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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
219
total RNA-seq
96
ATAC-seq
68
ChIP-seq
41
WGBS
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
5
DNase-seq
5
single cell RNA-seq
2
Capture-C
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
226
Transcription
112
DNA accessibility
68
DNA binding
43
DNA methylation
9
3D chromatin structure
Target of assay
50
histone
50
histone modification
26
broad histone mark
24
narrow histone mark
22
control
5
nucleotide modification
1
RNA binding protein
1
transcription factor
Date released
118
July, 2018
80
May, 2022
58
May, 2021
55
November, 2019
26
February, 2021
20
August, 2017
19
February, 2023
18
October, 2019
16
October, 2018
14
March, 2020
10
November, 2020
8
January, 2021
6
July, 2019
5
April, 2018
4
August, 2021
4
June, 2019
4
March, 2019
3
October, 2022
2
May, 2019
1
August, 2022
1
February, 2020
Available data
686
bam
621
bigWig
fastq
417
tsv
212
bed narrowPeak
91
bigBed narrowPeak
80
zippedFastqFolder
29
bed bed3+
21
bed broadPeak
16
tagAlign
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
471
Homo sapiens
Biosample type
292
tissue
92
cell line
88
primary cell
in vitro differentiated cells
Organ
541
connective tissue
472
pancreas
447
adipose tissue
354
kidney
352
heart
326
liver
265
brain
262
epithelium
230
vasculature
227
blood vessel
159
bone element
141
artery
122
limb
94
musculature of body
61
eye
43
nerve
22
vein
20
lung
18
ureter
16
skeleton
9
blood
9
bodily fluid
8
embryo
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
355
AMP
83
HPAP
34
T1D
Genome assembly (visualization)
293
hg19
276
GRCh38
Lab
346
AMP-T2D consortium
83
Klaus Kaestner, Upenn
27
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
76
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
biosample_type!
in vitro differentiated cells
files.file_type!
fastq
BIOSAMPLE
ASSAY
472 results
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Clear Filters
total RNA-seq
ATAC-seq
ChIP-seq
WGBS
snATAC-seq
MeRIP-seq
Hi-C
DNase-seq
single cell RNA-seq
Capture-C
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
181
38
22
7
4
3
1
endocrine pancreas
16
pancreas
2
4
1
2
1
1
body of pancreas
3
2
2
2
cell line
EndoC_BH1
33
19
15
6
1
2
1
Panc1
13
1
1
primary cell
pancreatic alpha cell
22
25
1
pancreatic beta cell
13
16
1
pancreatic acinar cell
4
1
3
pancreatic ductal cell
1
pancreatic stellate cell
1
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