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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
215
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
215
DNA binding
173
DNA accessibility
53
DNA methylation
9
3D chromatin structure
Target of assay
150
histone
150
histone modification
78
broad histone mark
72
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
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
274
bam
218
fastq
215
bigWig
212
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
456
Homo sapiens
Biosample type
214
tissue
191
primary cell
59
cell line
in vitro differentiated cells
Organ
583
liver
464
pancreas
301
epithelium
262
brain
229
kidney
187
heart
169
vasculature
163
blood vessel
115
connective tissue
115
limb
97
bone element
89
adipose tissue
87
musculature of body
83
artery
69
blood
69
bodily fluid
42
eye
38
nerve
25
spleen
22
vein
18
ureter
12
skeleton
11
lung
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
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
340
AMP
99
HPAP
25
T1D
Genome assembly (visualization)
250
hg19
227
GRCh38
Lab
309
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
2
inconsistent assembly
assay_slims!
Transcription
biosample_type!
in vitro differentiated cells
BIOSAMPLE
ASSAY
464 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
15
19
6
1
2
1
Panc1
13
1
1
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