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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
182
ChIP-seq
103
total RNA-seq
56
WGBS
10
MeRIP-seq
4
pCHi-C
2
Capture-C
2
Hi-C
2
STARR-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
182
DNA binding
104
Transcription
DNA accessibility
56
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
145
control
33
histone
33
histone modification
17
broad histone mark
16
narrow histone mark
9
transcription factor
5
nucleotide modification
4
recombinant protein
3
RNA binding protein
Date released
67
May, 2022
62
August, 2017
49
November, 2017
43
February, 2023
24
May, 2020
21
August, 2021
16
September, 2020
13
December, 2017
11
October, 2018
11
October, 2019
10
November, 2020
8
November, 2018
7
February, 2021
5
March, 2020
4
July, 2018
4
September, 2017
2
February, 2020
2
May, 2021
2
November, 2019
1
December, 2018
1
July, 2019
1
May, 2019
Available data
172
fastq
147
bam
49
tagAlign
41
zippedFastqFolder
22
tsv
9
bigWig
6
txt
5
bed bedMethyl
5
bigBed bedMethyl
4
bed narrowPeak
4
bigBed narrowPeak
1
bedpe bed3+
1
csv
1
vcf
Organism
362
Homo sapiens
Biosample type
160
tissue
113
primary cell
89
cell line
2
in vitro differentiated cells
Organ
194
pancreas
167
heart
165
liver
140
epithelium
135
kidney
109
brain
94
connective tissue
89
bone element
65
adipose tissue
35
blood vessel
35
vasculature
26
eye
26
limb
23
musculature of body
13
artery
12
nerve
11
spleen
10
lung
8
embryo
6
blood
6
bodily fluid
5
gonad
5
ovary
5
vein
4
skeleton
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
257
AMP
100
HPAP
7
T1D
Genome assembly (visualization)
hg19
1091
GRCh38
Lab
204
AMP-T2D consortium
100
Klaus Kaestner, Upenn
20
Karen Mohlke, UNC
18
Bing Ren, UCSD
12
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
10
inconsistent ontology term
Audit category:
1
missing controlled_by
assay_slims!
DNA accessibility
assembly!
hg19
BIOSAMPLE
ASSAY
364 results
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ChIP-seq
total RNA-seq
WGBS
MeRIP-seq
pCHi-C
Capture-C
Hi-C
STARR-seq
CRISPR genome editing followed by sgRNA sequencing
single cell RNA-seq
whole genome sequencing assay
tissue
liver
62
20
3
1
1
islet of Langerhans
23
18
4
1
body of pancreas
9
1
2
pancreas
3
1
2
1
right lobe of liver
3
1
1
+ See 2 more…
primary cell
pancreatic alpha cell
6
42
31
pancreatic beta cell
6
11
16
hepatocyte
1
cell line
HepG2
56
9
1
1
1
2
1
EndoC_BH1
2
6
2
1
Panc1
7
in vitro differentiated cells
hepatocyte
1
pancreatic PP cell
1
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