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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1000
total RNA-seq
576
ChIP-seq
254
ATAC-seq
178
DNase-seq
175
single cell RNA-seq
85
RNA microarray
26
snATAC-seq
25
pCHi-C
15
WGBS
12
Hi-C
5
RRBS
4
MeRIP-seq
3
snDrop-seq
2
FAIRE-seq
Assay category
1175
Transcription
576
DNA binding
460
DNA accessibility
20
DNA methylation
12
3D chromatin structure
Target of assay
628
histone modification
627
histone
324
narrow histone mark
broad histone mark
187
control
94
transcription factor
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
540
February, 2021
229
August, 2021
209
August, 2017
203
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
95
February, 2023
July, 2019
65
May, 2022
55
May, 2019
47
September, 2023
44
October, 2018
43
December, 2017
40
March, 2020
40
May, 2021
40
November, 2017
40
November, 2019
39
April, 2019
26
November, 2018
25
February, 2020
19
April, 2020
15
May, 2023
15
May, 2024
13
October, 2017
8
January, 2021
7
December, 2018
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
January, 2019
2
January, 2018
1
December, 2019
Available data
1598
bam
1429
bigWig
1022
tsv
698
bed narrowPeak
335
bigBed narrowPeak
317
fastq
196
bed bed3+
193
bed broadPeak
176
bigBed broadPeak
162
tagAlign
151
txt
64
xls
11
bed bedMethyl
11
bigBed bedMethyl
11
hic
10
bedpe bed3+
5
bed bed3
1
bedpe
1
csv
1
tagAlign bed3+
Organism
2355
Homo sapiens
Biosample type
2360
tissue
894
primary cell
578
cell line
325
in vitro differentiated cells
9
stem cell
Organ
512
connective tissue
453
adipose tissue
449
pancreas
326
liver
277
kidney
226
heart
184
brain
158
bone element
87
blood vessel
87
vasculature
83
limb
58
musculature of body
57
artery
56
eye
27
nerve
21
spleen
20
lung
18
ureter
16
skeleton
14
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
2263
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1529
GRCh38
1474
hg19
Lab
2033
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
15
Patrick T. Ellinor, Broad
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
audit script error
Audit category:
21
missing controlled_by
Audit category:
3
inconsistent control read length
audit.ERROR.category!
audit script error
month_released!
July, 2019
target.investigated_as!
RNA binding protein
broad histone mark
BIOSAMPLE
ASSAY
2360 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
WGBS
Hi-C
RRBS
MeRIP-seq
snDrop-seq
FAIRE-seq
tissue
islet of Langerhans
292
55
68
1
6
6
4
3
4
1
adipose tissue
382
2
3
1
3
liver
165
122
20
2
1
1
3
1
1
kidney
49
16
75
13
59
6
1
bone element
84
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