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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
345
total RNA-seq
117
ChIP-seq
84
RNA microarray
74
ATAC-seq
11
snATAC-seq
7
DNase-seq
6
single cell RNA-seq
4
Hi-C
4
MeRIP-seq
4
WGBS
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
pCHi-C
Assay category
353
Transcription
117
DNA binding
94
DNA accessibility
6
DNA methylation
4
3D chromatin structure
Target of assay
73
histone
73
histone modification
41
broad histone mark
32
narrow histone mark
29
control
17
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
150
February, 2021
147
August, 2017
120
July, 2018
51
October, 2018
39
November, 2019
37
May, 2021
26
February, 2023
24
May, 2022
9
March, 2020
8
January, 2021
7
November, 2018
6
April, 2018
6
July, 2019
6
September, 2017
5
March, 2019
5
October, 2017
4
June, 2019
4
November, 2020
3
October, 2019
2
August, 2021
2
May, 2019
1
August, 2022
1
February, 2020
Available data
495
bam
431
bigWig
333
tsv
213
fastq
131
bed narrowPeak
94
txt
62
bigBed narrowPeak
27
bed bed3+
20
bed broadPeak
16
tagAlign
6
bed bedMethyl
6
bigBed bedMethyl
6
bigBed broadPeak
4
bed bed3
3
bedpe bed3+
3
hic
1
bedpe
Organism
656
Homo sapiens
Biosample type
663
tissue
347
primary cell
92
cell line
3
in vitro differentiated cells
Organ
547
connective tissue
505
pancreas
488
adipose tissue
361
liver
313
heart
299
kidney
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
633
AMP
30
T1D
Genome assembly (visualization)
483
hg19
452
GRCh38
Lab
600
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:
84
inconsistent ontology term
1
audit script error
Audit category:
10
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
organ_slims!
lymph node
spleen
BIOSAMPLE
ASSAY
663 results
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total RNA-seq
ChIP-seq
RNA microarray
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
278
50
58
7
1
6
3
4
1
1
bone element
84
bone tissue
58
body of pancreas
3
35
4
4
2
2
pancreas
2
16
4
2
1
2
1
1
1
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