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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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BIGenomics HPV zipcode array multiplex PCR tests 2

ABSTRACT: 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.

ORGANISM(S): Human papillomavirus

SUBMITTER: Jarmo Ritari

PROVIDER: E-MEXP-3268 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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BIGenomics HPV zipcode array multiplex PCR tests

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.

2011-05-01 | E-MEXP-3154 | biostudies-arrayexpress

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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).

2011-06-01 | E-MEXP-3152 | biostudies-arrayexpress

BIGenomics_hpv_dilution_series

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>

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Genomic hybridization of Methanobacteria to identify the diversity in strains on manure and olive mill waste.

Project description:Population dynamics of methanogenic genera was investigated in pilot anaerobic digesters. Cattle manure and two-phase olive mill wastes were codigested at a 3:1 ratio in two reactors operated at 37 ï¾°C and 55 ï¾°C. Other two reactors were run with either residue at 37 ï¾°C. Sludge DNA extracted from samples taken from all four reactors on days 4, 14 and 28 of digestion was used for hybridisation with the AnaeroChip, an oligonucleotide microarray targeting those groups of methanogenic archaea that are commonly found under mesophilic and thermophilic conditions (Franke-Whittle et al. 2009, in press, doi:10.1016/j.mimet.2009.09.017).

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BIGenomics_bioreactor_samples

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