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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
47
total RNA-seq
40
ChIP-seq
19
ATAC-seq
6
MeRIP-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
Hi-C
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
49
Transcription
40
DNA binding
21
DNA accessibility
1
3D chromatin structure
Target of assay
19
histone
19
histone modification
15
control
10
broad histone mark
9
narrow histone mark
9
transcription factor
7
recombinant protein
3
nucleotide modification
1
RNA binding protein
Date released
30
October, 2019
28
February, 2021
21
May, 2021
15
November, 2019
13
August, 2021
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
October, 2022
Available data
90
bam
79
bigWig
52
tsv
30
bed narrowPeak
8
bigBed narrowPeak
2
bed bed3+
2
tagAlign
1
bed broadPeak
bedpe bed3+
1
bigBed broadPeak
1
hdf5
1
hic
1
txt
Organism
129
Homo sapiens
Biosample type
2334
tissue
1060
primary cell
372
in vitro differentiated cells
133
cell line
10
stem cell
Organ
liver
91
pancreas
78
epithelium
artery
66
blood vessel
66
heart
66
vasculature
blood
61
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
122
AMP
9
T1D
2
community
Genome assembly (visualization)
80
hg19
78
GRCh38
Lab
117
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
3
Bing Ren, UCSD
2
Anna Gloyn, Oxford
Audit category:
91
inconsistent ontology term
Audit category:
1
inconsistent assembly
files.file_type!
bedpe bed3+
organ_slims!
artery
blood
liver
BIOSAMPLE
ASSAY
133 results
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Clear Filters
total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
Hi-C
MPRA
shRNA RNA-seq
siRNA RNA-seq
cell line
EndoC_BH1
33
15
19
6
3
2
2
1
Panc1
13
1
1
H1-hESC
8
RCC 7860 HIF1a re-expression
1
4
RCC 7860 vector
1
3
1
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