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EpiDesigner specifications

Information


Unique identifier OMICS_28361
Name EpiDesigner
Interface Web user interface
Restrictions to use None
Input data A protein sequence.
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline EpiDesigner Team

Additional information


https://www.epidesigner.com/tutorial.html

EpiDesigner citations

 (161)
library_books

Role of epigenetic factors in the selection of the alternative splicing isoforms of human KRAS in colorectal cancer cell lines

2018
Oncotarget
PMCID: 5945503
PMID: 29755673
DOI: 10.18632/oncotarget.25016

[…] For quantitative methylation analysis an AGENA’s MassARRAY platform was used. PCR primers for the amplification of the different regions of the KRAS locus downstream of exon 4A were designed by using Epidesigner (AGENA) and their sequences and location were given, respectively, in and Figure .The PCRs were carried out in a 5 μl format with 10 ng/μl bisulfite-treated DNA, 0.2 units of TaqDNA polym […]

library_books

A Low Glycaemic Index Diet in Pregnancy Induces DNA Methylation Variation in Blood of Newborns: Results from the ROLO Randomised Controlled Trial

2018
PMCID: 5946240
PMID: 29642382
DOI: 10.3390/nu10040455

[…] lism. Each locus-specific assay covered one HM850 CpG probe site () and assays were designed using DNA sequences extracted from the University of California Santa Cruz UCSC Genome Browser (hg 19) and EpiDesigner (epidesigner.com).Replication was carried out in a further subset of 60 sex- and group-matched neonatal cord blood serum samples from the ROLO study, making a total sample size of 120 for […]

library_books

Antidepressant Like Effects of Acupuncture Insights From DNA Methylation and Histone Modifications of Brain Derived Neurotrophic Factor

2018
PMCID: 5880910
PMID: 29636708
DOI: 10.3389/fpsyt.2018.00102

[…] s a template for methylation-specific real-time PCR. The operating steps of quantitative real-time PCR were conducted according to instructions of the manufacturer. Primers were designed based on the EpiDesigner software system (see Figure ). The primers were used to detect methylated gene of the BDNF promoter I at relative CpG sites. β-actin gene was used as a reference control. The relative BDNF […]

library_books

Placental surface area mediates the association between FGFR2 methylation in placenta and full term low birth weight in girls

2018
Clin Epigenetics
PMCID: 5863829
PMID: 29588807
DOI: 10.1186/s13148-018-0472-5

[…] ons of this region were generated by polymerase chain reaction using the sodium bisulphite-converted DNAs (Zymo Research, Orange, CA) as the templates. The primers for this region were designed using Epidesigner. The forward and backward primers were aggaagagagTATTGGGGTTTAGATTTTAGGAAGG and cagtaatacgactcactatagggagaaggctCAAAATACAAAAAAATTTTCTACCTCT. DNA methylation level was quantified by Honor Tec […]

library_books

nc886 is induced by TGF β and suppresses the microRNA pathway in ovarian cancer

2018
Nat Commun
PMCID: 5862949
PMID: 29563500
DOI: 10.1038/s41467-018-03556-7

[…] EpiTPYER assays, 2 µg of genomic DNA was bisulfite treated using an EpiTect Plus Bisulfite Kit according to the manufacturer’s instruction (Qiagen, Leipzig, Germany). PCR primers were designed using EpiDesigner (Sequenom, http://www.epidesigner.com). PCR condition for EpiTPYER was: 15 min at 94 °C (for initial denaturation); 45 cycles of 94 °C for 20 s, 56–62 °C for 30 s, 72 °C for 60 s (for ampl […]

library_books

Evaluation of Promoter Methylation of RASSF1A and ATM in Peripheral Blood of Breast Cancer Patients and Healthy Control Individuals

2018
Int J Mol Sci
PMCID: 5877761
PMID: 29562656
DOI: 10.3390/ijms19030900

[…] The PCR primers for RASSF1A and ATM amplicon sequences (see and ) were designed with the online tool “epidesigner” (http://www.epidesigner.com/start3.html). PCR was performed in a final reaction volume of 6 µL which included bisulfite-treated DNA (10 ng/µL), CoralLoad Buffer (10×; Qiagen, Valencia, CA […]

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