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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
123
ChIP-seq
113
total RNA-seq
29
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
DNase-seq
2
HiChIP
1
WGBS
1
whole genome sequencing assay
Assay category
123
DNA binding
113
Transcription
29
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
recombinant protein
83
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
91
February, 2021
74
November, 2017
33
August, 2021
21
May, 2021
21
October, 2019
15
November, 2019
11
March, 2020
9
January, 2019
6
November, 2020
5
February, 2023
4
November, 2018
3
December, 2018
1
January, 2018
1
May, 2020
Available data
231
bam
164
bigWig
119
tsv
90
fastq
50
bed narrowPeak
25
bigBed narrowPeak
15
tagAlign
14
bed broadPeak
14
bigBed broadPeak
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
295
Homo sapiens
Biosample type
2496
tissue
1047
primary cell
344
in vitro differentiated cells
295
cell line
8
stem cell
Organ
104
liver
89
pancreas
76
epithelium
62
artery
62
blood vessel
62
heart
62
vasculature
11
kidney
10
blood
10
bodily fluid
8
embryo
1
mammary gland
Project
286
AMP
9
T1D
Genome assembly (visualization)
176
hg19
153
GRCh38
Lab
261
AMP-T2D consortium
23
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
84
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
11
inconsistent control read length
1
inconsistent assembly
assay_title!
DNase-seq
target.investigated_as!
recombinant protein
transcription factor
BIOSAMPLE
ASSAY
295 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
WGBS
whole genome sequencing assay
cell line
HepG2
81
14
1
2
2
2
1
1
EndoC_BH1
14
33
19
6
1
3
2
2
smooth muscle cell of the coronary artery
2
52
8
Panc1
13
1
GM12878
9
1
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