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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
199
ChIP-seq
152
ATAC-seq
51
WGBS
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
8
DNase-seq
2
Capture-C
2
FAIRE-seq
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
Transcription
199
DNA binding
173
DNA accessibility
53
DNA methylation
9
3D chromatin structure
Target of assay
136
histone
136
histone modification
70
broad histone mark
66
narrow histone mark
50
control
18
transcription factor
9
RNA binding protein
5
nucleotide modification
Date released
98
May, 2022
83
August, 2017
51
October, 2018
46
September, 2018
35
November, 2019
18
October, 2019
17
May, 2021
14
February, 2023
11
September, 2017
10
November, 2020
9
March, 2020
8
January, 2021
7
August, 2020
7
November, 2018
6
February, 2021
5
March, 2019
5
October, 2017
4
June, 2019
3
August, 2021
3
October, 2022
3
September, 2020
2
July, 2019
2
May, 2019
1
August, 2022
Available data
277
bam
218
fastq
217
bigWig
214
bed narrowPeak
91
bigBed narrowPeak
80
zippedFastqFolder
29
bed bed3+
21
bed broadPeak
tagAlign
9
tsv
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
3
cool
1
bedpe
1
hdf5
Organism
447
Homo sapiens
Biosample type
198
tissue
191
primary cell
59
cell line
Organ
512
liver
448
pancreas
316
epithelium
229
kidney
181
connective tissue
181
heart
163
vasculature
157
blood vessel
144
brain
115
limb
97
bone element
82
adipose tissue
77
artery
72
musculature of body
69
blood
69
bodily fluid
42
eye
38
nerve
25
spleen
23
embryo
22
vein
18
ureter
12
skeleton
11
lung
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
324
AMP
99
HPAP
25
T1D
Genome assembly (visualization)
238
hg19
221
GRCh38
Lab
293
AMP-T2D consortium
99
Klaus Kaestner, Upenn
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
4
audit script error
Audit category:
54
missing controlled_by
Audit category:
9
inconsistent control read length
1
inconsistent assembly
assay_slims!
Transcription
files.file_type!
tagAlign
BIOSAMPLE
ASSAY
448 results
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Clear Filters
ChIP-seq
ATAC-seq
WGBS
snATAC-seq
MeRIP-seq
Hi-C
DNase-seq
Capture-C
FAIRE-seq
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
41
58
7
4
3
1
1
1
body of pancreas
35
4
2
4
pancreas
9
2
4
1
2
1
1
1
endocrine pancreas
16
primary cell
pancreatic alpha cell
13
35
31
1
pancreatic beta cell
13
23
16
1
pancreatic endocrine cell
23
pancreatic acinar cell
8
9
1
pancreatic ductal cell
13
4
cell line
EndoC_BH1
15
19
6
1
2
1
Panc1
13
1
1
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