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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1090
total RNA-seq
960
ChIP-seq
244
ATAC-seq
178
single cell RNA-seq
176
DNase-seq
87
RNA microarray
31
pCHi-C
28
WGBS
28
snATAC-seq
20
Hi-C
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-seq
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
1286
Transcription
960
DNA binding
452
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
561
histone modification
560
histone
302
narrow histone mark
258
broad histone mark
209
transcription factor
193
control
58
RNA binding protein
23
recombinant protein
17
chromatin remodeller
5
nucleotide modification
3
other context
3
other post-translational modification
Date released
575
February, 2021
November, 2017
284
August, 2017
271
August, 2021
246
October, 2019
194
May, 2020
161
June, 2019
120
July, 2018
110
May, 2019
87
November, 2018
80
April, 2019
76
July, 2019
74
October, 2018
66
February, 2023
66
May, 2022
61
May, 2021
56
November, 2019
51
March, 2020
48
December, 2017
47
September, 2023
40
May, 2024
35
December, 2018
30
January, 2019
23
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2006
bam
1886
bigWig
1139
tsv
1007
bed narrowPeak
585
bigBed narrowPeak
489
fastq
204
bed bed3+
204
bed broadPeak
174
tagAlign
173
bigBed broadPeak
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
tagAlign bed3+
1
vcf
Organism
2890
Homo sapiens
Biosample type
2622
tissue
1077
primary cell
394
in vitro differentiated cells
281
cell line
10
stem cell
Organ
597
pancreas
547
connective tissue
488
adipose tissue
447
liver
379
heart
318
kidney
199
blood vessel
199
vasculature
183
brain
158
bone element
artery
122
limb
94
epithelium
82
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
8
embryo
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2795
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
1923
GRCh38
1922
hg19
Lab
2504
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
38
Bing Ren, UCSD
19
Xin Sun, 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:
183
inconsistent ontology term
28
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
29
missing controlled_by
Audit category:
11
inconsistent control read length
4
inconsistent control run_type
2
inconsistent assembly
month_released!
November, 2017
organ_slims!
artery
BIOSAMPLE
ASSAY
2903 results
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Clear Filters
total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
pCHi-C
WGBS
snATAC-seq
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
...and 4 more
tissue
islet of Langerhans
292
71
68
6
1
4
7
3
1
4
1
adipose tissue
382
2
3
1
3
liver
167
145
20
1
2
1
3
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
+ See 171 more…
cell line
HepG2
14
63
1
2
1
2
2
EndoC_BH1
33
15
19
1
6
3
2
2
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
+ See 13 more…
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