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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
906
total RNA-seq
832
ChIP-seq
176
DNase-seq
130
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
1035
Transcription
832
DNA binding
312
DNA accessibility
38
DNA methylation
13
3D chromatin structure
Target of assay
569
histone modification
568
histone
301
narrow histone mark
267
broad histone mark
174
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
200
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
May, 2021
26
November, 2018
24
February, 2020
22
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
1802
bam
1642
bigWig
1032
tsv
815
bed narrowPeak
535
bigBed narrowPeak
351
fastq
238
tagAlign
209
bed broadPeak
203
bed bed3+
174
bigBed broadPeak
94
txt
25
bed bedMethyl
25
bigBed bedMethyl
9
bedpe bed3+
9
hic
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2336
Homo sapiens
Biosample type
2344
tissue
594
cell line
504
primary cell
255
in vitro differentiated cells
8
stem cell
Organ
547
connective tissue
488
adipose tissue
406
pancreas
321
liver
271
heart
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
110
kidney
82
musculature of body
73
artery
56
eye
nerve
25
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
2340
AMP
4
T1D
Genome assembly (visualization)
1672
GRCh38
1643
hg19
Lab
2344
AMP-T2D consortium
142
Katalin Susztak, Upenn
50
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
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
month_released!
May, 2021
organ_slims!
nerve
BIOSAMPLE
ASSAY
2344 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
adipose tissue
382
2
3
3
1
islet of Langerhans
244
71
1
34
6
4
1
1
1
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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