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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
156
ChIP-seq
112
total RNA-seq
28
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
DNase-seq
2
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
156
DNA binding
114
Transcription
30
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
119
transcription factor
30
RNA binding protein
25
control
23
recombinant protein
15
chromatin remodeller
13
histone
13
histone modification
8
narrow histone mark
5
broad histone mark
3
nucleotide modification
Date released
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
253
bam
242
bigWig
143
bed narrowPeak
118
tsv
112
fastq
106
bigBed narrowPeak
8
tagAlign
3
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bed broadPeak
1
bedpe bed3+
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
hic
1
txt
1
vcf
Organism
327
Homo sapiens
Biosample type
2615
tissue
1079
primary cell
389
in vitro differentiated cells
331
cell line
10
stem cell
Organ
86
liver
76
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
63
epithelium
61
blood
61
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
320
AMP
9
T1D
2
community
Genome assembly (visualization)
250
hg19
234
GRCh38
Lab
284
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
76
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
month_released!
November, 2019
November, 2017
BIOSAMPLE
ASSAY
331 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
DNase-seq
HiChIP
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
2
32
18
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
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