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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
96
ChIP-seq
62
ATAC-seq
11
snATAC-seq
4
Hi-C
4
MeRIP-seq
4
WGBS
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
DNase-seq
1
pCHi-C
Assay category
291
Transcription
96
DNA binding
76
DNA accessibility
6
DNA methylation
4
3D chromatin structure
Target of assay
61
histone
61
histone modification
35
broad histone mark
27
control
26
narrow histone mark
10
transcription factor
6
RNA binding protein
2
nucleotide modification
Date released
128
August, 2017
120
July, 2018
51
October, 2018
39
November, 2019
37
May, 2021
24
May, 2022
18
February, 2023
9
March, 2020
8
January, 2021
6
April, 2018
6
July, 2019
5
March, 2019
5
November, 2018
5
October, 2017
4
November, 2020
4
September, 2017
3
October, 2019
2
August, 2021
2
May, 2019
1
August, 2022
1
February, 2020
Available data
429
bam
373
bigWig
275
tsv
213
fastq
123
bed narrowPeak
62
bigBed narrowPeak
bed bed3+
20
bed broadPeak
16
tagAlign
6
bed bedMethyl
6
bigBed bedMethyl
6
bigBed broadPeak
6
txt
3
bedpe bed3+
3
hic
1
bedpe
Organism
471
Homo sapiens
Biosample type
478
tissue
346
primary cell
90
cell line
3
in vitro differentiated cells
Organ
541
connective tissue
482
adipose tissue
478
pancreas
355
liver
246
heart
238
brain
231
kidney
158
bone element
128
blood vessel
128
vasculature
86
limb
69
artery
53
eye
49
musculature of body
41
nerve
24
spleen
20
lung
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
448
AMP
30
T1D
Genome assembly (visualization)
388
hg19
359
GRCh38
Lab
415
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:
1
audit script error
Audit category:
5
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed bed3+
BIOSAMPLE
ASSAY
478 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
Hi-C
MeRIP-seq
WGBS
FAIRE-seq
RRBS
small RNA-seq
DNase-seq
pCHi-C
tissue
islet of Langerhans
284
29
58
7
3
4
1
1
1
body of pancreas
3
35
4
2
2
pancreas
2
16
4
1
2
1
1
1
endocrine pancreas
16
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