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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
949
total RNA-seq
852
ChIP-seq
178
DNase-seq
124
ATAC-seq
113
single cell RNA-seq
87
RNA microarray
27
WGBS
24
pCHi-C
16
small RNA-seq
13
Hi-C
11
RRBS
4
FAIRE-seq
3
snDrop-seq
2
snATAC-seq
Assay category
1078
Transcription
852
DNA binding
308
DNA accessibility
38
DNA methylation
13
3D chromatin structure
Target of assay
581
histone modification
580
histone
307
narrow histone mark
273
broad histone mark
182
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
545
February, 2021
284
August, 2017
242
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
99
August, 2021
82
November, 2017
80
April, 2019
77
February, 2023
77
July, 2019
74
October, 2018
48
December, 2017
40
March, 2020
40
November, 2019
38
May, 2021
26
November, 2018
25
February, 2020
October, 2017
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
3
December, 2019
2
January, 2018
2
May, 2022
1
August, 2022
1
May, 2023
Available data
1867
bam
1698
bigWig
1075
tsv
830
bed narrowPeak
555
bigBed narrowPeak
335
fastq
224
tagAlign
208
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
94
txt
25
bed bedMethyl
25
bigBed bedMethyl
9
bedpe bed3+
9
hic
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2395
Homo sapiens
Biosample type
2403
tissue
615
cell line
524
primary cell
340
in vitro differentiated cells
stem cell
Organ
546
connective tissue
487
adipose tissue
438
pancreas
321
liver
273
heart
249
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
110
kidney
82
musculature of body
73
artery
56
eye
43
nerve
24
spleen
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2399
AMP
4
T1D
Genome assembly (visualization)
1728
GRCh38
1700
hg19
Lab
2403
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
biosample_type!
stem cell
month_released!
October, 2017
BIOSAMPLE
ASSAY
2403 results
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total RNA-seq
ChIP-seq
DNase-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
snDrop-seq
snATAC-seq
tissue
islet of Langerhans
280
71
1
34
6
4
1
1
1
1
adipose tissue
382
2
3
3
1
liver
147
145
2
1
3
1
1
1
1
bone element
84
heart left ventricle
3
35
3
2
18
4
1
1
1
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