IGEM:University of Chicago/2009/Brainstorming

=Brainstorming!=

Bacteriorhodopsin

 * Papers for Brandon and Ahad's project proposal
 * 1) [[media:Energetics_of_peptide_Insertion.pdf‎| Energetics of peptide insertion]]
 * 2) [[media:Toxins Application.pdf|Toxins Application]]
 * 3) [[media:Translocation of pHLIP.pdf| Translocation of pHLIP]]
 * 4) [[media:Tumor Targetting.pdf|Tumor Targeting]]

=Degradation of organophosphates=
 * 1) Proposal for organophosphate project--pending updates

Organophosphate hydrolase

 * 1) [[media:Mulbry opdGene.pdf| Mulbry, Identification of OPD gene]]
 * 2) [[media:OrganophosphateHydrolase_Grimsley_etal.pdf|Grimsley et al, Organophosphate Hydrolase]]
 * 3) [[media:Richins_BiodegradationSurfaceOPH.pdf|Richens, et al, Surface-expressed organophosphate hydrolase in E. coli]]

PNP Degradation

 * 1) [[media:Spain_NitroBiodegradationReview.pdf|Spain, Review of biodegradation of Nitro-compounds]]
 * 2) [[media:Perry CloningofPNPGeneCluster.pdf|Perry et al, PNP gene cluster in Arthrobacter]]
 * 3) [[media:Mattozzi_MineralizationUtilizationParaoxon.pdf| Mattozzi, et al, Mineralization and Utilization of Paraoxon in a designed catabolic pathway]]
 * 4) [[media:Keasling_PNPSlideshow.pdf‎| PNP operon presentation]] By Professor J. Keasling, Berkeley
 * 5) [[media:Walker_ParathionCarbonSource.pdf| Walker, et al, Utiliztion of Parathion as a carbon source]]

Surface display

 * 1) [[media:Takayama YeastSurfaceDisplayOPH.pdf|Takayama et al, Surface display of OPH]]
 * 2) [[media:Wu_SurfaceDisplay.pdf| Wu, et al, Microbial surface display for bioremediation]]
 * 3) [[media:Richins_BiodegradationSurfaceOPH.pdf|Richens, et al, Surface-expressed organophosphate hydrolase in E. coli]]

Biosensor

 * 1) [[media:Schofield_YeastOPBiosensor.pdf|Schofield et al, Yeast OPH promoters.]]
 * 2) [[media:SchofieldSupplement.pdf|Supplemental file, Schofield et al]]

PCR-mediated gene disruption/modification in yeast

 * 1) [[media:Yeast_1998_Longtine_copy.pdf|Longtine et al, Yeast (1998)]]
 * 2) [[media:Wach_97.pdf|Wach et al, Yeast (1997)]]

Surface display systems in yeast

 * 1) [[media:Yeast_surface_display.pdf|Colby et al, Methods in Enzymology (2004)]]
 * 2) [[media:Yeast_surface_display_2.pdf|Boder et al, Methods in Enzymology (2000)]]
 * 3) [[media:Nprot.2006.94.pdf|Chao et al, Nature Protocol (2006)]]
 * 4) [[media:Nprot.2006.94-S1.pdf|Chao et al, supplement 1]]
 * 5) [[media:Nprot.2006.94-S3.pdf|Chao et al, supplement 3]]

Yeast Vector Info

 * 1) [[media:PRS4series.pdf|2µm vectors (pRS420 series)]]
 * 2) [[media:Sikorski_(1989).pdf|CEN/Integration vectors (pRS300 series)]]

=Protocols=
 * 1) [[media:LiAc_transformation.doc|LiAc Transformation of Yeast]]
 * 2) [[media:Bacterial_transformation.doc|Transformation of bacteria]]
 * 3) [[media:Kan_plates.doc‎|Kan plates for yeast]]
 * 4) [[media:Freezing_down_yeast-bugs.doc|Freezing down yeast/bacteria]]
 * 5) [[media:Kushnirov.pdf‎|Kushnirov(2000):yeast protein extraction protocol]]
 * 6) [[media:Yeast_protein_extract.pdf‎‎|protein extraction protocol from Methods in Yeast Genetics]]
 * 7) [[media:Genomic_DNA_prep.pdf‎‎|Yeast genomic DNA prep]]