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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1024
total RNA-seq
585
ChIP-seq
247
ATAC-seq
180
single cell RNA-seq
158
DNase-seq
86
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1220
Transcription
585
DNA binding
437
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
604
histone modification
603
histone
316
narrow histone mark
broad histone mark
176
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
229
August, 2021
211
August, 2017
193
May, 2020
177
October, 2019
145
June, 2019
120
July, 2018
81
February, 2023
77
July, 2019
66
May, 2022
59
May, 2019
55
October, 2018
47
September, 2023
45
December, 2017
43
April, 2019
40
March, 2020
40
May, 2021
40
November, 2017
40
November, 2019
26
November, 2018
24
February, 2020
20
May, 2024
19
April, 2020
15
May, 2023
13
October, 2017
8
January, 2021
7
December, 2018
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
January, 2019
2
December, 2019
2
January, 2018
1
August, 2022
Available data
1641
bam
1486
bigWig
1068
tsv
690
bed narrowPeak
332
fastq
329
bigBed narrowPeak
179
bed bed3+
173
bed broadPeak
162
tagAlign
157
txt
156
bigBed broadPeak
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2409
Homo sapiens
Biosample type
2414
tissue
591
primary cell
570
cell line
321
in vitro differentiated cells
9
stem cell
Organ
527
connective tissue
468
adipose tissue
464
pancreas
336
liver
289
kidney
256
heart
195
brain
158
bone element
97
blood vessel
97
vasculature
88
limb
66
musculature of body
59
artery
56
eye
nerve
21
spleen
20
lung
ureter
16
skeleton
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
2317
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1584
GRCh38
1512
hg19
Lab
2082
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
20
Patrick T. Ellinor, Broad
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:
91
inconsistent ontology term
27
inconsistent control
8
audit script error
Audit category:
22
missing controlled_by
Audit category:
3
inconsistent control read length
organ_slims!
epithelium
nerve
ureter
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
2414 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
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
57
68
6
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
123
20
1
2
3
1
1
1
1
kidney
49
17
75
64
13
6
1
1
1
bone element
84
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