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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
990
total RNA-seq
749
ChIP-seq
181
ATAC-seq
87
RNA microarray
86
single cell RNA-seq
27
snATAC-seq
22
pCHi-C
19
WGBS
15
small RNA-seq
13
Hi-C
10
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1091
Transcription
749
DNA binding
214
DNA accessibility
29
DNA methylation
13
3D chromatin structure
Target of assay
498
histone modification
497
histone
271
narrow histone mark
226
broad histone mark
171
control
82
transcription factor
18
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
258
August, 2017
230
October, 2019
193
May, 2020
137
August, 2021
120
July, 2018
94
May, 2019
76
November, 2017
74
October, 2018
May, 2022
59
February, 2023
57
July, 2019
48
December, 2017
47
September, 2023
40
November, 2019
38
May, 2021
33
March, 2020
23
April, 2019
22
February, 2020
19
April, 2020
19
October, 2017
17
November, 2018
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
4
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1751
bam
1595
bigWig
965
tsv
773
bed narrowPeak
473
bigBed narrowPeak
353
fastq
238
tagAlign
bed broadPeak
177
bed bed3+
150
txt
149
bigBed broadPeak
64
xls
18
bed bedMethyl
18
bigBed bedMethyl
8
hic
7
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2209
Homo sapiens
Biosample type
2212
tissue
895
primary cell
537
cell line
392
in vitro differentiated cells
stem cell
Organ
544
connective tissue
485
adipose tissue
461
pancreas
318
liver
heart
231
kidney
229
brain
158
bone element
128
blood vessel
128
vasculature
86
limb
69
artery
53
eye
41
nerve
35
musculature of body
24
spleen
20
lung
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
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2115
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1504
GRCh38
1432
hg19
Lab
1966
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
28
Kyle Gaulton, UCSD
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
90
inconsistent ontology term
27
inconsistent control
8
audit script error
Audit category:
24
missing controlled_by
Audit category:
6
inconsistent control read length
biosample_type!
stem cell
files.file_type!
bed broadPeak
month_released!
May, 2022
organ_slims!
heart
BIOSAMPLE
ASSAY
2212 results
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total RNA-seq
ChIP-seq
ATAC-seq
RNA microarray
single cell RNA-seq
snATAC-seq
pCHi-C
WGBS
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
286
65
48
6
7
4
3
1
1
4
1
adipose tissue
382
2
3
1
3
liver
147
145
1
1
3
1
1
1
kidney
49
27
75
64
6
1
1
1
bone element
84
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