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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1150
total RNA-seq
1086
ChIP-seq
289
ATAC-seq
180
DNase-seq
174
single cell RNA-seq
87
RNA microarray
31
pCHi-C
28
WGBS
28
snATAC-seq
20
Hi-C
16
small RNA-seq
11
RRBS
5
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
1342
Transcription
1086
DNA binding
501
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
631
histone modification
630
histone
450
transcription factor
328
narrow histone mark
302
broad histone mark
control
89
recombinant protein
88
RNA binding protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
638
February, 2021
329
November, 2017
269
August, 2021
255
August, 2017
236
October, 2019
171
May, 2020
163
June, 2019
120
July, 2018
101
February, 2023
93
May, 2019
81
November, 2018
77
July, 2019
66
April, 2019
66
May, 2022
61
May, 2021
54
November, 2019
51
March, 2020
47
September, 2023
45
October, 2018
36
December, 2017
31
December, 2018
26
January, 2019
25
February, 2020
20
October, 2017
19
April, 2020
15
May, 2023
8
January, 2021
6
April, 2018
5
March, 2019
5
November, 2020
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2246
bam
2241
bigWig
1348
bed narrowPeak
1195
tsv
916
bigBed narrowPeak
675
fastq
272
bed broadPeak
235
bigBed broadPeak
205
bed bed3+
202
tagAlign
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
3117
Homo sapiens
Biosample type
2550
tissue
1053
primary cell
579
cell line
357
in vitro differentiated cells
9
stem cell
Organ
656
liver
557
pancreas
523
connective tissue
464
adipose tissue
321
heart
309
kidney
240
brain
181
blood vessel
181
vasculature
158
bone element
130
artery
105
limb
89
epithelium
78
musculature of body
56
eye
55
blood
55
bodily fluid
32
nerve
20
lung
18
ureter
17
spleen
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
3021
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2280
GRCh38
2269
hg19
Lab
2779
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
34
Bing Ren, UCSD
19
Xin Sun, UCSD
5
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:
175
inconsistent ontology term
28
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
target.investigated_as!
control
BIOSAMPLE
ASSAY
3129 results
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Clear Filters
total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-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
298
58
68
1
4
7
3
1
2
1
adipose tissue
382
1
3
1
3
liver
167
102
20
2
1
1
3
1
1
1
kidney
49
21
75
13
64
6
1
1
1
bone element
84
+ See 176 more…
cell line
HepG2
14
318
1
2
1
2
2
EndoC_BH1
33
13
19
1
3
3
2
2
1
smooth muscle cell of the coronary artery
52
4
8
GM12878
54
1
Panc1
7
1
1
+ See 14 more…
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