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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
761
ChIP-seq
219
ATAC-seq
149
DNase-seq
87
RNA microarray
85
single cell RNA-seq
22
pCHi-C
20
snATAC-seq
19
WGBS
15
small RNA-seq
13
Hi-C
10
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1115
Transcription
761
DNA binding
392
DNA accessibility
29
DNA methylation
13
3D chromatin structure
Target of assay
515
histone modification
514
histone
282
narrow histone mark
232
broad histone mark
166
control
82
transcription factor
18
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
208
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
48
December, 2017
47
September, 2023
40
November, 2019
38
May, 2021
33
March, 2020
26
November, 2018
23
April, 2019
22
October, 2017
21
February, 2020
19
April, 2020
15
May, 2023
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1749
bam
1593
bigWig
962
tsv
790
bed narrowPeak
453
bigBed narrowPeak
376
fastq
238
tagAlign
183
bed broadPeak
176
bed bed3+
157
txt
147
bigBed broadPeak
64
xls
18
bed bedMethyl
18
bigBed bedMethyl
8
hic
7
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2417
Homo sapiens
Biosample type
2426
tissue
1067
primary cell
596
cell line
393
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
496
pancreas
488
adipose tissue
361
liver
heart
299
kidney
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
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
2337
AMP
47
KPMP
23
T1D
19
LungMap
Genome assembly (visualization)
1646
GRCh38
1620
hg19
Lab
2123
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
44
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
lab.title!
Stephen Parker, UMich
month_released!
January, 2021
organ_slims!
artery
heart
BIOSAMPLE
ASSAY
2426 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
RNA microarray
single cell RNA-seq
pCHi-C
snATAC-seq
WGBS
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
71
67
1
6
4
3
3
1
1
4
adipose tissue
382
2
3
1
3
liver
167
145
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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