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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
169
total RNA-seq
158
ATAC-seq
152
single cell RNA-seq
82
snATAC-seq
73
ChIP-seq
47
WGBS
17
pCHi-C
10
MeRIP-seq
5
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
325
Transcription
240
DNA accessibility
73
DNA binding
47
DNA methylation
5
3D chromatin structure
Target of assay
65
histone
65
histone modification
40
broad histone mark
25
narrow histone mark
8
control
5
RNA binding protein
5
nucleotide modification
5
transcription factor
Date released
174
May, 2022
128
August, 2021
99
February, 2023
59
September, 2020
53
May, 2021
47
September, 2023
45
February, 2021
40
May, 2024
19
April, 2020
16
January, 2021
14
May, 2023
10
November, 2020
7
August, 2020
5
March, 2023
3
October, 2022
2
March, 2019
1
October, 2017
Available data
286
bigWig
256
bed narrowPeak
bam
195
fastq
153
zippedFastqFolder
102
tsv
84
tagAlign
64
xls
63
txt
5
hic
3
bedpe bed3+
3
cool
2
bed bed3+
2
bed broadPeak
Organism
717
Homo sapiens
Biosample type
384
primary cell
323
tissue
in vitro differentiated cells
13
cell line
2
stem cell
Organ
192
pancreas
189
kidney
158
epithelium
40
heart
40
liver
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
324
HPAP
271
AMP
56
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
128
GRCh38
61
hg19
Lab
AMP-T2D consortium
324
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
92
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Anna Gloyn, Oxford
1
ITG
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
30
audit script error
7
inconsistent ontology term
lab.title!
AMP-T2D consortium
Bing Ren, UCSD
biosample_type!
in vitro differentiated cells
files.file_type!
bam
BIOSAMPLE
ASSAY
722 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
ChIP-seq
WGBS
pCHi-C
MeRIP-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
shRNA RNA-seq
siRNA RNA-seq
primary cell
Langerhans cell
85
48
pancreatic alpha cell
42
29
31
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
CD8-positive, alpha-beta T cell
2
33
1
+ See 17 more…
tissue
kidney
49
75
58
6
1
left cardiac atrium
40
liver
20
20
islet of Langerhans
5
14
6
4
lung
9
10
+ See 2 more…
cell line
EndoC_BH1
6
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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