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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
total RNA-seq
105
ChIP-seq
70
single cell RNA-seq
47
WGBS
7
Hi-C
6
MeRIP-seq
6
RRBS
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
RNA microarray
Assay category
DNA accessibility
105
DNA binding
70
Transcription
53
DNA methylation
7
3D chromatin structure
Target of assay
72
histone
72
histone modification
40
narrow histone mark
32
broad histone mark
27
control
9
transcription factor
8
RNA binding protein
3
nucleotide modification
1
chromatin remodeller
Date released
41
May, 2022
33
April, 2018
33
July, 2018
26
August, 2017
October, 2019
21
September, 2018
19
December, 2017
14
November, 2019
8
July, 2019
6
August, 2021
6
February, 2021
6
June, 2019
6
November, 2017
6
November, 2020
5
May, 2019
4
May, 2021
3
August, 2018
3
October, 2022
2
March, 2020
1
December, 2019
1
February, 2023
1
June, 2018
Available data
175
bam
155
bigWig
144
fastq
81
bed narrowPeak
77
tsv
41
zippedFastqFolder
26
bigBed narrowPeak
7
tagAlign
6
bed bedMethyl
6
bigBed bedMethyl
5
bed bed3+
5
bedpe bed3+
5
hic
4
bed broadPeak
4
bigBed broadPeak
3
cool
2
hdf5
Organism
244
Homo sapiens
Biosample type
197
primary cell
25
cell line
22
in vitro differentiated cells
1
tissue
Organ
568
liver
356
pancreas
245
epithelium
238
heart
175
connective tissue
148
brain
110
kidney
85
adipose tissue
85
bone element
76
vasculature
72
blood vessel
60
blood
60
bodily fluid
55
musculature of body
23
embryo
23
spleen
13
artery
12
limb
10
lung
4
eye
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pericardium
1
small intestine
1
stomach
1
urinary bladder
1
vein
Project
193
AMP
50
HPAP
2
T1D
Genome assembly (visualization)
166
hg19
151
GRCh38
Lab
189
AMP-T2D consortium
50
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
36
inconsistent ontology term
4
audit script error
Audit category:
21
missing controlled_by
Audit category:
5
inconsistent control read length
assay_title!
total RNA-seq
assay_slims!
DNA accessibility
month_released!
October, 2019
BIOSAMPLE
ASSAY
245 results
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ChIP-seq
single cell RNA-seq
WGBS
Hi-C
MeRIP-seq
RRBS
Capture-C
CRISPR genome editing followed by sgRNA sequencing
RNA microarray
primary cell
pancreatic alpha cell
13
12
31
1
pancreatic beta cell
13
12
16
1
pancreatic ductal cell
13
10
pancreatic acinar cell
8
12
1
pancreatic delta cell
11
+ See 12 more…
cell line
EndoC_BH1
15
1
6
2
1
in vitro differentiated cells
hepatocyte
15
Hepatic endoderm
4
pancreatic PP cell
3
tissue
renal glomerulus
1
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