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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1018
total RNA-seq
907
ChIP-seq
181
ATAC-seq
single cell RNA-seq
178
DNase-seq
87
RNA microarray
27
WGBS
26
snATAC-seq
25
pCHi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1034
Transcription
907
DNA binding
389
DNA accessibility
38
DNA methylation
3D chromatin structure
Target of assay
628
histone modification
627
histone
324
narrow histone mark
303
broad histone mark
187
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
284
August, 2017
241
October, 2019
193
May, 2020
163
June, 2019
121
August, 2021
120
July, 2018
115
May, 2019
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
73
July, 2019
65
May, 2022
48
December, 2017
40
May, 2021
40
May, 2024
39
November, 2019
33
March, 2020
26
November, 2018
25
February, 2020
23
October, 2017
12
May, 2023
10
April, 2020
8
January, 2021
7
December, 2018
7
January, 2019
6
September, 2017
4
March, 2019
4
November, 2020
2
December, 2019
2
January, 2018
1
August, 2022
Available data
1901
bam
1766
bigWig
963
tsv
921
bed narrowPeak
561
bigBed narrowPeak
371
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
140
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
1
tagAlign bed3+
Organism
2478
Homo sapiens
Biosample type
2487
tissue
803
primary cell
652
cell line
372
in vitro differentiated cells
10
stem cell
Organ
546
connective tissue
487
adipose tissue
477
pancreas
359
liver
264
brain
234
kidney
182
heart
150
bone element
118
limb
91
blood vessel
91
vasculature
75
musculature of body
43
nerve
36
artery
25
eye
25
spleen
18
ureter
11
lung
8
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
epithelium
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
2464
AMP
13
T1D
10
LungMap
Genome assembly (visualization)
1818
GRCh38
1705
hg19
Lab
2223
AMP-T2D consortium
130
Katalin Susztak, Upenn
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
34
Kyle Gaulton, UCSD
10
Xin Sun, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Bing Ren, UCSD
2
Mark McCarthy, Oxford
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_slims!
3D chromatin structure
assay_title!
single cell RNA-seq
month_released!
February, 2023
BIOSAMPLE
ASSAY
2487 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
287
71
57
1
5
4
1
1
4
adipose tissue
382
2
2
3
1
liver
167
145
20
2
3
1
1
1
kidney
49
27
75
13
6
1
1
bone element
84
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