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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1037
total RNA-seq
892
ChIP-seq
252
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
WGBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
RRBS
Assay category
1227
Transcription
892
DNA binding
462
DNA accessibility
16
3D chromatin structure
13
DNA methylation
Target of assay
616
histone modification
615
histone
322
narrow histone mark
293
broad histone mark
184
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
63
July, 2019
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
25
February, 2020
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
1892
bam
1758
bigWig
1076
tsv
972
bed narrowPeak
555
bigBed narrowPeak
360
fastq
224
tagAlign
209
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2720
Homo sapiens
Biosample type
2729
tissue
1078
primary cell
659
cell line
394
in vitro differentiated cells
10
stem cell
Organ
544
connective tissue
494
pancreas
485
adipose tissue
360
liver
306
heart
298
kidney
248
brain
158
bone element
132
blood vessel
132
vasculature
121
limb
79
musculature of body
73
artery
56
eye
43
nerve
22
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
2632
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1829
GRCh38
1733
hg19
Lab
2378
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
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
month_released!
October, 2017
files.file_type!
bigBed bedMethyl
assay_title!
HiChIP
BIOSAMPLE
ASSAY
2729 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
small RNA-seq
WGBS
FAIRE-seq
MeRIP-seq
snDrop-seq
RRBS
tissue
islet of Langerhans
298
71
67
1
7
4
3
1
4
adipose tissue
382
2
3
1
1
liver
167
145
20
2
1
1
1
1
3
kidney
49
27
75
13
64
6
1
1
bone element
84
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