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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
131
ChIP-seq
113
total RNA-seq
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
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
131
DNA binding
115
Transcription
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
83
control
33
transcription factor
18
histone
18
histone modification
9
broad histone mark
9
narrow histone mark
8
recombinant protein
4
RNA binding protein
3
nucleotide modification
Date released
87
February, 2021
66
November, 2017
44
August, 2021
22
October, 2019
15
November, 2019
9
March, 2020
8
January, 2019
6
February, 2023
6
November, 2020
5
May, 2021
5
November, 2018
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
572
bam
519
bigWig
427
fastq
394
bed narrowPeak
bigBed narrowPeak
118
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
274
Homo sapiens
Biosample type
1919
tissue
801
primary cell
337
in vitro differentiated cells
278
cell line
10
stem cell
Organ
107
liver
66
pancreas
59
epithelium
58
artery
58
blood vessel
58
heart
58
vasculature
18
kidney
8
embryo
6
blood
6
bodily fluid
1
mammary gland
Project
267
AMP
9
T1D
2
community
Genome assembly (visualization)
166
hg19
131
GRCh38
Lab
231
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:
73
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
assay_title!
ATAC-seq
files.file_type!
bigBed narrowPeak
BIOSAMPLE
ASSAY
278 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
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
85
14
2
2
2
1
1
EndoC_BH1
15
33
6
1
3
2
2
1
smooth muscle cell of the coronary artery
6
52
H1-hESC
8
Panc1
7
1
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