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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
289
total RNA-seq
148
ChIP-seq
62
ATAC-seq
11
snATAC-seq
8
DNase-seq
8
single cell RNA-seq
5
Hi-C
4
MeRIP-seq
4
WGBS
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
pCHi-C
Assay category
299
Transcription
148
DNA binding
83
DNA accessibility
6
DNA methylation
5
3D chromatin structure
Target of assay
98
histone
98
histone modification
53
broad histone mark
45
narrow histone mark
35
control
17
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
155
August, 2017
126
July, 2018
50
October, 2018
39
November, 2019
37
May, 2021
24
May, 2022
18
February, 2023
18
October, 2019
11
September, 2018
9
March, 2020
8
April, 2018
8
January, 2021
7
November, 2018
6
July, 2019
6
September, 2017
5
March, 2019
5
October, 2017
4
June, 2019
4
November, 2020
2
August, 2021
2
May, 2019
1
August, 2022
1
February, 2020
Available data
469
bam
407
bigWig
283
tsv
238
fastq
136
bed narrowPeak
64
bigBed narrowPeak
29
bed bed3+
21
bed broadPeak
16
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
bedpe bed3+
3
hic
1
bedpe
1
hdf5
Organism
539
Homo sapiens
Biosample type
500
tissue
31
primary cell
15
cell line
Organ
937
pancreas
764
liver
678
connective tissue
epithelium
491
adipose tissue
393
heart
354
kidney
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
96
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
34
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
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
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
516
AMP
30
T1D
Genome assembly (visualization)
447
hg19
420
GRCh38
Lab
483
AMP-T2D consortium
51
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
4
inconsistent ontology term
1
audit script error
Audit category:
33
missing controlled_by
Audit category:
inconsistent control read length
2
inconsistent assembly
organ_slims!
epithelium
mammary gland
audit.WARNING.category!
inconsistent control read length
BIOSAMPLE
ASSAY
546 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
DNase-seq
single cell RNA-seq
Hi-C
MeRIP-seq
WGBS
FAIRE-seq
RRBS
small RNA-seq
pCHi-C
tissue
islet of Langerhans
284
50
58
7
1
3
4
1
1
body of pancreas
3
34
4
4
2
2
pancreas
2
12
4
2
1
2
1
1
1
endocrine pancreas
16
primary cell
pancreatic endocrine cell
23
pancreatic stellate cell
4
co-expressing pancreatic endocrine cell
2
unclassified pancreatic endocrine cell
2
cell line
Panc1
13
1
1
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