Stanford/BIOE44:Module 3:Day3: Difference between revisions
From OpenWetWare
Jump to navigationJump to search
Daniel Bui (talk | contribs) No edit summary |
|||
| (20 intermediate revisions by 5 users not shown) | |||
| Line 1: | Line 1: | ||
{{Template:Stanford/BioE44}} | {{Template:Stanford/BioE44}} | ||
<div style="padding: 5px; width: 656px; border: 2px solid #397D02;"> | |||
=Summary= | |||
Identify an environmental pollutant and design an engineered DNA part(s) that might be used to detect your chosen pollutant. Note that you will almost certainly base your DNA parts on natural sequences. | |||
=Designer DNA Parts= | |||
{| style="width:90%" border=1px | {| style="width:90%" border=1px | ||
|'''Part Name''' | |'''Part Name''' | ||
| Line 9: | Line 14: | ||
|- | |- | ||
|[[Stanford/BIOE44:Module3:Day2:atrazine | Atrazine sensor]] | |[[Stanford/BIOE44:Module3:Day2:atrazine | Atrazine sensor]] | ||
| | |To sense cyanuric acid, a product of atrazine digestion | ||
|Claire, Frank and Sanjay | |Claire, Frank and Sanjay | ||
| | |UPLOADED & CONFIRMED, ORDERED | ||
|- | |- | ||
|[[Stanford/BIOE44:Module3:Day2:nitrate | Nitrate Sensor]] | |[[Stanford/BIOE44:Module3:Day2:nitrate | Nitrate Sensor]] | ||
|To sense nitrate at concentrations up to 100 ppm | |To sense nitrate at concentrations up to 100 ppm | ||
|Scott and Travis | |Scott and Travis | ||
|UPLOADED & CONFIRMED | |UPLOADED & CONFIRMED, ORDERED | ||
|- | |- | ||
|[[Stanford/BIOE44:Module3:Day2: | |[[Stanford/BIOE44:Module3:Day2: Toluene| Toluene Sensor]] | ||
| | |To sense toluene, a major pollutant of ground water. | ||
|Alex and Sunny | |Alex and Sunny | ||
| | |UPLOADED & CONFIRMED, ORDERED | ||
|- | |- | ||
|[[Stanford/BIOE44:Module3:Day2:nitrate II | Nitrate Sensor II]] | |[[Stanford/BIOE44:Module3:Day2:nitrate II | Nitrate Sensor II]] | ||
|To detect nitrate through an aerobically functional FNR mutant gene | |To detect nitrate through an aerobically functional FNR mutant gene | ||
|Aaditya and Daniel | |Aaditya and Daniel | ||
|UPLOADED | |UPLOADED & CONFIRMED, ORDERED | ||
|- | |- | ||
|[[Stanford/BIOE44:Module3:Day2:mercury | Novel Mercury sensor]] | |[[Stanford/BIOE44:Module3:Day2:mercury | Novel Mercury sensor]] | ||
|To sense inorganic mercury Hg(II) dissolved in water | |To sense inorganic mercury Hg(II) dissolved in water | ||
|Chris and Karina | |Chris and Karina | ||
| | |UPLOADED & CONFIRMED, ORDERED | ||
|- | |- | ||
|} | |} | ||
=Tools You Found Useful= | |||
Tools You Found Useful | |||
{| style="width:90%" border=1px | {| style="width:90%" border=1px | ||
||'''Tool''' | ||'''Tool''' | ||
| Line 44: | Line 48: | ||
|Biology Workbench | |Biology Workbench | ||
|Alignment | |Alignment | ||
|[http://workbench.sdsc.edu/ click here] [http://bit.ly/aoj3B1 | |[http://workbench.sdsc.edu/ click here] | ||
|- | |||
|Nucleotide BLAST | |||
|Alignment | |||
|[http://bit.ly/aoj3B1 link] | |||
|- | |- | ||
|BCM Search Launcher: Gene Feature Searches | |BCM Search Launcher: Gene Feature Searches | ||
| Line 50: | Line 58: | ||
|http://searchlauncher.bcm.tmc.edu/seq-search/gene-search.html | |http://searchlauncher.bcm.tmc.edu/seq-search/gene-search.html | ||
|- | |- | ||
| | |[http://www.attotron.com/cybertory/analysis/seqMassager.htm Sequence Massager] | ||
|Manipulating DNA sequences | |||
| | | | ||
|- | |- | ||
| | |[http://www.molecularworkshop.com/programs/transl05.html DNA Translator] | ||
|Translate DNA to amino acid sequence | |||
| | | | ||
|- | |- | ||
| | |} | ||
Latest revision as of 14:03, 19 May 2010
Summary
Identify an environmental pollutant and design an engineered DNA part(s) that might be used to detect your chosen pollutant. Note that you will almost certainly base your DNA parts on natural sequences.
Designer DNA Parts
| Part Name | Function | Group | STATUS |
| Atrazine sensor | To sense cyanuric acid, a product of atrazine digestion | Claire, Frank and Sanjay | UPLOADED & CONFIRMED, ORDERED |
| Nitrate Sensor | To sense nitrate at concentrations up to 100 ppm | Scott and Travis | UPLOADED & CONFIRMED, ORDERED |
| Toluene Sensor | To sense toluene, a major pollutant of ground water. | Alex and Sunny | UPLOADED & CONFIRMED, ORDERED |
| Nitrate Sensor II | To detect nitrate through an aerobically functional FNR mutant gene | Aaditya and Daniel | UPLOADED & CONFIRMED, ORDERED |
| Novel Mercury sensor | To sense inorganic mercury Hg(II) dissolved in water | Chris and Karina | UPLOADED & CONFIRMED, ORDERED |
Tools You Found Useful
| Tool | Function | URL |
| Biology Workbench | Alignment | click here |
| Nucleotide BLAST | Alignment | link |
| BCM Search Launcher: Gene Feature Searches | Prokaryotic Promoter Predictions | http://searchlauncher.bcm.tmc.edu/seq-search/gene-search.html |
| Sequence Massager | Manipulating DNA sequences | |
| DNA Translator | Translate DNA to amino acid sequence |
