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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
252
total RNA-seq
158
ATAC-seq
152
single cell RNA-seq
117
ChIP-seq
82
snATAC-seq
47
WGBS
17
pCHi-C
10
MeRIP-seq
7
Hi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
2
HiChIP
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
408
Transcription
240
DNA accessibility
117
DNA binding
47
DNA methylation
7
3D chromatin structure
Target of assay
114
histone
114
histone modification
64
broad histone mark
50
narrow histone mark
8
control
5
nucleotide modification
Date released
188
May, 2021
158
May, 2022
133
August, 2021
99
February, 2023
59
September, 2020
47
September, 2023
45
February, 2021
45
May, 2020
19
April, 2020
16
January, 2021
14
May, 2023
10
November, 2020
7
August, 2020
5
March, 2019
5
March, 2023
3
October, 2022
1
October, 2017
Available data
226
bigWig
205
bam
196
bed narrowPeak
195
fastq
153
zippedFastqFolder
103
tsv
84
tagAlign
64
xls
63
txt
6
hic
4
bedpe bed3+
3
cool
2
bed bed3+
2
bed broadPeak
1
bedpe
Organism
849
Homo sapiens
Biosample type
564
primary cell
272
tissue
in vitro differentiated cells
16
cell line
2
stem cell
Organ
221
pancreas
191
kidney
158
epithelium
liver
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
324
HPAP
236
T1D
223
AMP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
269
GRCh38
241
hg19
Lab
AMP-T2D consortium
324
Klaus Kaestner, Upenn
296
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
7
Bing Ren, UCSD
4
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
organ_slims!
liver
biosample_type!
in vitro differentiated cells
lab.title!
AMP-T2D consortium
BIOSAMPLE
ASSAY
854 results
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Clear Filters
total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
MeRIP-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
shRNA RNA-seq
siRNA RNA-seq
primary cell
monocyte
53
84
1
Langerhans cell
85
48
pancreatic alpha cell
42
29
31
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
+ See 37 more…
tissue
kidney
49
75
58
6
1
islet of Langerhans
12
34
6
4
2
lung
9
10
pancreas
1
4
thymus
1
cell line
EndoC_BH1
6
3
2
EndoC-BH1
1
1
HEK293T
2
Synthesized DNA
1
stem cell
SB Ad3.1
1
1
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