Project description:Comparison of two different multiplex PCR primer pools in amplifying target HPV types from plasmid templates. Template concentrations are either 1 ng or 1 pg. Templates are detected by type-spcific LDR probes hybridized on microarray.
Project description:Comparison of two different multiplex PCR primer pools in amplifying target HPV types from plasmid templates. Template concentrations are either 10 pg or 100 pg. Templates are detected by type-spcific LDR probes hybridized on microarray.
Project description:Hybridization of HPV genotype recognizing ligation probes to a zipcode (tag) microarray. The purpose of the experiment is to establish functionality and target specificity of the ligation probes by using a single template at a time with all of the probes. HPV plasmid DNA PCR products are used as templates for ligation probes. Each plasmid contains the full genome of a given HPV type. One type of plasmid is used per experiment to test the signals of all of the probes agains that template. 19 different plasmids are tested this way (i.e. 19 samples in the experiment).
Project description:A dilution series experiment to determine the sensitivity of a microarray method for human papillomavirus genotyping. HPV genotyping is based on multiplex PCR (PGMY-t primers) followed by ligation step where two probes are ligated together if a matching template is present in the mixture. The ligated probes are then detected on microarray. Plasmids containing the full genome of HPV 16 or 18 were used in the experiment. The concentrations were 1000, 100, 10 ,1, 0.1 and 0 femtograms of plasmid as a template in HPV PCR reaction.<br><br>
Project description:Hybridization of ligation probes to a zipcode (tag) microarray. The purpose of the experiment was to establish functionality and target specificity of the ligation probes by using pools of synthetic templates with all of the probes. The templates are 80-mer synthetic dsDNA molecules, each specific for a single probe. Each probe is a ssDNA molecule containing target recognition sequences, PCR primer binding sequences and a unique tag sequence. If a matching target sequence is present in the mixture, the probes is ligated into a circular molecule, which can be PCR amplified and hybrized on a microarray harbouring complementary tag sequences.
Project description:Ligation probe pool was tested with different concentrations of synthetic dsDNA template molecules to determine analytical sensitivity of the method. Probes are ligated into circular molecules if their target sequence is present in the reaction. Ligated probes are then PCR amplified and the PCR products are hybridized to a microarray by tag sequences.
Project description:The aim of the study was to use microarray for profiling the microbiota in anaerobic digestion process. The probes are ssDNA molecules that are ligated into circular molecules if a complementary target sequence is present in the sample DNA. Ligated probes are PCR amplified with a labeled primer, and the amplicons are hybridized on DNA microarray by tag sequences.
Project description:Human papillomavirus infection is the cause of essentially all cases of cervical premalignant lesions and cervical cancer. Primary screening using HPV DNA testing with cytology triage has been shown to be more sensitive and, importantly, more specific than conventional testing based on cytology among women more than 35 years of age. <br><br><br><br>The aim of the experiment was to evaluate a HPV genotyping microarray method using patient sample DNA. HPV genotyping is based on multiplex PCR (PGMY-t primers) followed by ligation step where two probes are ligated together if a matching template is present in the mixture. The ligated probes are then detected on microarray.
Project description:Populus deltoides and Populus trichocarpa were exposed to either ambient air or an acute ozone exposure of 200 ppb for 9 hrs and ozone response was profiled for each genotype by hybridising control against ozone-exposed samples per genotype. Keywords: stress response, genotype comparrison, ozone exposure RNA was extracted from the fifth leaf below the first fully unfurled leaf for each plant. Control and ozone-exposed plants were then randomly paired for hybridisation.