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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1024
total RNA-seq
901
ChIP-seq
181
ATAC-seq
178
DNase-seq
126
single cell RNA-seq
87
RNA microarray
27
WGBS
26
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
1166
Transcription
901
DNA binding
389
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
622
histone modification
621
histone
321
narrow histone mark
300
broad histone mark
187
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
279
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
73
October, 2018
66
May, 2022
48
December, 2017
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
November, 2018
25
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
1901
bam
1766
bigWig
1072
tsv
915
bed narrowPeak
555
bigBed narrowPeak
371
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
153
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
1
bedpe
1
tagAlign bed3+
Organism
2620
Homo sapiens
Biosample type
2629
tissue
995
primary cell
630
cell line
361
in vitro differentiated cells
8
stem cell
Organ
546
connective tissue
487
adipose tissue
482
pancreas
360
liver
277
heart
264
brain
252
kidney
150
bone element
122
limb
98
blood vessel
98
vasculature
82
musculature of body
43
nerve
38
artery
25
eye
25
spleen
20
lung
18
ureter
8
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
epithelium
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
2597
AMP
19
LungMap
13
T1D
Genome assembly (visualization)
1818
GRCh38
1716
hg19
Lab
2342
AMP-T2D consortium
142
Katalin Susztak, Upenn
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
34
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:
inconsistent control read length
1
inconsistent assembly
month_released!
February, 2023
lab.title!
KPMP
audit.WARNING.category!
inconsistent control read length
BIOSAMPLE
ASSAY
2629 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
293
71
57
1
5
4
3
1
1
4
adipose tissue
382
2
2
3
1
liver
167
144
20
2
1
3
1
1
1
1
kidney
49
27
75
13
17
6
1
1
1
bone element
84
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