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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
108
total RNA-seq
64
ChIP-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
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
110
Transcription
64
DNA binding
DNA accessibility
3
3D chromatin structure
1
DNA sequencing
Target of assay
24
transcription factor
22
histone
22
histone modification
21
control
11
broad histone mark
11
narrow histone mark
7
recombinant protein
3
nucleotide modification
2
RNA binding protein
Date released
87
February, 2021
44
August, 2021
28
October, 2019
15
November, 2019
9
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
570
bam
517
bigWig
fastq
392
bed narrowPeak
353
bigBed narrowPeak
118
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
200
Homo sapiens
Biosample type
1967
tissue
451
primary cell
211
in vitro differentiated cells
204
cell line
6
stem cell
Organ
72
pancreas
59
epithelium
58
artery
58
blood vessel
58
heart
58
vasculature
33
liver
18
kidney
8
embryo
1
mammary gland
Project
193
AMP
9
T1D
2
community
Genome assembly (visualization)
148
hg19
131
GRCh38
Lab
157
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
inconsistent assembly
files.file_type!
fastq
assay_slims!
DNA accessibility
organ_slims!
skeleton
BIOSAMPLE
ASSAY
204 results
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Clear Filters
total RNA-seq
ChIP-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
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
33
15
6
3
1
2
2
1
smooth muscle cell of the coronary artery
52
6
HepG2
9
18
2
2
1
1
Panc1
13
1
H1-hESC
8
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