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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
712
ChIP-seq
260
ATAC-seq
180
single cell RNA-seq
178
DNase-seq
86
RNA microarray
27
WGBS
27
snATAC-seq
24
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
3
snDrop-seq
2
MeRIP-seq
Assay category
1227
Transcription
712
DNA binding
469
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
618
histone modification
617
histone
318
narrow histone mark
299
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
545
February, 2021
249
August, 2017
228
August, 2021
211
October, 2019
170
May, 2020
163
June, 2019
120
July, 2018
95
February, 2023
93
May, 2019
77
July, 2019
70
November, 2017
66
April, 2019
66
May, 2022
47
September, 2023
45
October, 2018
40
May, 2021
40
May, 2024
40
November, 2019
39
March, 2020
36
December, 2017
25
February, 2020
23
November, 2018
20
October, 2017
18
April, 2020
15
May, 2023
8
January, 2021
6
April, 2018
6
January, 2019
5
March, 2019
3
December, 2018
3
December, 2019
2
January, 2018
2
November, 2020
1
August, 2022
Available data
1766
bigWig
1734
bam
1075
tsv
978
bed narrowPeak
555
bigBed narrowPeak
304
fastq
207
bed broadPeak
202
bed bed3+
180
tagAlign
176
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2577
Homo sapiens
Biosample type
2577
tissue
1053
primary cell
575
cell line
357
in vitro differentiated cells
7
stem cell
Organ
522
connective tissue
470
pancreas
463
adipose tissue
315
liver
297
heart
293
kidney
240
brain
158
bone element
117
blood vessel
117
vasculature
105
limb
78
musculature of body
66
artery
56
eye
32
nerve
19
lung
18
ureter
17
spleen
16
skeleton
15
epithelium
5
gonad
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
2481
AMP
47
KPMP
31
T1D
18
LungMap
Genome assembly (visualization)
1850
GRCh38
1746
hg19
Lab
2228
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
18
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
organ_slims!
ovary
target.investigated_as!
control
BIOSAMPLE
ASSAY
2577 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
snDrop-seq
MeRIP-seq
tissue
islet of Langerhans
292
54
68
6
1
7
4
3
1
1
2
adipose tissue
382
1
3
3
1
liver
167
102
20
1
2
3
1
1
1
1
kidney
49
21
75
64
13
6
1
1
1
bone element
84
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