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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
223
total RNA-seq
130
ChIP-seq
71
ATAC-seq
8
pCHi-C
7
Hi-C
6
MeRIP-seq
4
Capture-C
3
STARR-seq
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
whole genome sequencing assay
Assay category
225
Transcription
130
DNA binding
72
DNA accessibility
7
3D chromatin structure
1
DNA sequencing
Target of assay
67
histone
67
histone modification
36
broad histone mark
33
control
33
transcription factor
31
narrow histone mark
7
RNA binding protein
3
nucleotide modification
Date released
152
May, 2021
122
February, 2021
84
August, 2021
23
October, 2019
21
November, 2019
17
February, 2023
14
August, 2017
14
March, 2020
6
November, 2020
2
December, 2019
1
January, 2018
1
May, 2020
1
October, 2022
Available data
854
bam
765
bigWig
fastq
526
bed narrowPeak
371
bigBed narrowPeak
242
tsv
60
bed broadPeak
60
bigBed broadPeak
60
tagAlign
28
bed bed3+
9
bedpe bed3+
7
bed bedgraph
6
bed bed3
6
hic
4
txt
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
456
Homo sapiens
Biosample type
2051
tissue
283
primary cell
253
in vitro differentiated cells
205
cell line
4
stem cell
Organ
91
pancreas
80
epithelium
67
heart
66
artery
66
blood vessel
66
vasculature
42
connective tissue
34
liver
kidney
10
embryo
1
blood
1
bodily fluid
1
mammary gland
Project
458
AMP
9
T1D
2
community
Genome assembly (visualization)
326
hg19
274
GRCh38
Lab
366
AMP-T2D consortium
47
Kyle Gaulton, UCSD
32
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
184
inconsistent ontology term
2
audit script error
1
inconsistent replicate
Audit category:
1
inconsistent assembly
files.file_type!
fastq
organ_slims!
kidney
BIOSAMPLE
ASSAY
458 results
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total RNA-seq
ChIP-seq
ATAC-seq
pCHi-C
Hi-C
MeRIP-seq
Capture-C
STARR-seq
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
whole genome sequencing assay
in vitro differentiated cells
cardiomyocytes
59
3
embryonic stem cell
5
37
6
1
neural progenitor cell
7
21
10
adipocyte
5
14
8
1
cardiac precursors (cardiac muscle cell)
19
1
1
+ See 21 more…
cell line
EndoC_BH1
31
13
19
1
6
2
1
smooth muscle cell of the coronary artery
52
6
8
HepG2
9
18
1
2
1
2
1
Panc1
13
1
1
H1-hESC
8
+ See 7 more…
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