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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
total RNA-seq
148
ChIP-seq
81
ATAC-seq
11
snATAC-seq
10
MeRIP-seq
8
DNase-seq
6
Hi-C
6
single cell RNA-seq
4
WGBS
2
Capture-C
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
148
DNA binding
102
DNA accessibility
8
Transcription
6
3D chromatin structure
6
DNA methylation
Target of assay
93
histone
93
histone modification
51
broad histone mark
42
narrow histone mark
41
control
19
transcription factor
9
RNA binding protein
5
nucleotide modification
Date released
58
August, 2017
51
October, 2018
35
November, 2019
20
May, 2021
18
May, 2022
18
October, 2019
14
February, 2023
10
November, 2020
9
March, 2020
8
January, 2021
7
November, 2018
6
April, 2018
6
September, 2017
5
March, 2019
5
October, 2017
4
July, 2019
4
June, 2019
3
August, 2021
2
May, 2019
1
August, 2022
Available data
193
bam
146
bed narrowPeak
135
bigWig
116
fastq
69
bigBed narrowPeak
29
bed bed3+
21
bed broadPeak
19
tagAlign
11
tsv
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
4
bedpe bed3+
4
hic
1
bedpe
1
hdf5
Organism
276
Homo sapiens
Biosample type
primary cell
222
tissue
59
cell line
3
in vitro differentiated cells
Organ
593
liver
312
heart
284
pancreas
264
kidney
248
brain
181
connective tissue
140
blood vessel
140
vasculature
115
limb
bone element
92
adipose tissue
85
artery
80
epithelium
77
musculature of body
61
blood
61
bodily fluid
38
nerve
37
eye
25
spleen
23
embryo
20
lung
18
ureter
12
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
259
AMP
25
T1D
Genome assembly (visualization)
177
hg19
147
GRCh38
Lab
228
AMP-T2D consortium
39
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
43
inconsistent ontology term
1
audit script error
Audit category:
10
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
assay_title!
total RNA-seq
biosample_type!
primary cell
organ_slims!
bone element
BIOSAMPLE
ASSAY
284 results
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Clear Filters
ChIP-seq
ATAC-seq
snATAC-seq
MeRIP-seq
DNase-seq
Hi-C
single cell RNA-seq
WGBS
Capture-C
FAIRE-seq
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
50
58
7
4
1
3
6
1
1
body of pancreas
35
4
4
2
2
pancreas
16
4
2
1
2
1
1
1
endocrine pancreas
16
cell line
EndoC_BH1
15
19
6
1
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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