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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
982
total RNA-seq
907
ChIP-seq
185
ATAC-seq
178
DNase-seq
163
single cell RNA-seq
87
RNA microarray
27
WGBS
24
pCHi-C
22
snATAC-seq
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1161
Transcription
907
DNA binding
389
DNA accessibility
38
DNA methylation
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
539
February, 2021
284
August, 2017
241
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
100
August, 2021
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
73
July, 2019
66
May, 2022
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
39
November, 2019
32
March, 2020
26
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
4
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
1
May, 2023
Available data
1907
bam
1772
bigWig
1075
tsv
920
bed narrowPeak
561
bigBed narrowPeak
377
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
100
txt
25
bed bedMethyl
25
bigBed bedMethyl
csv
5
bed bed3
1
tagAlign bed3+
Organism
2604
Homo sapiens
Biosample type
2613
tissue
1076
primary cell
658
cell line
390
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
501
pancreas
488
adipose tissue
359
liver
310
heart
265
brain
158
bone element
152
kidney
132
blood vessel
132
vasculature
118
limb
76
musculature of body
73
artery
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
adrenal gland
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
2516
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1784
GRCh38
1744
hg19
Lab
2405
AMP-T2D consortium
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
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:
91
inconsistent ontology term
27
inconsistent control
4
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_slims!
3D chromatin structure
files.file_type!
csv
lab.title!
Katalin Susztak, Upenn
organ_slims!
adrenal gland
BIOSAMPLE
ASSAY
2613 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
71
68
1
6
4
7
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
2
3
1
1
1
kidney
27
13
48
1
1
bone element
84
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