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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
867
ChIP-seq
260
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
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
867
DNA binding
442
DNA accessibility
16
3D chromatin structure
13
DNA methylation
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
187
control
89
transcription factor
23
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
223
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
93
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
65
May, 2022
63
July, 2019
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
November, 2019
25
February, 2020
23
October, 2017
20
November, 2018
15
May, 2023
9
April, 2020
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
Available data
1907
bam
1732
bigWig
1076
tsv
944
bed narrowPeak
561
bigBed narrowPeak
377
fastq
238
tagAlign
213
bed broadPeak
204
bed bed3+
176
bigBed broadPeak
156
txt
64
xls
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2676
Homo sapiens
Biosample type
2684
tissue
1022
primary cell
661
cell line
394
in vitro differentiated cells
10
stem cell
Organ
545
connective tissue
488
pancreas
486
adipose tissue
360
liver
292
kidney
266
heart
264
brain
158
bone element
132
blood vessel
132
vasculature
121
limb
78
musculature of body
73
artery
56
eye
43
nerve
23
spleen
18
ureter
16
skeleton
15
epithelium
10
lung
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
2607
AMP
47
KPMP
21
T1D
9
LungMap
Genome assembly (visualization)
1803
GRCh38
1745
hg19
Lab
2398
AMP-T2D consortium
136
Katalin Susztak, Upenn
47
KPMP
42
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
9
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
7
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed bedMethyl
assay_title!
snATAC-seq
BIOSAMPLE
ASSAY
2684 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
Hi-C
small RNA-seq
WGBS
FAIRE-seq
MeRIP-seq
snDrop-seq
RRBS
tissue
islet of Langerhans
298
71
68
1
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
1
1
bone element
84
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