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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
271
total RNA-seq
177
ATAC-seq
157
ChIP-seq
152
single cell RNA-seq
55
snATAC-seq
47
WGBS
17
pCHi-C
10
MeRIP-seq
3
CRISPR genome editing followed by DNA sequencing
2
Hi-C
2
HiChIP
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
427
Transcription
232
DNA accessibility
157
DNA binding
47
DNA methylation
2
3D chromatin structure
Target of assay
149
histone
149
histone modification
84
broad histone mark
65
narrow histone mark
8
control
5
RNA binding protein
5
nucleotide modification
5
transcription factor
Date released
198
May, 2022
188
May, 2021
128
August, 2021
99
February, 2023
59
September, 2020
47
September, 2023
45
May, 2020
40
May, 2024
19
April, 2020
18
February, 2021
16
January, 2021
14
May, 2023
10
November, 2020
7
August, 2020
5
March, 2023
3
March, 2019
1
October, 2017
Available data
286
bigWig
256
bed narrowPeak
205
bam
168
fastq
153
zippedFastqFolder
102
tsv
84
tagAlign
64
xls
63
txt
2
bed bed3+
2
bed broadPeak
2
hic
Organism
892
Homo sapiens
Biosample type
534
primary cell
348
tissue
in vitro differentiated cells
13
cell line
2
stem cell
Organ
214
pancreas
189
kidney
155
epithelium
40
heart
40
liver
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
296
AMP
294
HPAP
236
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
308
GRCh38
256
hg19
Lab
AMP-T2D consortium
296
Kyle Gaulton, UCSD
294
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
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
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
audit script error
11
inconsistent ontology term
audit.ERROR.category!
audit script error
biosample_type!
in vitro differentiated cells
lab.title!
AMP-T2D consortium
Bing Ren, UCSD
BIOSAMPLE
ASSAY
897 results
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Clear Filters
total RNA-seq
ATAC-seq
ChIP-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
MeRIP-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
shRNA RNA-seq
siRNA RNA-seq
primary cell
monocyte
53
84
1
Langerhans cell
85
21
pancreatic alpha cell
42
29
31
pancreatic beta cell
11
16
16
exocrine cell
39
+ See 37 more…
tissue
kidney
49
75
58
6
1
islet of Langerhans
11
33
6
4
left cardiac atrium
40
liver
20
20
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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