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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1035
total RNA-seq
817
ChIP-seq
223
ATAC-seq
174
DNase-seq
172
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1223
Transcription
817
DNA binding
429
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
573
histone modification
572
histone
303
narrow histone mark
269
broad histone mark
180
control
88
transcription factor
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
282
August, 2017
227
August, 2021
216
October, 2019
193
May, 2020
161
June, 2019
120
July, 2018
107
May, 2019
82
November, 2017
76
April, 2019
76
July, 2019
66
May, 2022
63
October, 2018
60
February, 2023
47
September, 2023
46
December, 2017
40
March, 2020
40
May, 2021
40
November, 2019
26
November, 2018
23
February, 2020
23
October, 2017
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
1851
bam
1684
bigWig
1072
tsv
862
bed narrowPeak
517
bigBed narrowPeak
362
fastq
238
tagAlign
209
bed broadPeak
199
bed bed3+
172
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2633
Homo sapiens
Biosample type
2642
tissue
1076
primary cell
531
cell line
383
in vitro differentiated cells
10
stem cell
Organ
542
connective tissue
497
pancreas
483
adipose tissue
359
liver
298
kidney
268
heart
265
brain
158
bone element
130
blood vessel
130
vasculature
122
limb
82
musculature of body
artery
56
eye
43
nerve
25
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
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2545
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1736
GRCh38
1707
hg19
Lab
2330
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:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
25
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
artery
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
2642 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
69
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
144
20
2
1
3
1
1
1
1
kidney
49
26
75
13
64
6
1
1
1
bone element
84
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