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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1037
total RNA-seq
881
ChIP-seq
260
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
WGBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
RRBS
Assay category
1227
Transcription
881
DNA binding
470
DNA accessibility
16
3D chromatin structure
13
DNA methylation
Target of assay
620
histone modification
619
histone
320
narrow histone mark
299
broad histone mark
187
control
76
transcription factor
27
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
257
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
66
May, 2022
63
July, 2019
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
25
February, 2020
20
November, 2018
19
April, 2020
19
October, 2017
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
1882
bam
1747
bigWig
1076
tsv
980
bed narrowPeak
558
bigBed narrowPeak
351
fastq
234
tagAlign
211
bed broadPeak
191
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2717
Homo sapiens
Biosample type
2726
tissue
1034
primary cell
648
cell line
388
in vitro differentiated cells
10
stem cell
Organ
533
connective tissue
489
pancreas
474
adipose tissue
360
liver
306
heart
298
kidney
260
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
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2629
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1818
GRCh38
1721
hg19
Lab
2374
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
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:
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed bedMethyl
audit.NOT_COMPLIANT.category!
missing controlled_by
BIOSAMPLE
ASSAY
2726 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
WGBS
FAIRE-seq
MeRIP-seq
snDrop-seq
RRBS
tissue
islet of Langerhans
298
61
68
1
7
4
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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