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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1009
total RNA-seq
782
ChIP-seq
210
ATAC-seq
151
DNase-seq
87
RNA microarray
87
single cell RNA-seq
21
pCHi-C
18
snATAC-seq
15
small RNA-seq
13
Hi-C
9
WGBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
RRBS
Assay category
1111
Transcription
782
DNA binding
383
DNA accessibility
13
3D chromatin structure
11
DNA methylation
Target of assay
531
histone modification
530
histone
284
narrow histone mark
246
broad histone mark
171
control
82
transcription factor
18
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
234
October, 2019
193
May, 2020
137
August, 2021
136
June, 2019
120
July, 2018
94
May, 2019
82
November, 2017
74
October, 2018
66
May, 2022
50
July, 2019
48
December, 2017
47
September, 2023
41
February, 2023
40
November, 2019
37
May, 2021
29
March, 2020
23
April, 2019
23
October, 2017
22
February, 2020
20
November, 2018
19
April, 2020
15
May, 2023
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
1773
bam
1613
bigWig
965
tsv
809
bed narrowPeak
473
bigBed narrowPeak
377
fastq
238
tagAlign
186
bed broadPeak
178
bed bed3+
157
txt
149
bigBed broadPeak
64
xls
18
bed bedMethyl
bigBed bedMethyl
8
hic
7
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2406
Homo sapiens
Biosample type
2415
tissue
862
primary cell
586
cell line
393
in vitro differentiated cells
stem cell
Organ
545
connective tissue
486
adipose tissue
469
pancreas
360
liver
heart
298
kidney
264
brain
158
bone element
132
blood vessel
132
vasculature
121
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
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2349
AMP
47
KPMP
T1D
19
LungMap
Genome assembly (visualization)
1656
GRCh38
1632
hg19
Lab
2130
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
25
Kyle Gaulton, UCSD
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:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
award.project!
T1D
biosample_type!
stem cell
files.file_type!
bigBed bedMethyl
organ_slims!
heart
BIOSAMPLE
ASSAY
2415 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
RNA microarray
single cell RNA-seq
pCHi-C
snATAC-seq
small RNA-seq
Hi-C
WGBS
FAIRE-seq
MeRIP-seq
snDrop-seq
RRBS
tissue
islet of Langerhans
285
69
57
1
6
4
1
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
6
1
1
bone element
84
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