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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
281
total RNA-seq
178
ATAC-seq
175
ChIP-seq
152
single cell RNA-seq
82
snATAC-seq
17
pCHi-C
10
MeRIP-seq
7
Hi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
435
Transcription
260
DNA accessibility
175
DNA binding
DNA methylation
7
3D chromatin structure
1
DNA sequencing
Target of assay
152
histone
152
histone modification
85
broad histone mark
67
narrow histone mark
16
transcription factor
12
control
6
RNA binding protein
5
nucleotide modification
Date released
188
May, 2021
164
August, 2021
157
May, 2022
99
February, 2023
59
September, 2020
47
September, 2023
45
May, 2020
40
May, 2024
39
February, 2021
19
April, 2020
16
January, 2021
14
May, 2023
10
November, 2020
7
August, 2020
4
March, 2019
3
March, 2023
3
October, 2022
1
October, 2017
Available data
300
bigWig
270
bed narrowPeak
205
bam
189
fastq
112
zippedFastqFolder
106
tsv
84
tagAlign
64
xls
63
txt
7
hic
5
bedpe bed3+
3
cool
2
bed bed3+
2
bed broadPeak
bedpe
1
vcf
Organism
912
Homo sapiens
Biosample type
517
primary cell
351
tissue
in vitro differentiated cells
47
cell line
stem cell
Organ
191
kidney
173
pancreas
111
epithelium
71
liver
40
heart
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
333
AMP
277
HPAP
236
T1D
47
KPMP
19
LungMap
2
community
1
ITG
Genome assembly (visualization)
309
GRCh38
275
hg19
Lab
AMP-T2D consortium
296
Kyle Gaulton, UCSD
277
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
37
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
30
audit script error
12
inconsistent ontology term
assay_slims!
DNA methylation
biosample_type!
in vitro differentiated cells
stem cell
files.file_type!
bedpe
lab.title!
AMP-T2D consortium
BIOSAMPLE
ASSAY
915 results
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Clear Filters
total RNA-seq
ATAC-seq
ChIP-seq
single cell RNA-seq
snATAC-seq
pCHi-C
MeRIP-seq
Hi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
primary cell
monocyte
53
84
1
Langerhans cell
85
48
pancreatic alpha cell
42
29
1
exocrine cell
39
CD8-positive, alpha-beta T cell
4
33
1
+ See 37 more…
tissue
kidney
49
75
58
6
1
islet of Langerhans
12
34
6
4
1
left cardiac atrium
40
liver
20
20
lung
9
10
+ See 2 more…
cell line
HepG2
9
18
1
2
1
EndoC_BH1
6
3
2
EndoC-BH1
1
1
HEK293T
2
Synthesized DNA
1
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