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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1030
total RNA-seq
806
ChIP-seq
250
ATAC-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
26
WGBS
23
pCHi-C
16
small RNA-seq
12
Hi-C
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1220
Transcription
806
DNA binding
284
DNA accessibility
37
DNA methylation
12
3D chromatin structure
Target of assay
544
histone modification
543
histone
294
narrow histone mark
249
broad histone mark
170
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
258
August, 2017
229
August, 2021
193
May, 2020
173
October, 2019
120
July, 2018
108
May, 2019
95
February, 2023
80
April, 2019
76
November, 2017
74
October, 2018
72
July, 2019
66
May, 2022
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
40
November, 2019
38
March, 2020
22
February, 2020
19
April, 2020
19
October, 2017
17
November, 2018
15
May, 2023
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
Available data
1793
bam
1681
bigWig
1067
tsv
892
bed narrowPeak
477
bigBed narrowPeak
377
fastq
238
tagAlign
bed broadPeak
169
bed bed3+
157
txt
140
bigBed broadPeak
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2473
Homo sapiens
Biosample type
2476
tissue
1039
primary cell
603
cell line
393
in vitro differentiated cells
10
stem cell
Organ
544
connective tissue
485
adipose tissue
485
pancreas
358
liver
286
heart
231
kidney
229
brain
158
bone element
128
blood vessel
128
vasculature
limb
69
artery
53
eye
41
nerve
37
musculature of body
24
spleen
20
lung
16
skeleton
15
epithelium
5
gonad
5
ovary
intestine
2
pituitary gland
2
thymus
1
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
2379
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1608
GRCh38
1499
hg19
Lab
2126
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.
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
90
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
24
missing controlled_by
Audit category:
6
inconsistent control read length
organ_slims!
intestine
limb
files.file_type!
bed broadPeak
BIOSAMPLE
ASSAY
2476 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
298
64
66
7
4
3
1
1
4
1
adipose tissue
382
2
3
3
1
liver
167
145
20
1
3
1
1
1
1
kidney
49
27
75
64
6
1
1
1
bone element
84
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