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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
888
total RNA-seq
857
ChIP-seq
255
ATAC-seq
178
DNase-seq
171
single cell RNA-seq
87
RNA microarray
27
WGBS
25
pCHi-C
18
snATAC-seq
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1075
Transcription
857
DNA binding
455
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
601
histone modification
600
histone
303
broad histone mark
297
narrow histone mark
164
control
94
transcription factor
28
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
242
October, 2019
229
August, 2021
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
90
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
November, 2018
25
February, 2020
23
October, 2017
April, 2020
15
May, 2023
8
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
1714
bam
1602
bigWig
957
bed narrowPeak
933
tsv
561
bigBed narrowPeak
377
fastq
213
bed broadPeak
205
bed bed3+
188
tagAlign
176
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2552
Homo sapiens
Biosample type
2560
tissue
940
primary cell
660
cell line
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
505
pancreas
488
adipose tissue
313
heart
299
kidney
264
brain
168
liver
154
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
25
spleen
18
ureter
15
epithelium
12
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
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
urinary bladder
Project
2482
AMP
47
KPMP
31
T1D
Genome assembly (visualization)
1697
GRCh38
1580
hg19
Lab
2227
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
4
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
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
biosample_type!
in vitro differentiated cells
files.file_type!
bed bed3
month_released!
April, 2020
May, 2020
BIOSAMPLE
ASSAY
2560 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
71
68
1
6
4
7
3
1
1
4
adipose tissue
382
2
3
3
1
kidney
49
27
75
13
64
6
1
1
1
liver
24
95
20
2
1
3
1
1
1
1
bone element
84
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