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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
118
ChIP-seq
112
total RNA-seq
28
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
118
DNA binding
114
Transcription
28
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
81
control
32
transcription factor
8
histone
8
histone modification
8
recombinant protein
5
narrow histone mark
3
RNA binding protein
3
broad histone mark
3
nucleotide modification
Date released
96
February, 2021
66
November, 2017
44
August, 2021
22
October, 2019
21
May, 2021
November, 2019
11
March, 2020
8
January, 2019
6
February, 2023
6
November, 2020
5
November, 2018
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
567
bam
510
bigWig
427
fastq
392
bed narrowPeak
bigBed narrowPeak
118
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
287
Homo sapiens
Biosample type
2136
tissue
979
primary cell
372
in vitro differentiated cells
291
cell line
10
stem cell
Organ
108
liver
69
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
62
epithelium
18
kidney
8
embryo
7
blood
7
bodily fluid
1
mammary gland
Project
280
AMP
9
T1D
2
community
Genome assembly (visualization)
165
hg19
128
GRCh38
Lab
244
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:
76
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
month_released!
November, 2019
files.file_type!
bigBed narrowPeak
BIOSAMPLE
ASSAY
291 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
85
14
1
2
2
2
1
1
EndoC_BH1
2
32
18
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
H1-hESC
8
Panc1
7
1
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