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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
214
ChIP-seq
136
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
214
DNA binding
157
DNA accessibility
53
DNA methylation
9
3D chromatin structure
Target of assay
149
histone
149
histone modification
78
broad histone mark
71
narrow histone mark
52
control
18
transcription factor
9
RNA binding protein
5
nucleotide modification
Date released
99
August, 2017
98
May, 2022
51
October, 2018
46
September, 2018
35
November, 2019
May, 2021
18
October, 2019
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
273
bam
218
fastq
214
bigWig
211
bed narrowPeak
91
bigBed narrowPeak
80
zippedFastqFolder
29
bed bed3+
21
bed broadPeak
16
tagAlign
9
tsv
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
3
cool
1
bedpe
1
hdf5
Organism
439
Homo sapiens
Biosample type
214
tissue
191
primary cell
42
cell line
Organ
598
liver
447
pancreas
302
epithelium
262
brain
227
heart
227
kidney
198
connective tissue
169
vasculature
163
blood vessel
115
limb
96
bone element
90
adipose tissue
87
musculature of body
83
artery
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
pituitary gland
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
thymus
1
urinary bladder
Project
324
AMP
99
HPAP
24
T1D
Genome assembly (visualization)
249
hg19
226
GRCh38
Lab
292
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:
26
inconsistent ontology term
4
audit script error
Audit category:
54
missing controlled_by
Audit category:
9
inconsistent control read length
2
inconsistent assembly
assay_slims!
Transcription
lab.title!
Struan F.A. Grant, CHOP
month_released!
December, 2019
May, 2021
BIOSAMPLE
ASSAY
447 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
50
58
7
4
3
1
1
1
body of pancreas
35
4
2
4
pancreas
16
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
14
3
6
1
2
1
Panc1
13
1
1
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