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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
316
total RNA-seq
148
ChIP-seq
10
MeRIP-seq
6
Hi-C
6
single cell RNA-seq
4
WGBS
2
Capture-C
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
324
Transcription
148
DNA binding
DNA accessibility
6
3D chromatin structure
6
DNA methylation
Target of assay
93
histone
93
histone modification
51
broad histone mark
42
narrow histone mark
41
control
19
transcription factor
9
RNA binding protein
5
nucleotide modification
Date released
145
August, 2017
120
July, 2018
51
October, 2018
45
May, 2021
35
November, 2019
26
February, 2021
14
October, 2019
10
March, 2020
10
November, 2020
6
April, 2018
6
February, 2023
6
July, 2019
6
May, 2022
6
September, 2017
4
August, 2021
4
November, 2018
2
May, 2019
1
February, 2020
1
March, 2019
Available data
442
bam
412
bigWig
307
tsv
184
fastq
94
bed narrowPeak
59
bigBed narrowPeak
22
bed bed3+
19
tagAlign
12
bed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
4
bedpe bed3+
4
hic
1
bedpe
1
hdf5
Organism
490
Homo sapiens
Biosample type
423
tissue
primary cell
72
cell line
3
in vitro differentiated cells
Organ
751
liver
619
connective tissue
498
pancreas
481
adipose tissue
306
heart
233
brain
167
kidney
148
blood vessel
148
vasculature
146
bone element
90
artery
86
epithelium
78
limb
60
blood
60
bodily fluid
48
musculature of body
40
nerve
37
embryo
25
eye
23
spleen
10
lung
5
gonad
5
ovary
4
skeleton
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
pericardium
1
pituitary gland
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
485
AMP
13
T1D
Genome assembly (visualization)
416
hg19
408
GRCh38
Lab
473
AMP-T2D consortium
12
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
Audit category:
57
inconsistent ontology term
Audit category:
10
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
organ_slims!
pericardium
biosample_type!
primary cell
assay_slims!
DNA accessibility
BIOSAMPLE
ASSAY
498 results
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total RNA-seq
ChIP-seq
MeRIP-seq
Hi-C
single cell RNA-seq
WGBS
Capture-C
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
278
50
4
3
6
1
body of pancreas
3
35
2
2
pancreas
2
16
1
2
1
1
endocrine pancreas
16
cell line
EndoC_BH1
33
15
6
1
2
1
Panc1
13
1
in vitro differentiated cells
pancreatic PP cell
3
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