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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
67
total RNA-seq
47
WGBS
20
ChIP-seq
9
Hi-C
2
Capture-C
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
DNA accessibility
67
Transcription
49
DNA methylation
20
DNA binding
9
3D chromatin structure
Target of assay
14
histone
14
histone modification
8
broad histone mark
6
control
6
narrow histone mark
Date released
43
February, 2023
41
May, 2022
20
August, 2017
16
September, 2020
6
February, 2021
4
August, 2021
4
July, 2018
4
March, 2020
3
October, 2022
2
July, 2019
2
November, 2019
1
February, 2020
1
March, 2019
1
May, 2021
1
October, 2019
Available data
bam
572
bigWig
415
tsv
410
fastq
140
bed narrowPeak
59
bigBed narrowPeak
41
zippedFastqFolder
22
bed bed3+
19
tagAlign
12
bed broadPeak
7
bedpe bed3+
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
148
Homo sapiens
Biosample type
103
primary cell
41
tissue
5
cell line
Organ
149
pancreas
147
heart
127
kidney
120
epithelium
89
bone element
89
liver
71
connective tissue
46
adipose tissue
41
brain
37
musculature of body
26
eye
16
vasculature
15
blood vessel
10
lung
8
limb
5
gonad
5
ovary
4
artery
4
skeleton
2
intestine
2
thymus
2
vein
1
adrenal gland
1
bone marrow
1
embryo
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
nerve
1
pericardium
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
103
HPAP
39
AMP
7
T1D
Genome assembly (visualization)
16
hg19
1
GRCh38
Lab
103
Klaus Kaestner, Upenn
37
AMP-T2D consortium
Rohit N. Kulkarni, M.D., Ph.D.
6
Kyle Gaulton, UCSD
3
Bing Ren, UCSD
Audit category:
3
audit script error
3
inconsistent ontology term
Audit category:
1
inconsistent assembly
assay_slims!
DNA accessibility
assay_title!
HiChIP
files.file_type!
bam
lab.title!
Rohit N. Kulkarni, M.D., Ph.D.
BIOSAMPLE
ASSAY
149 results
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total RNA-seq
WGBS
ChIP-seq
Hi-C
Capture-C
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
primary cell
pancreatic alpha cell
42
31
1
pancreatic beta cell
11
16
1
pancreatic acinar cell
1
tissue
islet of Langerhans
12
20
3
1
pancreas
1
1
1
1
body of pancreas
1
cell line
EndoC_BH1
1
2
1
Panc1
1
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