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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
161
ChIP-seq
114
total RNA-seq
91
ATAC-seq
47
WGBS
41
single cell RNA-seq
8
snATAC-seq
6
MeRIP-seq
5
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
Assay category
161
DNA binding
155
Transcription
100
DNA accessibility
47
DNA methylation
5
3D chromatin structure
Target of assay
79
histone
79
histone modification
53
transcription factor
42
narrow histone mark
37
broad histone mark
30
control
11
RNA binding protein
10
chromatin remodeller
3
nucleotide modification
Date released
80
May, 2022
72
September, 2018
41
August, 2017
38
February, 2023
37
July, 2018
April, 2018
32
February, 2021
27
December, 2018
24
May, 2021
19
September, 2020
18
January, 2019
16
November, 2019
15
November, 2018
15
October, 2019
8
January, 2021
7
August, 2020
6
November, 2020
5
March, 2020
5
September, 2017
3
August, 2018
3
October, 2022
2
August, 2021
2
October, 2018
1
January, 2018
1
June, 2018
Available data
290
fastq
287
bam
272
bigWig
145
bed narrowPeak
109
tsv
83
bigBed narrowPeak
80
zippedFastqFolder
4
bedpe bed3+
4
hic
3
cool
3
tagAlign
2
bed bed3+
1
bed broadPeak
1
bigBed broadPeak
1
hdf5
Organism
476
Homo sapiens
Biosample type
tissue
321
primary cell
153
cell line
3
in vitro differentiated cells
Organ
476
epithelium
430
liver
408
pancreas
135
connective tissue
103
vasculature
97
blood vessel
80
heart
69
blood
69
bodily fluid
68
artery
55
kidney
37
embryo
22
vein
21
brain
14
musculature of body
5
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
313
AMP
152
HPAP
12
T1D
Genome assembly (visualization)
270
GRCh38
267
hg19
Lab
311
AMP-T2D consortium
152
Klaus Kaestner, Upenn
8
Kyle Gaulton, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
81
inconsistent ontology term
3
audit script error
1
inconsistent control
Audit category:
44
missing controlled_by
Audit category:
4
inconsistent control read length
1
inconsistent assembly
month_released!
April, 2018
biosample_type!
tissue
BIOSAMPLE
ASSAY
477 results
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ChIP-seq
total RNA-seq
ATAC-seq
WGBS
single cell RNA-seq
snATAC-seq
MeRIP-seq
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
primary cell
pancreatic alpha cell
13
52
35
31
9
1
pancreatic beta cell
13
21
23
16
9
1
pancreatic acinar cell
8
4
9
6
1
pancreatic ductal cell
13
4
4
4
pancreatic endocrine cell
23
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cell line
EndoC_BH1
15
33
19
6
1
2
1
GM12878
60
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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