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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
67
total RNA-seq
48
ATAC-seq
20
ChIP-seq
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
6
WGBS
2
Capture-C
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
67
Transcription
59
DNA accessibility
20
DNA binding
9
3D chromatin structure
8
DNA methylation
Target of assay
14
histone
14
histone modification
11
control
8
broad histone mark
6
narrow histone mark
5
nucleotide modification
Date released
May, 2022
56
February, 2023
20
August, 2017
19
September, 2020
17
May, 2021
10
November, 2020
8
January, 2021
8
March, 2020
7
August, 2020
6
February, 2021
4
August, 2021
4
July, 2018
4
March, 2019
4
October, 2019
3
October, 2022
2
July, 2019
2
November, 2019
1
August, 2022
1
February, 2020
1
October, 2017
Available data
bam
623
bigWig
447
fastq
417
tsv
196
bed narrowPeak
91
bigBed narrowPeak
29
bed bed3+
21
bed broadPeak
19
tagAlign
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
3
cool
1
bedpe
1
hdf5
Organism
176
Homo sapiens
Biosample type
76
tissue
72
primary cell
29
cell line
Organ
210
kidney
177
pancreas
142
heart
127
epithelium
93
bone element
91
connective tissue
70
liver
54
eye
51
vasculature
50
blood vessel
49
adipose tissue
43
brain
39
artery
37
musculature of body
20
lung
9
blood
9
bodily fluid
8
limb
8
skeleton
5
gonad
5
ovary
2
intestine
2
thymus
2
vein
1
adrenal gland
1
bone marrow
1
embryo
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
nerve
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
77
AMP
72
HPAP
28
T1D
Genome assembly (visualization)
23
hg19
14
GRCh38
Lab
72
Klaus Kaestner, Upenn
61
AMP-T2D consortium
27
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
27
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
month_released!
May, 2022
files.file_type!
bam
BIOSAMPLE
ASSAY
177 results
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total RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
MeRIP-seq
Hi-C
WGBS
Capture-C
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
12
20
20
7
4
3
1
pancreas
1
4
1
1
1
body of pancreas
1
primary cell
pancreatic alpha cell
42
7
1
6
pancreatic beta cell
11
3
1
pancreatic acinar cell
1
cell line
EndoC_BH1
18
6
1
2
1
Panc1
1
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