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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
557
ChIP-seq
260
ATAC-seq
180
single cell RNA-seq
87
RNA microarray
27
WGBS
27
snATAC-seq
24
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1227
Transcription
557
DNA binding
293
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
616
histone modification
615
histone
narrow histone mark
297
broad histone mark
180
control
81
transcription factor
26
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
229
August, 2021
214
August, 2017
166
May, 2020
120
July, 2018
109
October, 2019
95
February, 2023
82
May, 2019
77
July, 2019
65
May, 2022
63
October, 2018
57
April, 2019
54
November, 2017
47
September, 2023
46
December, 2017
40
May, 2021
40
November, 2019
37
March, 2020
25
February, 2020
25
May, 2024
21
October, 2017
19
April, 2020
17
November, 2018
15
May, 2023
8
January, 2021
7
December, 2018
6
April, 2018
5
January, 2019
5
March, 2019
4
November, 2020
September, 2017
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1658
bam
1504
bigWig
1075
tsv
718
bed narrowPeak
453
bigBed narrowPeak
343
fastq
198
bed broadPeak
bed bed3+
176
bigBed broadPeak
157
txt
128
tagAlign
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
Organism
2242
Homo sapiens
Biosample type
2249
tissue
933
primary cell
640
cell line
318
in vitro differentiated cells
7
stem cell
Organ
528
connective tissue
470
adipose tissue
448
pancreas
311
liver
248
heart
221
kidney
158
bone element
124
brain
110
blood vessel
110
vasculature
71
limb
63
artery
51
eye
40
musculature of body
33
nerve
22
spleen
20
lung
16
skeleton
15
epithelium
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
urinary bladder
Project
2154
AMP
47
KPMP
29
T1D
19
LungMap
Genome assembly (visualization)
1410
GRCh38
1333
hg19
Lab
1912
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
25
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
1
Stephen Parker, UMich
Audit category:
87
inconsistent ontology term
27
inconsistent control
8
audit script error
Audit category:
11
missing controlled_by
Audit category:
3
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed bed3+
month_released!
September, 2017
organ_slims!
urinary bladder
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
2249 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
292
15
68
6
7
4
3
1
1
4
1
adipose tissue
382
1
3
3
1
liver
167
100
20
1
3
1
1
1
1
kidney
49
17
75
64
6
1
1
1
bone element
84
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