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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1015
total RNA-seq
736
ChIP-seq
220
ATAC-seq
151
DNase-seq
87
RNA microarray
87
single cell RNA-seq
28
snATAC-seq
22
pCHi-C
19
WGBS
15
small RNA-seq
11
Hi-C
10
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1117
Transcription
736
DNA binding
403
DNA accessibility
29
DNA methylation
11
3D chromatin structure
Target of assay
528
histone modification
527
histone
284
narrow histone mark
243
broad histone mark
159
control
51
transcription factor
16
RNA binding protein
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
234
October, 2019
193
May, 2020
136
June, 2019
135
August, 2021
120
July, 2018
94
May, 2019
82
November, 2017
74
October, 2018
66
May, 2022
59
February, 2023
57
July, 2019
December, 2017
47
September, 2023
40
November, 2019
38
May, 2021
33
March, 2020
26
November, 2018
23
April, 2019
23
October, 2017
22
February, 2020
19
April, 2020
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
4
November, 2020
3
December, 2019
3
March, 2019
2
January, 2018
1
August, 2022
Available data
1727
bam
1579
bigWig
964
tsv
775
bed narrowPeak
437
bigBed narrowPeak
329
fastq
238
tagAlign
186
bed broadPeak
178
bed bed3+
157
txt
149
bigBed broadPeak
64
xls
18
bed bedMethyl
18
bigBed bedMethyl
7
hic
6
bedpe bed3+
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2403
Homo sapiens
Biosample type
2412
tissue
1075
primary cell
561
cell line
350
in vitro differentiated cells
7
stem cell
Organ
547
connective tissue
501
pancreas
488
adipose tissue
heart
313
liver
299
kidney
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2315
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1631
GRCh38
1604
hg19
Lab
2104
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
shRNA RNA-seq
lab.title!
Bing Ren, UCSD
month_released!
December, 2017
organ_slims!
heart
BIOSAMPLE
ASSAY
2412 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
RNA microarray
single cell RNA-seq
snATAC-seq
pCHi-C
WGBS
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
291
71
67
1
6
7
4
1
1
1
4
adipose tissue
382
2
3
1
3
liver
167
107
20
2
1
1
3
1
1
1
kidney
49
27
75
13
64
6
1
1
1
bone element
84
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