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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
113
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
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
113
DNA binding
106
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
79
control
22
transcription factor
15
histone
15
histone modification
8
broad histone mark
8
recombinant protein
7
narrow histone mark
3
RNA binding protein
3
nucleotide modification
Date released
96
February, 2021
66
November, 2017
22
October, 2019
21
May, 2021
16
November, 2019
11
March, 2020
10
August, 2021
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
582
bam
508
bigWig
427
fastq
390
bed narrowPeak
bigBed narrowPeak
110
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
Organism
269
Homo sapiens
Biosample type
2172
tissue
979
primary cell
377
in vitro differentiated cells
273
cell line
10
stem cell
Organ
85
pancreas
78
epithelium
77
liver
66
artery
66
blood vessel
66
heart
66
vasculature
16
kidney
8
embryo
7
blood
7
bodily fluid
1
mammary gland
Project
262
AMP
9
T1D
2
community
Genome assembly (visualization)
164
hg19
141
GRCh38
Lab
260
AMP-T2D consortium
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
91
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
lab.title!
Bing Ren, UCSD
files.file_type!
bigBed narrowPeak
BIOSAMPLE
ASSAY
273 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
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
EndoC_BH1
15
33
19
6
3
1
2
2
1
HepG2
67
5
1
2
1
1
smooth muscle cell of the coronary artery
6
52
8
H1-hESC
8
Panc1
7
1
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