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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
867
total RNA-seq
712
ChIP-seq
239
ATAC-seq
173
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
24
pCHi-C
23
WGBS
15
Hi-C
13
small RNA-seq
10
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNase-seq
Assay category
1053
Transcription
712
DNA binding
272
DNA accessibility
33
DNA methylation
15
3D chromatin structure
Target of assay
523
histone
523
histone modification
265
narrow histone mark
258
broad histone mark
141
control
50
transcription factor
21
RNA binding protein
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
544
February, 2021
232
October, 2019
230
August, 2017
229
August, 2021
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
69
July, 2019
47
September, 2023
40
May, 2021
40
November, 2019
37
March, 2020
26
May, 2022
24
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
13
November, 2018
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
1619
bam
1467
bigWig
922
tsv
831
bed narrowPeak
512
bigBed narrowPeak
294
fastq
210
bed broadPeak
199
bed bed3+
bigBed broadPeak
168
tagAlign
157
txt
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
10
hic
9
bedpe bed3+
5
bed bed3
5
csv
1
bedpe
1
tagAlign bed3+
Organism
2194
Homo sapiens
Biosample type
2203
tissue
1027
primary cell
378
in vitro differentiated cells
260
cell line
10
stem cell
Organ
545
connective tissue
499
pancreas
486
adipose tissue
liver
246
heart
238
brain
231
kidney
158
bone element
128
blood vessel
128
vasculature
86
limb
69
artery
53
eye
50
musculature of body
41
nerve
24
spleen
20
lung
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
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2106
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1408
GRCh38
1330
hg19
Lab
1931
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
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:
90
inconsistent ontology term
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
organ_slims!
liver
files.file_type!
bigBed broadPeak
BIOSAMPLE
ASSAY
2203 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
WGBS
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
298
71
68
7
4
3
1
1
4
1
adipose tissue
382
2
3
1
3
kidney
49
27
75
64
6
1
1
1
bone element
84
heart left ventricle
3
35
2
18
1
4
1
1
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