DIYbio:Notebook/Open Thermal Cycler
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==Project Description/Abstract== | ==Project Description/Abstract== | ||
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| + | ==Why quantitative thermal cycling?== | ||
| + | How do you go from a spit sample to - or from a crosswalk swab to a map of the bacterial populations of the world? Can $1,000 get you there? quantitative thermal cycling can be an all-in-one device capable | ||
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| + | ==Comparisons to standard thermal cycling== | ||
| + | The following is the outline of quantitative thermal cycling, its advantages over traditional thermal cycling, | ||
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| + | There are 2 general areas of thermal cycler use: | ||
| + | #(strong) Synthesis/copying of DNA | ||
| + | #(weak) Analysis of DNA | ||
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| + | Since thermal cycling itself is not an analytical tool, thermal cycling is not the final step in most processes. Gel electrophoresis, transformation into cells, and/or sequencing of the sample follow. | ||
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| + | There are 2 general areas of quantitative thermal cycler use: | ||
| + | #(strong) Synthesis/copying of DNA | ||
| + | #(strong) Quantitative and qualitative analysis of DNA/RNA sample | ||
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| + | qPCR on the other hand can be an all-in-one tool for analysis, both qualitatively and quantitatively. In addition to the functionality of a standard thermal cycler, a quantitative thermal cycler includes an imaging device to record the florescence of samples. Florescent markers added to each sample indicate the presence of a particular sequence (replacing gel electrophoresis and short sequencing) or measure gene expression (supplementing other analysis of modified cells) | ||
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| + | ==Cost of current products== | ||
| + | # Licensing -- [http://www.patentstorm.us/patents/6814934/fulltext.html florescent analysis is patented] although one key patent, [http://www.patentstorm.us/patents/6814934/fulltext.html US6814934], is under [http://www.genomeweb.com/pcrsample-prep/uspto-rejects-life-techs-thermal-cycler-patent-initial-ruling challenge] in a case before the [http://www.uspto.gov US Patent and Trademark Office]. The European equivalent to US6814934, [http://ep.espacenet.com/publicationDetails/biblio?adjacent=true&KC=A1&date=19981021&NR=0872562A1&DB=ep.espacenet.com&locale=en_GB&CC=EP&FT=D EP872562], has been confirmed by the [http://ep.espacenet.com/ European Patent Office] after [http://www.genomeweb.com/pcrsample-prep/uspto-rejects-life-techs-thermal-cycler-patent-initial-ruling-epo-upholds-europe challenges were dropped.] | ||
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| + | #Hardware -- developed in house | ||
| + | #Software -- developed in house | ||
==Details== | ==Details== | ||
| - | [[Requirements]] - what a user might want to do with an Open Thermal Cycler | + | [[DIYbio:Notebook/Open_Thermal_Cycler/Use_Cases | Use Cases ]]- experiments involving a thermal cycler |
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| + | [[DIYbio:Notebook/Open_Thermal_Cycler/Requirements | Requirements]]- what a user might want to do with an Open Thermal Cycler (i.e. get more DNA) | ||
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| + | [[DIYbio:Notebook/Open_Thermal_Cycler/Specifications | Specifications]] - what hardware, software, GUI-ideas we might use to build it (i.e. Arduino, or a checkbox interface for entering temperatures) | ||
| - | [[ | + | [[DIYbio:Notebook/Open_Thermal_Cycler/Conference Calls/2009/4/26 | 4/26/2009 Conference Call]] - Details for connecting to the conference call. |
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Project Description/Abstract
Why quantitative thermal cycling?How do you go from a spit sample to - or from a crosswalk swab to a map of the bacterial populations of the world? Can $1,000 get you there? quantitative thermal cycling can be an all-in-one device capable Comparisons to standard thermal cyclingThe following is the outline of quantitative thermal cycling, its advantages over traditional thermal cycling, There are 2 general areas of thermal cycler use:
Since thermal cycling itself is not an analytical tool, thermal cycling is not the final step in most processes. Gel electrophoresis, transformation into cells, and/or sequencing of the sample follow. There are 2 general areas of quantitative thermal cycler use:
qPCR on the other hand can be an all-in-one tool for analysis, both qualitatively and quantitatively. In addition to the functionality of a standard thermal cycler, a quantitative thermal cycler includes an imaging device to record the florescence of samples. Florescent markers added to each sample indicate the presence of a particular sequence (replacing gel electrophoresis and short sequencing) or measure gene expression (supplementing other analysis of modified cells) Cost of current products
DetailsUse Cases - experiments involving a thermal cycler Requirements- what a user might want to do with an Open Thermal Cycler (i.e. get more DNA) Specifications - what hardware, software, GUI-ideas we might use to build it (i.e. Arduino, or a checkbox interface for entering temperatures) 4/26/2009 Conference Call - Details for connecting to the conference call. | |
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