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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
955
total RNA-seq
682
ChIP-seq
178
DNase-seq
131
ATAC-seq
107
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
682
DNA binding
315
DNA accessibility
38
DNA methylation
13
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
545
February, 2021
255
August, 2017
215
October, 2019
170
May, 2020
163
June, 2019
120
July, 2018
99
August, 2021
93
May, 2019
77
February, 2023
77
July, 2019
70
November, 2017
66
April, 2019
45
October, 2018
40
March, 2020
40
November, 2019
38
May, 2021
36
December, 2017
25
February, 2020
23
November, 2018
19
October, 2017
6
April, 2018
6
January, 2019
3
December, 2018
3
December, 2019
2
January, 2018
2
May, 2022
1
August, 2022
1
May, 2023
Available data
1715
bam
1711
bigWig
1075
tsv
842
bed narrowPeak
561
bigBed narrowPeak
284
fastq
211
bed broadPeak
202
bed bed3+
186
tagAlign
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
2233
Homo sapiens
Biosample type
2240
tissue
539
cell line
492
primary cell
308
in vitro differentiated cells
7
stem cell
Organ
523
connective tissue
464
adipose tissue
415
pancreas
275
liver
257
heart
240
brain
158
bone element
117
blood vessel
117
vasculature
105
limb
104
kidney
78
musculature of body
66
artery
56
eye
32
nerve
18
ureter
17
spleen
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
2236
AMP
4
T1D
Genome assembly (visualization)
1738
GRCh38
1709
hg19
Lab
2240
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
2
Mark McCarthy, Oxford
2
Rohit N. Kulkarni, M.D., Ph.D.
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
organ_slims!
bone marrow
target.investigated_as!
control
BIOSAMPLE
ASSAY
2240 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
1
3
3
1
islet of Langerhans
286
58
1
34
4
1
1
1
1
liver
147
102
2
1
3
1
1
1
1
bone element
84
heart left ventricle
3
29
3
2
18
4
1
1
1
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