scholarly journals The PCR Simulator: an on-line application for teaching Design of Experiments and the polymerase chain reaction

2018 ◽  
Author(s):  
Harold Fellermann ◽  
Ben Shirt-Ediss ◽  
Jerzy W. Koryza ◽  
Matthew Linsley ◽  
Dennis W. Lendrem ◽  
...  
Keyword(s):  
Polymerase Chain Reaction ◽  
Experimental Design ◽  
Data Generation ◽  
Teaching Session ◽  
Design Strategies ◽  
Factorial Experimental Design ◽  
Chain Reaction ◽  
Web Based ◽  
On Line ◽  
Polymerase Chain

Our PCR Simulator is a web-based application designed to introduce concepts of multi-factorial experimental design and support teaching of the polymerase chain reaction. Learners select experimental settings and receive results of their simulated reactions quickly, allowing rapid iteration between data generation and analysis. This enables the student to perform complex iterative experimental design strategies within a short teaching session. Here we provide a short overview of the user interface and underpinning model, and describe our experience using this tool in a teaching environment.

Incidence of Listeria spp. and Listeria monocytogenes in Ready-To-Eat Chicken and Turkey Products Determined by Polymerase Chain Reaction and Line Probe Assay Hybridization

1997 ◽  
Vol 60 (5) ◽  
pp. 548-550 ◽  
Author(s):  
NANCY P. RIJPENS ◽  
GEERT JANNES ◽  
LIEVE M. F. HERMAN
Keyword(s):  
Polymerase Chain Reaction ◽  
Listeria Monocytogenes ◽  
Line Probe Assay ◽  
Chain Reaction ◽  
Poultry Products ◽  
Reverse Hybridization ◽  
On Line ◽  
Selective Plating ◽  
Polymerase Chain ◽  
Probe Assay

The prevelance of Listeria spp. and Listeria monocytogenes in ready-to-eat poultry products was examined. Following 16 or 48 h of enrichment and selective plating, presumptive Listeria colonies were identified using polymerase chain reaction and reverse hybridization on line probe assay strips. Overall, Listeria spp. and Listeria monocytogenes were found in 35.5% and 15.5% of the poultry samples, respectively. The incidence of Listeria spp. was much higher in unpackaged (41.7%) than in prepackaged (11.1%) poultry products.

On-line polymerase chain reaction (PCR) monitoring

1998 ◽  
Vol 37 (3) ◽  
pp. 99-104 ◽  
Author(s):  
Tobias Ederhof ◽  
Nils G Walter ◽  
Andreas Schober
Keyword(s):  
Polymerase Chain Reaction ◽  
Chain Reaction ◽  
On Line ◽  
Polymerase Chain

High performance Nanogold™-in situ hybridzation and its use in the detection of hybridized and PCR-amplified microscopical preparations

1996 ◽  
Vol 54 ◽  
pp. 896-897
Author(s):  
G. W. Hacker ◽  
I. Zehbe ◽  
J. Hainfeld ◽  
A.-H. Graf ◽  
C. Hauser-Kronberger ◽  
...  
Keyword(s):  
Polymerase Chain Reaction ◽  
Messenger Rna ◽  
High Performance ◽  
Detection System ◽  
Direct Methods ◽  
Genetic Alterations ◽  
Chain Reaction ◽  
Protein Encoding ◽  
Polymerase Chain

In situ hybridization (ISH) with biotin-labeled probes is increasingly used in histology, histopathology and molecular biology, to detect genetic nucleic acid sequences of interest, such as viruses, genetic alterations and peptide-/protein-encoding messenger RNA (mRNA). In situ polymerase chain reaction (PCR) (PCR in situ hybridization = PISH) and the new in situ self-sustained sequence replication-based amplification (3SR) method even allow the detection of single copies of DNA or RNA in cytological and histological material. However, there is a number of considerable problems with the in situ PCR methods available today: False positives due to mis-priming of DNA breakdown products contained in several types of cells causing non-specific incorporation of label in direct methods, and re-diffusion artefacts of amplicons into previously negative cells have been observed. To avoid these problems, super-sensitive ISH procedures can be used, and it is well known that the sensitivity and outcome of these methods partially depend on the detection system used.

1504: Molecular Diagnosis and Staging of Prostate Cancer Using Clusterin in Real Time Reverse Transcription Polymerase Chain Reaction (RT-PCR)

2006 ◽  
Vol 175 (4S) ◽  
pp. 485-486
Author(s):  
Sabarinath B. Nair ◽  
Christodoulos Pipinikas ◽  
Roger Kirby ◽  
Nick Carter ◽  
Christiane Fenske
Keyword(s):  
Prostate Cancer ◽  
Polymerase Chain Reaction ◽  
Real Time ◽  
Molecular Diagnosis ◽  
Reverse Transcription ◽  
Rt Pcr ◽  
Chain Reaction ◽  
Polymerase Chain

Detection of the Glanzmann's Thrombasthenia Mutations in Arab and Iraqi-Jewish Patients by Polymerase Chain Reaction and Restriction Analysis of Blood or Urine Samples

1991 ◽  
Vol 66 (04) ◽  
pp. 500-504 ◽  
Author(s):  
H Peretz ◽  
U Seligsohn ◽  
E Zwang ◽  
B S Coller ◽  
P J Newman
Keyword(s):  
Polymerase Chain Reaction ◽  
Base Pair ◽  
Restriction Analysis ◽  
Urine Samples ◽  
Chain Reaction ◽  
Base Pairs ◽  
Glanzmann’S Thrombasthenia ◽  
Glanzmann's Thrombasthenia ◽  
Base Pair Deletion ◽  
Polymerase Chain

SummarySevere Glanzmann's thrombasthenia is relatively frequent in Iraqi-Jews and Arabs residing in Israel. We have recently described the mutations responsible for the disease in Iraqi-Jews – an 11 base pair deletion in exon 12 of the glycoprotein IIIa gene, and in Arabs – a 13 base pair deletion at the AG acceptor splice site of exon 4 on the glycoprotein IIb gene. In this communication we show that the Iraqi-Jewish mutation can be identified directly by polymerase chain reaction and gel electrophoresis. With specially designed oligonucleotide primers encompassing the mutation site, an 80 base pair segment amplified in healthy controls was clearly distinguished from the 69 base pair segment produced in patients. Patients from 11 unrelated Iraqi-Jewish families had the same mutation. The Arab mutation was identified by first amplifying a DNA segment consisting of 312 base pairs in controls and of 299 base pairs in patients, and then digestion by a restriction enzyme Stu-1, which recognizes a site that is absent in the mutant gene. In controls the 312 bp segment was digested into 235 and 77 bp fragments, while in patients there was no change in the size of the amplified 299 bp segment. The mutation was found in patients from 3 out of 5 unrelated Arab families. Both Iraqi-Jewish and Arab mutations were detectable in DNA extracted from blood and urine samples. The described simple methods of identifying the mutations should be useful for detection of the numerous potential carriers among the affected kindreds and for prenatal diagnosis using DNA extracted from chorionic villi samples.

Sign in / Sign up

Export Citation Format

Share Document