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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1030
total RNA-seq
801
ChIP-seq
252
ATAC-seq
174
single cell RNA-seq
142
DNase-seq
87
RNA microarray
28
snATAC-seq
25
pCHi-C
16
small RNA-seq
12
Hi-C
11
WGBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
RRBS
Assay category
1220
Transcription
801
DNA binding
426
DNA accessibility
13
DNA methylation
12
3D chromatin structure
Target of assay
544
histone modification
543
histone
294
narrow histone mark
249
broad histone mark
170
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
539
February, 2021
279
August, 2017
229
August, 2021
193
May, 2020
173
October, 2019
131
June, 2019
120
July, 2018
108
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
66
May, 2022
59
July, 2019
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
November, 2019
23
October, 2017
22
February, 2020
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
1793
bam
1641
bigWig
1069
tsv
852
bed narrowPeak
477
bigBed narrowPeak
377
fastq
238
tagAlign
177
bed broadPeak
169
bed bed3+
157
txt
140
bigBed broadPeak
64
xls
bed bedMethyl
24
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2582
Homo sapiens
Biosample type
2591
tissue
1078
primary cell
661
cell line
394
in vitro differentiated cells
10
stem cell
Organ
545
connective tissue
499
pancreas
486
adipose tissue
360
liver
298
kidney
266
heart
264
brain
158
bone element
132
blood vessel
132
vasculature
limb
79
musculature of body
73
artery
56
eye
43
nerve
23
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
2494
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1708
GRCh38
1650
hg19
Lab
2279
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
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:
90
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed bedMethyl
organ_slims!
limb
BIOSAMPLE
ASSAY
2591 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
pCHi-C
small RNA-seq
Hi-C
WGBS
FAIRE-seq
MeRIP-seq
snDrop-seq
RRBS
tissue
islet of Langerhans
298
70
68
1
7
4
3
1
4
adipose tissue
382
2
3
1
1
liver
167
145
20
1
2
1
1
1
3
kidney
49
27
75
64
13
6
1
1
bone element
84
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