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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
105
total RNA-seq
49
ChIP-seq
28
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
2
Capture-C
2
DNase-seq
2
Hi-C
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
whole genome sequencing assay
Assay category
105
Transcription
49
DNA binding
30
DNA accessibility
2
3D chromatin structure
1
DNA sequencing
Target of assay
23
transcription factor
19
control
10
histone
10
histone modification
7
recombinant protein
5
broad histone mark
5
narrow histone mark
3
nucleotide modification
1
RNA binding protein
Date released
96
February, 2021
44
August, 2021
30
October, 2019
20
May, 2021
November, 2019
8
March, 2020
6
November, 2020
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
563
bam
506
bigWig
fastq
390
bed narrowPeak
355
bigBed narrowPeak
116
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
206
Homo sapiens
Biosample type
2263
tissue
319
primary cell
248
in vitro differentiated cells
208
cell line
4
stem cell
Organ
72
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
59
epithelium
34
liver
19
kidney
8
embryo
1
blood
1
bodily fluid
1
mammary gland
Project
208
AMP
9
T1D
2
community
Genome assembly (visualization)
145
hg19
126
GRCh38
Lab
168
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
72
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
inconsistent assembly
month_released!
November, 2019
files.file_type!
fastq
BIOSAMPLE
ASSAY
208 results
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total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Capture-C
DNase-seq
Hi-C
CRISPR genome editing followed by sgRNA sequencing
MPRA
whole genome sequencing assay
cell line
smooth muscle cell of the coronary artery
52
6
8
EndoC_BH1
30
18
6
2
1
HepG2
9
18
1
2
2
1
1
Panc1
13
1
1
H1-hESC
8
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