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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
987
total RNA-seq
840
ChIP-seq
185
ATAC-seq
110
single cell RNA-seq
85
RNA microarray
27
WGBS
25
pCHi-C
22
snATAC-seq
15
DNase-seq
15
Hi-C
15
small RNA-seq
10
RRBS
4
MeRIP-seq
3
FAIRE-seq
Assay category
1112
Transcription
840
DNA binding
225
DNA accessibility
37
DNA methylation
15
3D chromatin structure
Target of assay
573
histone modification
572
histone
299
narrow histone mark
273
broad histone mark
181
control
88
transcription factor
22
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
537
February, 2021
284
August, 2017
238
October, 2019
193
May, 2020
120
July, 2018
115
May, 2019
101
August, 2021
95
February, 2023
June, 2019
82
November, 2017
74
October, 2018
73
July, 2019
66
May, 2022
57
April, 2019
48
December, 2017
40
March, 2020
40
May, 2021
40
November, 2019
26
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
2
January, 2018
1
August, 2022
1
May, 2023
Available data
1714
bam
1546
bigWig
1064
tsv
696
bed narrowPeak
379
bigBed narrowPeak
377
fastq
238
tagAlign
95
txt
50
bed broadPeak
42
bed bed3+
24
bed bedMethyl
24
bigBed bedMethyl
13
bigBed broadPeak
10
bedpe bed3+
10
hic
5
bed bed3
1
bedpe
1
csv
1
tagAlign bed3+
Organism
2334
Homo sapiens
Biosample type
2343
tissue
1010
primary cell
643
cell line
394
in vitro differentiated cells
10
stem cell
Organ
546
connective tissue
501
pancreas
487
adipose tissue
361
liver
246
heart
240
brain
kidney
158
bone element
130
blood vessel
130
vasculature
90
limb
71
artery
53
eye
50
musculature of body
43
nerve
25
spleen
20
lung
16
skeleton
15
epithelium
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
2293
AMP
31
T1D
19
LungMap
Genome assembly (visualization)
1583
hg19
1559
GRCh38
Lab
2220
AMP-T2D consortium
52
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
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:
90
inconsistent ontology term
27
inconsistent control
2
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
kidney
month_released!
June, 2019
BIOSAMPLE
ASSAY
2343 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
DNase-seq
Hi-C
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
tissue
islet of Langerhans
298
71
68
4
7
1
3
1
4
1
adipose tissue
382
2
3
3
1
liver
167
145
20
1
3
1
2
1
1
1
bone element
84
heart left ventricle
3
35
2
18
4
1
1
1
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