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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
987
total RNA-seq
541
ChIP-seq
185
ATAC-seq
110
DNase-seq
110
single cell RNA-seq
85
RNA microarray
27
WGBS
25
pCHi-C
22
snATAC-seq
15
Hi-C
15
small RNA-seq
10
RRBS
4
MeRIP-seq
3
FAIRE-seq
Assay category
1112
Transcription
541
DNA binding
320
DNA accessibility
37
DNA methylation
15
3D chromatin structure
Target of assay
573
histone modification
572
histone
narrow histone mark
273
broad histone mark
181
control
88
transcription factor
22
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
537
February, 2021
234
August, 2017
166
May, 2020
120
July, 2018
111
October, 2019
101
August, 2021
95
February, 2023
95
June, 2019
82
May, 2019
73
July, 2019
66
May, 2022
63
October, 2018
54
November, 2017
46
December, 2017
42
April, 2019
40
May, 2021
40
November, 2019
38
March, 2020
26
November, 2018
25
February, 2020
21
October, 2017
19
April, 2020
8
January, 2021
7
December, 2018
6
April, 2018
6
September, 2017
5
January, 2019
5
March, 2019
4
November, 2020
2
January, 2018
1
August, 2022
1
May, 2023
Available data
1576
bam
1398
bigWig
1064
tsv
550
bed narrowPeak
374
bigBed narrowPeak
349
fastq
131
bed bed3+
130
bed broadPeak
128
tagAlign
108
bigBed broadPeak
95
txt
24
bed bedMethyl
24
bigBed bedMethyl
10
bedpe bed3+
10
hic
5
bed bed3
1
bedpe
1
csv
Organism
2132
Homo sapiens
Biosample type
2139
tissue
942
primary cell
624
cell line
339
in vitro differentiated cells
9
stem cell
Organ
534
connective tissue
476
adipose tissue
473
pancreas
317
liver
kidney
250
heart
158
bone element
151
brain
115
blood vessel
115
vasculature
107
limb
73
musculature of body
67
artery
54
eye
35
nerve
23
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2091
AMP
29
T1D
19
LungMap
Genome assembly (visualization)
1434
hg19
1428
GRCh38
Lab
2016
AMP-T2D consortium
52
Kyle Gaulton, UCSD
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:
89
inconsistent ontology term
27
inconsistent control
2
audit script error
Audit category:
22
missing controlled_by
Audit category:
3
inconsistent control read length
1
inconsistent assembly
target.investigated_as!
narrow histone mark
organ_slims!
kidney
BIOSAMPLE
ASSAY
2139 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
Hi-C
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
tissue
islet of Langerhans
298
34
68
1
4
7
3
1
4
1
adipose tissue
382
1
3
3
1
liver
167
103
20
2
1
3
1
1
1
1
bone element
84
heart left ventricle
3
26
2
3
18
4
1
1
1
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