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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1014
total RNA-seq
534
ChIP-seq
256
ATAC-seq
180
single cell RNA-seq
151
DNase-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
23
pCHi-C
16
Hi-C
12
small RNA-seq
10
RRBS
3
FAIRE-seq
3
snDrop-seq
2
MeRIP-seq
Assay category
1206
Transcription
534
DNA binding
438
DNA accessibility
37
DNA methylation
16
3D chromatin structure
Target of assay
443
histone modification
442
histone
233
broad histone mark
209
narrow histone mark
control
94
transcription factor
28
RNA binding protein
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
255
August, 2017
229
August, 2021
170
May, 2020
138
June, 2019
135
October, 2019
120
July, 2018
94
February, 2023
68
May, 2019
66
April, 2019
66
July, 2019
66
May, 2022
47
September, 2023
45
October, 2018
40
May, 2021
40
May, 2024
40
November, 2019
38
March, 2020
36
December, 2017
19
April, 2020
18
November, 2018
15
May, 2023
13
February, 2020
8
January, 2021
7
October, 2017
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
1567
bigWig
1535
bam
1053
tsv
789
bed narrowPeak
442
bigBed narrowPeak
297
fastq
177
bed broadPeak
175
bed bed3+
157
txt
149
bigBed broadPeak
87
tagAlign
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
4
bed bed3
1
bedpe
Organism
2338
Homo sapiens
Biosample type
2346
tissue
1038
primary cell
577
cell line
357
in vitro differentiated cells
9
stem cell
Organ
523
connective tissue
476
pancreas
464
adipose tissue
315
liver
297
heart
293
kidney
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
16
skeleton
15
epithelium
14
spleen
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2249
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1650
GRCh38
1606
hg19
Lab
1996
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
2
Mark McCarthy, Oxford
2
Rohit N. Kulkarni, M.D., Ph.D.
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
88
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
brain
lymph node
target.investigated_as!
control
other context
BIOSAMPLE
ASSAY
2346 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
Hi-C
small RNA-seq
RRBS
FAIRE-seq
snDrop-seq
MeRIP-seq
tissue
islet of Langerhans
292
57
67
6
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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