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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
143
ChIP-seq
30
ATAC-seq
16
total RNA-seq
6
pCHi-C
4
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
Hi-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
143
DNA binding
30
DNA accessibility
18
Transcription
2
3D chromatin structure
1
DNA sequencing
Target of assay
91
control
35
histone
35
histone modification
20
broad histone mark
17
transcription factor
15
narrow histone mark
7
RNA binding protein
1
recombinant protein
Date released
47
November, 2017
43
May, 2021
39
August, 2021
20
August, 2017
17
February, 2021
15
February, 2023
8
February, 2018
7
December, 2017
7
October, 2019
3
March, 2020
2
March, 2023
1
August, 2018
1
December, 2018
1
May, 2020
1
November, 2018
1
October, 2022
Available data
650
bam
bigWig
504
fastq
448
bed narrowPeak
318
bigBed narrowPeak
121
tsv
60
bed broadPeak
60
bigBed broadPeak
57
tagAlign
26
bed bed3+
6
bed bed3
6
bed bedgraph
3
tar
3
txt
2
bedpe bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
hic
1
vcf
Organism
209
Homo sapiens
Biosample type
917
tissue
451
primary cell
113
in vitro differentiated cells
100
cell line
6
stem cell
Organ
70
liver
36
connective tissue
10
artery
10
blood vessel
10
heart
10
vasculature
9
pancreas
6
blood
bodily fluid
6
embryo
3
epithelium
2
kidney
1
adipose tissue
1
mammary gland
Project
206
AMP
5
T1D
2
community
Genome assembly (visualization)
39
hg19
24
GRCh38
Lab
143
AMP-T2D consortium
47
Kyle Gaulton, UCSD
19
Bing Ren, UCSD
2
Anna Gloyn, Oxford
2
Struan F.A. Grant, CHOP
Audit category:
inconsistent ontology term
2
audit script error
1
inconsistent replicate
Audit category:
2
missing controlled_by
audit.ERROR.category!
inconsistent ontology term
files.file_type!
bigWig
organ_slims!
bodily fluid
BIOSAMPLE
ASSAY
213 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
in vitro differentiated cells
embryonic stem cell
38
5
1
adipocyte
20
5
1
1
neural progenitor cell
8
10
pancreatic endoderm
6
chondrocyte
5
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cell line
HepG2
52
1
9
2
2
2
1
smooth muscle cell of the coronary artery
2
8
Panc1
7
EndoC_BH1
3
2
1
EndoC-BH1
1
1
+ See 5 more…
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