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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1006
total RNA-seq
907
ChIP-seq
254
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
pCHi-C
12
Hi-C
7
WGBS
4
MeRIP-seq
3
snDrop-seq
2
FAIRE-seq
2
RRBS
Assay category
1180
Transcription
907
DNA binding
462
DNA accessibility
12
3D chromatin structure
9
DNA methylation
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
545
February, 2021
279
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
66
May, 2022
July, 2019
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
25
February, 2020
23
October, 2017
20
November, 2018
19
April, 2020
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1843
bam
1709
bigWig
1029
tsv
977
bed narrowPeak
559
bigBed narrowPeak
377
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
bed bedMethyl
11
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2680
Homo sapiens
Biosample type
2689
tissue
1056
primary cell
661
cell line
394
in vitro differentiated cells
10
stem cell
Organ
535
connective tissue
495
pancreas
476
adipose tissue
352
liver
295
kidney
293
heart
254
brain
158
bone element
126
blood vessel
126
vasculature
117
limb
73
musculature of body
72
artery
56
eye
43
nerve
23
spleen
20
lung
18
ureter
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
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2592
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1790
GRCh38
1692
hg19
Lab
2337
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
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
files.file_type!
bed bedMethyl
month_released!
July, 2019
BIOSAMPLE
ASSAY
2689 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
WGBS
MeRIP-seq
snDrop-seq
FAIRE-seq
RRBS
tissue
islet of Langerhans
298
71
68
1
7
4
3
4
1
adipose tissue
382
2
3
1
1
liver
165
145
20
2
1
1
1
3
kidney
49
27
75
13
64
6
1
bone element
84
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