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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
607
ChIP-seq
260
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1227
Transcription
607
DNA binding
470
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
403
histone modification
402
histone
206
broad histone mark
196
narrow histone mark
135
control
71
transcription factor
22
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
229
August, 2021
203
August, 2017
193
October, 2019
163
June, 2019
143
May, 2020
120
July, 2018
115
May, 2019
95
February, 2023
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
November, 2019
26
November, 2018
25
February, 2020
19
April, 2020
16
November, 2017
15
May, 2023
9
October, 2017
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
1707
bigWig
1076
tsv
940
bed narrowPeak
558
bigBed narrowPeak
351
fastq
tagAlign
211
bed broadPeak
191
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2475
Homo sapiens
Biosample type
2477
tissue
944
primary cell
629
cell line
348
in vitro differentiated cells
10
stem cell
Organ
527
connective tissue
479
pancreas
468
adipose tissue
299
kidney
291
liver
273
heart
158
bone element
147
brain
133
blood vessel
133
vasculature
122
limb
73
artery
67
musculature of body
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2380
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1681
GRCh38
1628
hg19
Lab
2165
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
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
audit.NOT_COMPLIANT.category!
missing controlled_by
files.file_type!
tagAlign
BIOSAMPLE
ASSAY
2477 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
52
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
75
20
2
1
3
1
1
1
1
kidney
49
27
75
13
64
6
1
1
1
bone element
84
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