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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
178
ATAC-seq
175
ChIP-seq
175
total RNA-seq
152
single cell RNA-seq
81
snATAC-seq
41
WGBS
17
pCHi-C
10
MeRIP-seq
8
Hi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
whole genome sequencing assay
Assay category
327
Transcription
259
DNA accessibility
175
DNA binding
41
DNA methylation
8
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
198
May, 2022
154
August, 2021
137
May, 2021
99
February, 2023
59
September, 2020
47
September, 2023
40
May, 2024
39
February, 2021
18
April, 2020
16
January, 2021
14
May, 2023
10
November, 2020
7
August, 2020
5
March, 2019
3
October, 2022
1
March, 2023
1
October, 2017
Available data
300
bigWig
270
bed narrowPeak
205
bam
195
fastq
153
zippedFastqFolder
tsv
84
tagAlign
64
xls
63
txt
7
hic
5
bedpe bed3+
3
cool
2
bed bed3+
2
bed broadPeak
1
bedpe
1
vcf
Organism
848
Homo sapiens
Biosample type
462
primary cell
350
tissue
in vitro differentiated cells
36
cell line
Organ
214
pancreas
191
kidney
152
epithelium
62
liver
40
heart
18
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
324
AMP
318
HPAP
140
T1D
47
KPMP
18
LungMap
1
ITG
Genome assembly (visualization)
213
GRCh38
180
hg19
Lab
AMP-T2D consortium
318
Klaus Kaestner, Upenn
200
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
28
Bing Ren, UCSD
18
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
30
audit script error
8
inconsistent ontology term
lab.title!
AMP-T2D consortium
biosample_type!
in vitro differentiated cells
files.file_type!
tsv
BIOSAMPLE
ASSAY
848 results
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ATAC-seq
ChIP-seq
total RNA-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
MeRIP-seq
Hi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
whole genome sequencing assay
primary cell
Langerhans cell
85
48
pancreatic alpha cell
29
42
25
1
monocyte
84
1
pancreatic beta cell
16
11
16
1
exocrine cell
39
+ See 17 more…
tissue
kidney
75
49
58
6
1
islet of Langerhans
34
11
6
4
2
left cardiac atrium
40
liver
20
20
lung
9
9
+ See 2 more…
cell line
HepG2
18
1
2
1
EndoC_BH1
6
3
2
HEK293T
2
Synthesized DNA
1
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