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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
116
ChIP-seq
104
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
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
Assay category
116
DNA binding
106
Transcription
31
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
transcription factor
89
recombinant protein
79
control
64
RNA binding protein
35
histone
35
histone modification
30
chromatin remodeller
18
broad histone mark
17
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
91
February, 2021
74
November, 2017
23
October, 2019
21
May, 2021
15
November, 2019
11
March, 2020
10
August, 2021
9
January, 2019
6
February, 2023
6
November, 2020
4
November, 2018
3
December, 2018
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
233
bam
163
bigWig
110
tsv
90
fastq
49
bed narrowPeak
27
bigBed narrowPeak
15
bed broadPeak
15
bigBed broadPeak
15
tagAlign
3
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
274
Homo sapiens
Biosample type
2644
tissue
1078
primary cell
345
in vitro differentiated cells
278
cell line
10
stem cell
Organ
91
pancreas
84
liver
78
epithelium
62
artery
62
blood vessel
62
heart
62
vasculature
10
blood
10
bodily fluid
10
kidney
8
embryo
1
mammary gland
Project
267
AMP
9
T1D
2
community
Genome assembly (visualization)
174
hg19
155
GRCh38
Lab
265
AMP-T2D consortium
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
83
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
11
inconsistent control read length
1
inconsistent assembly
target.investigated_as!
transcription factor
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
278 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
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
cell line
HepG2
74
5
1
2
1
1
EndoC_BH1
14
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
2
52
8
Panc1
13
1
1
GM12878
9
1
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