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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
961
total RNA-seq
907
ChIP-seq
176
ATAC-seq
86
RNA microarray
65
single cell RNA-seq
27
WGBS
25
pCHi-C
16
small RNA-seq
14
Hi-C
12
snATAC-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1042
Transcription
907
DNA binding
194
DNA accessibility
38
DNA methylation
14
3D chromatin structure
Target of assay
628
histone modification
627
histone
324
narrow histone mark
303
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
284
August, 2017
238
October, 2019
August, 2021
193
May, 2020
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
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
25
February, 2020
23
October, 2017
17
November, 2018
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
1907
bam
1752
bigWig
977
tsv
900
bed narrowPeak
561
bigBed narrowPeak
377
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
bigBed broadPeak
100
txt
25
bed bedMethyl
25
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2306
Homo sapiens
Biosample type
2313
tissue
1035
primary cell
559
cell line
351
in vitro differentiated cells
10
stem cell
Organ
544
connective tissue
497
pancreas
485
adipose tissue
318
liver
238
brain
194
heart
158
bone element
122
blood vessel
122
vasculature
103
kidney
86
limb
67
artery
53
eye
50
musculature of body
41
nerve
24
spleen
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2235
AMP
47
KPMP
31
T1D
Genome assembly (visualization)
1619
GRCh38
1574
hg19
Lab
2150
AMP-T2D consortium
52
Kyle Gaulton, UCSD
47
KPMP
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
Xin Sun, UCSD
14
Katalin Susztak, Upenn
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
90
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
files.file_type!
bigBed broadPeak
lab.title!
Karen Mohlke, UNC
Xin Sun, UCSD
month_released!
August, 2021
BIOSAMPLE
ASSAY
2313 results
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total RNA-seq
ChIP-seq
ATAC-seq
RNA microarray
single cell RNA-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
snATAC-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
291
71
68
6
4
2
7
1
1
4
1
adipose tissue
382
2
3
3
1
liver
147
145
1
3
1
1
1
1
kidney
27
11
56
1
1
bone element
84
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