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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
102
total RNA-seq
52
ChIP-seq
29
ATAC-seq
6
MeRIP-seq
4
pCHi-C
3
Hi-C
3
STARR-seq
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
whole genome sequencing assay
Assay category
102
Transcription
52
DNA binding
30
DNA accessibility
3
3D chromatin structure
1
DNA sequencing
Target of assay
20
histone
20
histone modification
18
control
17
transcription factor
11
broad histone mark
9
narrow histone mark
3
nucleotide modification
2
RNA binding protein
Date released
96
February, 2021
42
August, 2021
20
May, 2021
16
November, 2019
15
October, 2019
6
March, 2020
6
November, 2020
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
563
bam
506
bigWig
fastq
394
bed narrowPeak
354
bigBed narrowPeak
111
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
203
Homo sapiens
Biosample type
2051
tissue
283
primary cell
253
in vitro differentiated cells
205
cell line
4
stem cell
Organ
88
pancreas
75
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
34
liver
kidney
8
embryo
1
blood
1
bodily fluid
1
mammary gland
Project
205
AMP
9
T1D
2
community
Genome assembly (visualization)
147
hg19
127
GRCh38
Lab
167
AMP-T2D consortium
32
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
73
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
inconsistent assembly
organ_slims!
kidney
files.file_type!
fastq
BIOSAMPLE
ASSAY
205 results
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Clear Filters
total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
Hi-C
STARR-seq
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
whole genome sequencing assay
cell line
EndoC_BH1
31
13
19
6
1
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
early embryonic cell
2
iPSC derived cell line
2
GM12878
1
MCF-7
1
MIN6
1
Synthesized DNA
1
fibroblast cell line
1
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