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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1013
total RNA-seq
584
ChIP-seq
228
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1203
Transcription
584
DNA binding
438
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
broad histone mark
187
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
537
February, 2021
229
August, 2021
211
August, 2017
203
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
87
February, 2023
77
July, 2019
59
May, 2019
55
October, 2018
47
September, 2023
45
December, 2017
43
April, 2019
40
March, 2020
40
May, 2021
40
November, 2017
40
November, 2019
26
May, 2022
26
November, 2018
25
February, 2020
19
April, 2020
15
May, 2023
13
October, 2017
8
January, 2021
7
December, 2018
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
3
January, 2019
2
January, 2018
1
August, 2022
Available data
1677
bam
1479
bigWig
1076
tsv
683
bed narrowPeak
357
bigBed narrowPeak
332
fastq
199
bed bed3+
193
bed broadPeak
176
bigBed broadPeak
162
tagAlign
153
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
1
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2393
Homo sapiens
Biosample type
2398
tissue
966
primary cell
643
cell line
338
in vitro differentiated cells
9
stem cell
Organ
527
connective tissue
468
adipose tissue
464
pancreas
296
liver
289
kidney
236
heart
195
brain
158
bone element
97
blood vessel
97
vasculature
88
limb
66
musculature of body
59
artery
56
eye
27
nerve
21
spleen
20
lung
18
ureter
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
2301
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1589
GRCh38
1525
hg19
Lab
2126
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
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:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
3
inconsistent control read length
target.investigated_as!
broad histone mark
lab.title!
Karen Mohlke, UNC
organ_slims!
skeleton
BIOSAMPLE
ASSAY
2398 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
57
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
147
123
2
1
3
1
1
1
1
kidney
49
17
75
13
64
6
1
1
1
bone element
84
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