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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
146
ChIP-seq
109
total RNA-seq
29
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
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
146
DNA binding
111
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
113
transcription factor
31
RNA binding protein
18
control
16
histone
16
histone modification
16
recombinant protein
15
chromatin remodeller
9
narrow histone mark
7
broad histone mark
3
nucleotide modification
Date released
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
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
239
bam
234
bigWig
140
bed narrowPeak
115
tsv
112
fastq
98
bigBed narrowPeak
8
tagAlign
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
313
Homo sapiens
Biosample type
2413
tissue
1045
primary cell
386
in vitro differentiated cells
317
cell line
10
stem cell
Organ
86
liver
77
epithelium
77
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
8
embryo
4
kidney
1
mammary gland
Project
306
AMP
9
T1D
2
community
Genome assembly (visualization)
244
hg19
227
GRCh38
Lab
270
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:
79
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
month_released!
October, 2019
November, 2017
BIOSAMPLE
ASSAY
317 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
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
15
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
H1-hESC
8
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