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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1031
total RNA-seq
722
ChIP-seq
260
ATAC-seq
single cell RNA-seq
178
DNase-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
3
snDrop-seq
2
MeRIP-seq
Assay category
1047
Transcription
722
DNA binding
470
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
628
histone modification
627
histone
324
narrow histone mark
303
broad histone mark
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
539
February, 2021
255
August, 2017
215
October, 2019
170
May, 2020
163
June, 2019
123
August, 2021
120
July, 2018
94
February, 2023
93
May, 2019
77
July, 2019
70
November, 2017
66
April, 2019
65
May, 2022
45
October, 2018
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
36
December, 2017
25
February, 2020
23
November, 2018
20
October, 2017
12
May, 2023
10
April, 2020
8
January, 2021
6
January, 2019
5
March, 2019
3
December, 2018
2
December, 2019
2
January, 2018
2
November, 2020
1
August, 2022
Available data
1766
bigWig
1734
bam
984
bed narrowPeak
967
tsv
561
bigBed narrowPeak
304
fastq
213
bed broadPeak
202
bed bed3+
186
tagAlign
176
bigBed broadPeak
144
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2402
Homo sapiens
Biosample type
2410
tissue
630
primary cell
579
cell line
355
in vitro differentiated cells
9
stem cell
Organ
523
connective tissue
470
pancreas
464
adipose tissue
314
liver
240
brain
229
kidney
204
heart
158
bone element
111
blood vessel
111
vasculature
105
limb
77
musculature of body
64
artery
56
eye
32
nerve
18
ureter
17
spleen
16
skeleton
15
epithelium
11
lung
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
2369
AMP
31
T1D
10
LungMap
Genome assembly (visualization)
1850
GRCh38
1746
hg19
Lab
2127
AMP-T2D consortium
131
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
10
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
4
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
single cell RNA-seq
award.project!
HPAP
target.investigated_as!
control
BIOSAMPLE
ASSAY
2410 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
snDrop-seq
MeRIP-seq
tissue
islet of Langerhans
292
58
68
1
7
4
3
1
1
2
adipose tissue
382
1
3
3
1
liver
167
102
20
2
3
1
1
1
1
kidney
49
21
75
13
6
1
1
1
bone element
84
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