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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
363
ChIP-seq
214
ATAC-seq
174
single cell RNA-seq
143
total RNA-seq
86
RNA microarray
31
pCHi-C
28
snATAC-seq
18
Hi-C
11
RRBS
11
WGBS
5
STARR-seq
4
MeRIP-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-seq
2
HiChIP
1
DNase-seq
1
MPRA
1
shRNA RNA-seq
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
363
DNA binding
318
Transcription
243
DNA accessibility
22
DNA methylation
18
3D chromatin structure
1
DNA sequencing
Target of assay
252
control
107
histone
107
histone modification
56
narrow histone mark
51
broad histone mark
6
transcription factor
3
RNA binding protein
2
nucleotide modification
1
recombinant protein
Date released
249
August, 2021
114
February, 2021
106
August, 2017
92
October, 2019
86
February, 2023
72
November, 2017
47
September, 2023
46
May, 2022
33
March, 2020
29
October, 2018
25
February, 2020
24
May, 2020
22
May, 2019
21
November, 2019
19
April, 2020
15
April, 2019
15
May, 2023
14
July, 2019
12
December, 2017
9
October, 2017
8
January, 2021
7
November, 2018
6
September, 2017
5
December, 2018
5
March, 2019
4
January, 2019
4
July, 2018
4
November, 2020
2
December, 2019
2
May, 2021
1
August, 2022
1
March, 2023
1
October, 2022
Available data
2438
bam
bigWig
1361
bed narrowPeak
1157
tsv
915
bigBed narrowPeak
804
fastq
272
bed broadPeak
258
tagAlign
235
bigBed broadPeak
208
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
12
hic
11
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
1095
Homo sapiens
Biosample type
990
tissue
300
primary cell
131
in vitro differentiated cells
110
cell line
7
stem cell
Organ
215
kidney
168
pancreas
166
heart
165
liver
100
bone element
73
blood vessel
73
vasculature
66
connective tissue
65
adipose tissue
63
brain
56
artery
53
eye
epithelium
31
limb
25
musculature of body
20
lung
16
skeleton
12
nerve
9
spleen
6
blood
6
bodily fluid
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
999
AMP
47
KPMP
34
T1D
19
LungMap
1
community
Genome assembly (visualization)
156
GRCh38
107
hg19
Lab
783
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
24
Bing Ren, UCSD
20
Karen Mohlke, UNC
19
Xin Sun, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Anna Gloyn, Oxford
1
Maike Sander, UCSD
Audit category:
94
inconsistent ontology term
8
audit script error
1
inconsistent replicate
Audit category:
2
missing controlled_by
assay_title!
siRNA RNA-seq
files.file_type!
bigWig
organ_slims!
epithelium
BIOSAMPLE
ASSAY
1100 results
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Clear Filters
ChIP-seq
ATAC-seq
single cell RNA-seq
total RNA-seq
RNA microarray
pCHi-C
snATAC-seq
Hi-C
RRBS
WGBS
STARR-seq
MeRIP-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
HiChIP
DNase-seq
MPRA
shRNA RNA-seq
whole genome sequencing assay
tissue
kidney
7
75
64
49
6
1
1
islet of Langerhans
42
65
32
4
7
3
1
4
liver
63
1
20
1
1
1
3
bone element
84
coronary artery
2
35
1
+ See 91 more…
cell line
HepG2
52
1
9
2
2
2
1
smooth muscle cell of the coronary artery
2
8
Panc1
7
GM12878
6
EndoC_BH1
3
2
+ See 11 more…
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