistent ontology term
2
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
19
missing controlled_by
Audit category:
43
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
month_released!
June, 2019
organ_slims!
kidney
BIOSAMPLE
ASSAY
1037 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
MeRIP-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
STARR-seq
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
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
1
+ See 8 more…
in vitro differentiated cells
adipocyte
67
5
8
1
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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