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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
ChIP-seq
287
ATAC-seq
180
DNase-seq
106
total RNA-seq
85
RNA microarray
71
single cell RNA-seq
28
WGBS
28
snATAC-seq
20
Hi-C
11
RRBS
10
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
499
DNA accessibility
179
Transcription
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
5
control
5
nucleotide modification
Date released
163
June, 2019
139
August, 2021
103
February, 2021
97
February, 2023
66
May, 2022
47
September, 2023
42
October, 2019
30
July, 2019
23
November, 2019
19
April, 2020
19
August, 2017
18
May, 2021
17
November, 2018
15
May, 2023
11
March, 2020
10
November, 2020
8
January, 2021
8
October, 2017
5
March, 2019
4
July, 2018
3
January, 2018
2
March, 2023
1
August, 2022
1
December, 2018
1
December, 2019
1
October, 2022
Available data
1302
bam
1268
bigWig
tsv
401
bed narrowPeak
186
bigBed narrowPeak
180
bed bed3+
179
bed broadPeak
177
bigBed broadPeak
164
fastq
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
1
bedpe
1
hdf5
1
vcf
Organism
847
Homo sapiens
Biosample type
794
tissue
539
primary cell
65
in vitro differentiated cells
59
cell line
3
stem cell
Organ
263
kidney
143
pancreas
100
bone element
87
heart
60
liver
54
blood vessel
54
vasculature
49
artery
49
eye
49
limb
46
musculature of body
41
epithelium
33
brain
19
lung
18
ureter
16
adipose tissue
16
connective tissue
16
skeleton
4
spleen
3
nerve
1
blood
1
bodily fluid
1
pericardium
1
pituitary gland
1
skin of body
1
thymus
Project
751
AMP
47
KPMP
34
T1D
19
LungMap
2
community
Genome assembly (visualization)
366
GRCh38
326
hg19
Lab
522
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
10
Bing Ren, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
114
inconsistent ontology term
2
audit script error
1
inconsistent replicate
Audit category:
1
inconsistent assembly
files.file_type!
tsv
assay_title!
ChIP-seq
BIOSAMPLE
ASSAY
853 results
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Clear Filters
ATAC-seq
DNase-seq
total RNA-seq
RNA microarray
single cell RNA-seq
WGBS
snATAC-seq
Hi-C
RRBS
MeRIP-seq
pCHi-C
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
...and 1 more
tissue
kidney
75
13
49
59
6
1
1
1
islet of Langerhans
67
1
31
7
3
1
4
4
1
bone element
84
liver
20
2
20
1
3
1
1
coronary artery
36
2
+ See 68 more…
cell line
EndoC_BH1
18
1
6
3
2
2
1
HepG2
1
1
2
1
2
smooth muscle cell of the coronary artery
8
EndoC-BH1
1
1
HEK293T
2
+ See 5 more…
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