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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
670
ChIP-seq
259
ATAC-seq
177
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
WGBS
24
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
3
snDrop-seq
2
MeRIP-seq
Assay category
1227
Transcription
670
DNA binding
468
DNA accessibility
36
DNA methylation
16
3D chromatin structure
Target of assay
587
histone modification
586
histone
307
narrow histone mark
279
broad histone mark
control
83
transcription factor
23
RNA binding protein
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
255
August, 2017
229
August, 2021
215
October, 2019
170
May, 2020
163
June, 2019
120
July, 2018
95
February, 2023
93
May, 2019
77
July, 2019
70
November, 2017
66
April, 2019
66
May, 2022
47
September, 2023
45
October, 2018
40
May, 2021
40
November, 2019
39
March, 2020
36
December, 2017
25
February, 2020
19
April, 2020
19
October, 2017
17
November, 2018
15
May, 2023
8
January, 2021
6
April, 2018
5
March, 2019
3
December, 2019
2
January, 2018
2
November, 2020
1
August, 2022
Available data
1724
bam
1716
bigWig
1075
tsv
930
bed narrowPeak
548
bigBed narrowPeak
294
fastq
212
bed broadPeak
201
bed bed3+
186
tagAlign
175
bigBed broadPeak
157
txt
64
xls
23
bed bedMethyl
23
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2525
Homo sapiens
Biosample type
2533
tissue
1053
primary cell
579
cell line
357
in vitro differentiated cells
9
stem cell
Organ
523
connective tissue
476
pancreas
464
adipose tissue
315
liver
293
kidney
257
heart
240
brain
158
bone element
117
blood vessel
117
vasculature
105
limb
78
musculature of body
66
artery
56
eye
32
nerve
20
lung
18
ureter
spleen
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
2436
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1800
GRCh38
1738
hg19
Lab
2223
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
2
Mark McCarthy, Oxford
2
Rohit N. Kulkarni, M.D., Ph.D.
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
spleen
target.investigated_as!
control
BIOSAMPLE
ASSAY
2533 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
snDrop-seq
MeRIP-seq
tissue
islet of Langerhans
298
58
68
1
7
4
3
1
1
2
adipose tissue
382
1
3
3
1
liver
167
102
20
2
1
3
1
1
1
1
kidney
49
21
75
13
64
6
1
1
1
bone element
84
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