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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
633
ChIP-seq
252
ATAC-seq
174
single cell RNA-seq
142
DNase-seq
87
RNA microarray
28
snATAC-seq
26
WGBS
25
pCHi-C
16
small RNA-seq
12
Hi-C
11
RRBS
4
FAIRE-seq
3
snDrop-seq
2
MeRIP-seq
Assay category
1220
Transcription
633
DNA binding
426
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
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
539
February, 2021
255
August, 2017
229
August, 2021
170
May, 2020
162
October, 2019
131
June, 2019
120
July, 2018
95
February, 2023
87
May, 2019
72
July, 2019
70
November, 2017
66
April, 2019
66
May, 2022
47
September, 2023
45
October, 2018
40
March, 2020
40
May, 2021
40
November, 2019
36
December, 2017
23
November, 2018
22
February, 2020
20
October, 2017
19
April, 2020
15
May, 2023
8
January, 2021
6
April, 2018
6
January, 2019
5
March, 2019
3
December, 2018
3
December, 2019
2
January, 2018
2
November, 2020
1
August, 2022
Available data
1643
bam
1641
bigWig
1069
tsv
852
bed narrowPeak
477
bigBed narrowPeak
310
fastq
186
tagAlign
177
bed broadPeak
166
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
2437
Homo sapiens
Biosample type
2445
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
limb
78
musculature of body
66
artery
56
eye
32
nerve
20
lung
18
ureter
17
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
2348
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1720
GRCh38
1656
hg19
Lab
2135
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:
90
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!
limb
target.investigated_as!
control
BIOSAMPLE
ASSAY
2445 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
snDrop-seq
MeRIP-seq
tissue
islet of Langerhans
298
57
68
1
7
4
3
1
1
2
adipose tissue
382
1
3
3
1
liver
167
102
20
1
2
3
1
1
1
1
kidney
49
21
75
64
13
6
1
1
1
bone element
84
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