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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
59
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
59
DNA binding
43
DNA methylation
9
3D chromatin structure
Target of assay
42
histone
42
histone modification
22
broad histone mark
21
control
20
narrow histone mark
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
19
February, 2023
18
October, 2019
16
October, 2018
14
March, 2020
11
August, 2017
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
689
bam
623
bigWig
fastq
417
tsv
214
bed narrowPeak
91
bigBed narrowPeak
80
zippedFastqFolder
29
bed bed3+
21
bed broadPeak
tagAlign
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
462
Homo sapiens
Biosample type
283
tissue
92
cell line
88
primary cell
Organ
561
connective tissue
463
pancreas
439
adipose tissue
387
heart
354
kidney
260
epithelium
252
liver
224
vasculature
221
blood vessel
159
bone element
155
brain
135
artery
122
limb
79
musculature of body
61
eye
43
nerve
22
vein
20
lung
18
ureter
16
skeleton
10
embryo
9
blood
9
bodily fluid
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
spleen
1
stomach
1
urinary bladder
Project
346
AMP
83
HPAP
34
T1D
Genome assembly (visualization)
287
hg19
276
GRCh38
Lab
337
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!
tagAlign
fastq
BIOSAMPLE
ASSAY
463 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
13
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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