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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
71
ChIP-seq
41
WGBS
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
5
DNase-seq
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
221
Transcription
112
DNA accessibility
71
DNA binding
43
DNA methylation
9
3D chromatin structure
Target of assay
51
histone
51
histone modification
26
broad histone mark
25
narrow histone mark
23
control
5
nucleotide modification
2
transcription factor
1
RNA binding protein
Date released
118
July, 2018
80
May, 2022
61
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
4
August, 2021
4
June, 2019
4
March, 2019
3
October, 2022
2
May, 2019
1
August, 2022
1
February, 2020
Available data
615
bam
549
bigWig
fastq
343
tsv
214
bed narrowPeak
91
bigBed narrowPeak
80
zippedFastqFolder
29
bed bed3+
21
bed broadPeak
19
tagAlign
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
469
Homo sapiens
Biosample type
292
tissue
92
cell line
83
primary cell
3
in vitro differentiated cells
Organ
582
connective tissue
470
pancreas
447
adipose tissue
325
liver
290
kidney
263
epithelium
262
brain
260
heart
224
vasculature
221
blood vessel
159
bone element
139
artery
122
limb
93
musculature of body
61
eye
43
nerve
22
vein
18
ureter
16
skeleton
11
lung
10
embryo
9
blood
9
bodily fluid
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
353
AMP
83
HPAP
34
T1D
Genome assembly (visualization)
290
hg19
273
GRCh38
Lab
344
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
files.file_type!
fastq
assay_title!
single cell RNA-seq
BIOSAMPLE
ASSAY
470 results
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total RNA-seq
ATAC-seq
ChIP-seq
WGBS
snATAC-seq
MeRIP-seq
Hi-C
DNase-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
in vitro differentiated cells
pancreatic PP cell
3
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