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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
169
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
DNase-seq
HiChIP
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
169
DNA binding
115
Transcription
29
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
120
transcription factor
31
RNA binding protein
27
control
23
histone
23
histone modification
23
recombinant protein
15
chromatin remodeller
12
narrow histone mark
11
broad histone mark
3
nucleotide modification
Date released
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
28
December, 2018
28
October, 2019
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
November, 2020
4
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
266
bam
252
bigWig
153
bed narrowPeak
119
tsv
112
fastq
104
bigBed narrowPeak
8
tagAlign
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
339
Homo sapiens
Biosample type
2501
tissue
1048
primary cell
393
in vitro differentiated cells
343
cell line
10
stem cell
Organ
91
pancreas
86
liver
78
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
18
kidney
8
embryo
1
mammary gland
Project
334
AMP
7
T1D
2
community
Genome assembly (visualization)
262
hg19
245
GRCh38
Lab
298
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
3
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
92
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
3
missing controlled_by
Audit category:
5
inconsistent control read length
4
inconsistent control run_type
1
inconsistent assembly
assay_title!
DNase-seq
HiChIP
month_released!
November, 2017
organ_slims!
skeleton
BIOSAMPLE
ASSAY
343 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
63
14
1
2
2
2
1
1
EndoC_BH1
15
33
19
6
1
3
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
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