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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1011
total RNA-seq
668
ChIP-seq
240
ATAC-seq
180
single cell RNA-seq
178
DNase-seq
86
RNA microarray
27
WGBS
27
snATAC-seq
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1207
Transcription
668
DNA binding
449
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
441
histone modification
440
histone
227
broad histone mark
213
narrow histone mark
135
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
228
August, 2021
225
August, 2017
192
October, 2019
163
June, 2019
143
May, 2020
120
July, 2018
115
May, 2019
95
February, 2023
80
April, 2019
77
July, 2019
74
October, 2018
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
May, 2022
26
November, 2018
25
February, 2020
18
April, 2020
16
November, 2017
15
May, 2023
9
October, 2017
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
1900
bam
1746
bigWig
1076
tsv
958
bed narrowPeak
555
bigBed narrowPeak
370
fastq
tagAlign
207
bed broadPeak
205
bed bed3+
176
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
2496
Homo sapiens
Biosample type
2496
tissue
988
primary cell
638
cell line
354
in vitro differentiated cells
8
stem cell
Organ
538
connective tissue
489
pancreas
479
adipose tissue
313
heart
299
kidney
251
liver
158
bone element
147
brain
133
blood vessel
133
vasculature
122
limb
73
artery
67
musculature of body
56
eye
43
nerve
25
spleen
19
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
lymph node
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2400
AMP
47
KPMP
31
T1D
18
LungMap
Genome assembly (visualization)
1743
GRCh38
1630
hg19
Lab
2185
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
18
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:
22
missing controlled_by
Audit category:
6
inconsistent control read length
files.file_type!
tagAlign
lab.title!
Karen Mohlke, UNC
organ_slims!
lymph node
BIOSAMPLE
ASSAY
2496 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
61
68
6
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
kidney
49
27
75
64
13
6
1
1
1
liver
147
75
1
2
3
1
1
1
1
bone element
84
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