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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
125
ChIP-seq
70
single cell RNA-seq
47
WGBS
8
Hi-C
6
MeRIP-seq
6
RRBS
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
RNA microarray
Assay category
125
DNA binding
DNA accessibility
70
Transcription
53
DNA methylation
8
3D chromatin structure
Target of assay
91
histone
91
histone modification
47
narrow histone mark
44
broad histone mark
28
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
25
October, 2019
21
September, 2018
15
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
195
bam
171
bigWig
140
fastq
95
bed narrowPeak
77
tsv
41
zippedFastqFolder
36
bigBed narrowPeak
7
tagAlign
6
bed bedMethyl
6
bed broadPeak
6
bigBed bedMethyl
6
bigBed broadPeak
6
hic
5
bed bed3+
5
bedpe bed3+
3
cool
2
hdf5
Organism
265
Homo sapiens
Biosample type
222
primary cell
25
cell line
18
in vitro differentiated cells
1
tissue
Organ
573
liver
370
pancreas
270
epithelium
244
heart
232
brain
176
connective tissue
131
kidney
117
vasculature
113
blood vessel
85
adipose tissue
85
bone element
71
limb
60
blood
60
bodily fluid
55
musculature of body
36
artery
35
nerve
embryo
23
spleen
19
vein
10
eye
10
lung
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
small intestine
1
stomach
1
urinary bladder
Project
214
AMP
50
HPAP
2
T1D
Genome assembly (visualization)
183
hg19
165
GRCh38
Lab
210
AMP-T2D consortium
50
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
32
inconsistent ontology term
5
audit script error
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
assay_title!
total RNA-seq
assay_slims!
DNA accessibility
organ_slims!
embryo
BIOSAMPLE
ASSAY
266 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
endothelial cell of umbilical vein
17
2
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cell line
EndoC_BH1
15
1
6
2
1
in vitro differentiated cells
hepatocyte
15
pancreatic PP cell
3
tissue
renal glomerulus
1
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