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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
27
ATAC-seq
20
ChIP-seq
10
MeRIP-seq
7
total RNA-seq
6
Hi-C
2
Capture-C
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
1
snATAC-seq
Assay category
28
DNA accessibility
20
DNA binding
7
Transcription
6
3D chromatin structure
2
DNA methylation
Target of assay
14
histone
14
histone modification
11
control
8
broad histone mark
6
narrow histone mark
5
nucleotide modification
Date released
20
August, 2017
17
May, 2021
10
November, 2020
6
March, 2020
4
August, 2021
4
July, 2018
4
March, 2019
4
October, 2019
2
July, 2019
2
November, 2019
1
August, 2022
1
February, 2020
1
February, 2023
1
October, 2017
Available data
bam
607
bigWig
409
tsv
402
fastq
210
bed narrowPeak
91
bigBed narrowPeak
29
bed bed3+
21
bed broadPeak
19
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
4
bedpe bed3+
4
hic
1
bedpe
1
hdf5
Organism
76
Homo sapiens
Biosample type
48
tissue
29
cell line
Organ
182
heart
163
kidney
110
liver
92
bone element
90
connective tissue
77
pancreas
55
epithelium
54
eye
51
vasculature
50
blood vessel
49
adipose tissue
43
brain
39
artery
39
musculature of body
8
limb
8
skeleton
5
gonad
5
ovary
2
intestine
2
vein
1
adrenal gland
1
blood
1
bodily fluid
1
embryo
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
nerve
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
thymus
1
urinary bladder
Project
152
HPAP
77
AMP
28
T1D
Genome assembly (visualization)
20
hg19
4
GRCh38
Lab
59
AMP-T2D consortium
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
1
Kyle Gaulton, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
27
inconsistent ontology term
1
audit script error
Audit category:
1
inconsistent assembly
files.file_type!
bam
organ_slims!
esophagus
BIOSAMPLE
ASSAY
77 results
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Clear Filters
ATAC-seq
ChIP-seq
MeRIP-seq
total RNA-seq
Hi-C
Capture-C
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
snATAC-seq
tissue
islet of Langerhans
9
20
4
5
3
1
1
pancreas
1
1
1
1
body of pancreas
1
cell line
EndoC_BH1
18
6
1
2
1
Panc1
1
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