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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
403
total RNA-seq
88
ATAC-seq
74
single cell RNA-seq
73
ChIP-seq
51
WGBS
11
snATAC-seq
10
MeRIP-seq
2
Capture-C
2
Hi-C
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
479
Transcription
99
DNA accessibility
73
DNA binding
53
DNA methylation
2
3D chromatin structure
Target of assay
50
control
22
histone
22
histone modification
12
narrow histone mark
10
broad histone mark
6
transcription factor
5
nucleotide modification
1
RNA binding protein
Date released
157
July, 2018
135
August, 2017
86
May, 2022
57
May, 2021
56
February, 2023
39
April, 2018
32
February, 2021
26
September, 2018
22
November, 2019
19
September, 2020
13
October, 2018
11
October, 2019
10
March, 2020
10
November, 2020
8
January, 2021
7
August, 2020
6
July, 2019
6
September, 2017
5
March, 2019
4
November, 2018
3
August, 2018
3
August, 2021
1
August, 2022
1
February, 2020
1
June, 2018
1
May, 2019
1
October, 2017
Available data
689
bam
623
bigWig
471
fastq
417
tsv
bed narrowPeak
91
bigBed narrowPeak
80
zippedFastqFolder
29
bed bed3+
21
bed broadPeak
tagAlign
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
719
Homo sapiens
Biosample type
375
tissue
275
primary cell
70
cell line
Organ
720
pancreas
587
connective tissue
470
adipose tissue
366
epithelium
301
liver
197
heart
171
kidney
151
bone element
99
vasculature
97
blood vessel
65
artery
48
brain
32
musculature of body
30
limb
28
eye
23
embryo
20
lung
16
nerve
15
blood
15
bodily fluid
11
spleen
8
skeleton
8
vein
5
gonad
5
ovary
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
541
AMP
149
HPAP
30
T1D
Genome assembly (visualization)
447
GRCh38
440
hg19
Lab
521
AMP-T2D consortium
149
Klaus Kaestner, Upenn
33
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
66
inconsistent ontology term
1
audit script error
Audit category:
21
missing controlled_by
Audit category:
1
inconsistent assembly
files.file_type!
bed narrowPeak
tagAlign
bedpe bed3+
BIOSAMPLE
ASSAY
720 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
WGBS
snATAC-seq
MeRIP-seq
Capture-C
Hi-C
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
284
21
27
7
4
1
1
body of pancreas
3
9
2
2
pancreas
2
2
2
4
1
1
endocrine pancreas
2
primary cell
pancreatic alpha cell
52
29
12
6
31
pancreatic beta cell
21
16
12
6
16
pancreatic acinar cell
4
4
12
pancreatic ductal cell
4
10
pancreatic endocrine cell
12
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cell line
EndoC_BH1
33
18
2
6
2
1
Panc1
7
1
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