User:Saroj Pandey/Notebook/SNP PCR optimization/2014/09/20: Difference between revisions
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|style="background-color: #EEE"|[[Image:owwnotebook_icon.png|128px]]<span style="font-size:22px;"> Project name</span> | |style="background-color: #EEE"|[[Image:owwnotebook_icon.png|128px]]<span style="font-size:22px;"> Project name</span> | ||
|style="background-color: #F2F2F2" align="center"| | |style="background-color: #F2F2F2" align="center"|[[File:Report.png|frameless|link={{#sub:{{FULLPAGENAME}}|0|-11}}]][[{{#sub:{{FULLPAGENAME}}|0|-11}}|Main project page]]<br />{{#if:{{#lnpreventry:{{FULLPAGENAME}}}}|[[File:Resultset_previous.png|frameless|link={{#lnpreventry:{{FULLPAGENAME}}}}]][[{{#lnpreventry:{{FULLPAGENAME}}}}{{!}}Previous entry]] }}{{#if:{{#lnnextentry:{{FULLPAGENAME}}}}|[[{{#lnnextentry:{{FULLPAGENAME}}}}{{!}}Next entry]][[File:Resultset_next.png|frameless|link={{#lnnextentry:{{FULLPAGENAME}}}}]]}} | ||
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== | ==Gradient PCR (SNP)== | ||
• As the selected primers were not able to differentiate two different DNA templates, another approach was carried out to conduct the PCR in a range of different annealing temperatures | |||
• Gradient PCR was done with annealing temperature ranging from 56 °C to 70 °C | |||
[[Image:gradient_PCR.JPG]] | |||
[[Image:GradientPCRtaster_18.09.jpg|right|thumb|350px|Electrophoresis]] | |||
[[Image:GradientPCRnontaster_19.09.jpg|right|thumb|350px|Electrophoresis]] | |||
Observations: | |||
• With G (ff) primers, products were seen at expected band length (161 bp) at all temperatures with the most prominent at 57 °C and faint bands above 68 °C. Unspecific products just below 400 bp were seen in 4 samples at lower temperatures. | |||
• With G (fb) primers, expected product size (235 bp) was observed in 6 out of 8 samples. Brightest band was seen at 57 °C which became fainter with increasing temperature and no bands were seen above 68 °C. No unspecific products were seen. | |||
• Unspecific products were much less (only one or none) as compared to previous experiment | |||
Conclusion: | |||
• For the set of primers used here, 57 °C seems to be the optimal annealing temperature | |||
• The primers are unable to differentiate between two templates | |||
Latest revision as of 00:19, 27 September 2017
Project name | Main project page Previous entry Next entry |
Gradient PCR (SNP)• As the selected primers were not able to differentiate two different DNA templates, another approach was carried out to conduct the PCR in a range of different annealing temperatures • Gradient PCR was done with annealing temperature ranging from 56 °C to 70 °C
• With G (ff) primers, products were seen at expected band length (161 bp) at all temperatures with the most prominent at 57 °C and faint bands above 68 °C. Unspecific products just below 400 bp were seen in 4 samples at lower temperatures. • With G (fb) primers, expected product size (235 bp) was observed in 6 out of 8 samples. Brightest band was seen at 57 °C which became fainter with increasing temperature and no bands were seen above 68 °C. No unspecific products were seen. • Unspecific products were much less (only one or none) as compared to previous experiment
• For the set of primers used here, 57 °C seems to be the optimal annealing temperature • The primers are unable to differentiate between two templates
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