Team:Johns Hopkins/Protocols

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== Protocols ==
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[[Media:JHU_0708_Jaime-protocols.pdf|PCR Protocols from Jaime]]<br>
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[[Media:JHU_0708_IGEM_Ligation_and_Transformation.pdf|Ligation/Cloning and Transformation]]<br>
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[[Media:JHU_0708_Colony_Screening_PCR.pdf|Moodle Colony Screening PCR]]<br>
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[[Media:JHU_0708_Plasmid_Miniprep_Protocol.pdf|Plasmid Miniprep]] <br>
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[[Media:CMBD.pdf|Checking Minipreps to Prepare for Sequencing]] <br>
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[[Media:SSS.pdf|Sequence Sample Submission]] <br>
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[[Media:JHU_Glycerol_Stocks.pdf|Making Glycerol Stocks]]<br>
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[[Media:JHU_Moving_Insert_to_iGEM_Vector.pdf| Moving Insert to iGEM Vector]]<br>
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== Papers ==
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=== Important Papers ===
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<a href="http://www.jbioleng.org/content/2/1/5">Reshma P Shetty, Drew Endy, and Thomas F Knight Jr; <i>Engineering BioBrick vectors from BioBrick parts</i></a><br>
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[[Media:JHU_0708_paper_Aregularoryheirarchy.pdf| Herskowitz I. <i> A regulatory hierarchy for cell specialization in yeast. </i> (REVIEW.) Nature. 342:749-757 (1989)<br>]] 
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[[Media:JHU_0708_paper_MolecularMechanismofcell-typedeterminationinbuddingyeast.pdf|Johnson AD. <i> Molecular mechanisms of cell-type determination in budding yeast. </i>(REVIEW.) Current Opinion in Gen. & Dev. 5:552-558 (1995)<br>]]
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[[Media:JHU_0708_paper_The_N-end_Rule_Pathway_as_a_Nitric_Oxide_Sensor_Controlling_the_Levels_of_Multiple_Regulators.pdf| Hu R-G <I>et al.</I> <I>The N-end rule pathway as a nitric oxide sensor controlling the levels of multiple regulators.</I> Nature. 437:981-986 (2005)<br>]] 
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[[Media:JHU_0708_paper_TheN-endRule.pdf|Varshavsky A. <I>The N-end Rule pathway of protein degradation. (REVIEW.)</I> Genes to Cells. 2:13-28 (1997)<br>]]
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[[Media:JHU_0708_paper_Optimizedcassettes.pdf| Sheff MA & Thorn KS. <I>Optimized cassettes for fluorescent protein tagging in</I> Saccharomyces cerevisiae. Yeast. 21:661-670 (2004)<br>]]
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                <div id="name"><font class=ir></font></div>
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<a href="https://2008.igem.org/Team:Johns_Hopkins/Biobricks" id="Biobrick"></a>
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<a href="https://2008.igem.org/Team:Johns_Hopkins/Protocols" id="Protocols"></a>
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                <a href="https://2008.igem.org/Team:Johns_Hopkins/Research" id="Research"></a>
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                <a href="https://2008.igem.org/Team:Johns_Hopkins/Notebook" id="Notebook"></a>
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[[Media:JHU_0708_paper_Awalk.pdf| Bardwell L. <I>A walk-through of the yeast mating pheromone response pathway. (REVIEW.)</I> Peptides. 25:1465-1476 (2004)<br>]] 
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<a href="https://2008.igem.org/Team:Johns_Hopkins" id="Home"></a>
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<a href="Donations" id="Money"></a>
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=== Yeast Vector Papers ===
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[[Media:JHU_0708_paper_Development_of_a_hybrid_cloning_vector_and_isolation_of_the_can1_gene.pdf|Broach JR. <I>Transformation in yeast: development of a hybrid cloning vector and isolation of the </I>CAN1<I> gene.</I> Gene. 8(1):121-133 (1979)<br>]]
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[[Media:JHU_0708_paper_Manipulating_Yeast_Genome_Using_Plasmid_Vectors.pdf|Stearns, T. <I>Manipulating yeast genome using plasmid vectors. (REVIEW.)</I> Methods in enzymology. 185:280-297 (1990)<br>]]
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== Protocols ==
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[[Media:JHU_0708_paper_Shuttle_Vectors_with_Multiple_Unique_Restriction_Sites.pdf| Hill JE <I>et al.</I> <I>Yeast/</I>E. coli<I> Shuttle Vectors with Multiple Unique Restriction Sites.</I> Yeast. 2:163-167 (1986)<br>]]
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[[Media:JHU_0708_Plasmid_Miniprep_Protocol.pdf|Plasmid Miniprep]] <br>
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[[Media:JHU_0708_IGEM_Ligation_and_Transformation.pdf|Ligation and Transformation]]<br>
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[[Media:JHU_0708_Jaime-protocols.pdf|PCR Protocols from Jaime]]
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== Important reminders and notes ==
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[[Media:JHU_0708_paper_System_of_Shuttle_Vectors_and_Yeast_Host_Strains_Designed_for_Efficient.pdf|Sikorski RS. <I>A System of Shuttle Vectors and Yeast Host Strains Designed for Efficient Manipulation of DNA in </I>Saccharomyces cerevisiae. Genetics. 122:19-27 (1989)<br>]]
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  [Please make general comments here, so they don't get lost in peoples e-mail boxes] <p>
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  July-11-2008: There is a meeting at 7.30pm in the Build-a-genome Lab on how to do Minipreps
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  July-11-2008: Primers for group 1 were delivered yesterday
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== Papers ==
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[[Media:JHU_0708_paper_Yeast_vectors_for_the_controlled_expression_of_heterologous_proteins.pdf| Mumberg D <I>et al. Yeast vectors for the controlled expression of heterologous proteins in different genetic backgrounds.</I> Gene. 156:119-122 (1995)<br>]]
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=== Other ===
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[[Media:JHU_0708_paper_TransfofYeast.pdf|JHU_0708_paper_TransfofYeast.pdf]]<br>
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[[Media:JHU_0708_paper_Three-prongedgenomicanalysis.pdf|JHU_0708_paper_Three-prongedgenomicanalysis.pdf]]<br>
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[[Media:JHU_0708_paper_SCPD_a_promoter_database_of_the_yeast.pdf|JHU_0708_paper_SCPD_a_promoter_database_of_the_yeast.pdf]]<br>
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[[Media:JHU_0708_paper_Human_Left-Handed_Z-DNA_-_Schwartz_-_Science.pdf|JHU_0708_paper_Human_Left-Handed_Z-DNA_-_Schwartz_-_Science.pdf]]<br>
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[[Media:JHU_0708_paper_GlobalTranscriptionRegulators.pdf|JHU_0708_paper_GlobalTranscriptionRegulators.pdf]]<br>
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[[Media:JHU_0708_paper_ForeignGeneExpression.pdf|JHU_0708_paper_ForeignGeneExpression.pdf]]<br>
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[[Media:JHU_0708_paper_DNAbendingnegativeregulatoryproteins.pdf|JHU_0708_paper_DNAbendingnegativeregulatoryproteins.pdf]]<br>
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[[Media:JHU_0708_paper_BentDNA.pdf|JHU_0708_paper_BentDNA.pdf]]<br>
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[[Media:JHU_0708_paper_Aregularoryheirarchy.pdf|JHU_0708_paper_Aregularoryheirarchy.pdf]]<br>
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Latest revision as of 22:59, 27 October 2008

Contents

Protocols

PCR Protocols from Jaime
Ligation/Cloning and Transformation
Moodle Colony Screening PCR
Plasmid Miniprep
Checking Minipreps to Prepare for Sequencing
Sequence Sample Submission
Making Glycerol Stocks
Moving Insert to iGEM Vector

Papers

Important Papers

Reshma P Shetty, Drew Endy, and Thomas F Knight Jr; Engineering BioBrick vectors from BioBrick parts

Herskowitz I. A regulatory hierarchy for cell specialization in yeast. (REVIEW.) Nature. 342:749-757 (1989)

Johnson AD. Molecular mechanisms of cell-type determination in budding yeast. (REVIEW.) Current Opinion in Gen. & Dev. 5:552-558 (1995)

Hu R-G et al. The N-end rule pathway as a nitric oxide sensor controlling the levels of multiple regulators. Nature. 437:981-986 (2005)

Varshavsky A. The N-end Rule pathway of protein degradation. (REVIEW.) Genes to Cells. 2:13-28 (1997)

Sheff MA & Thorn KS. Optimized cassettes for fluorescent protein tagging in Saccharomyces cerevisiae. Yeast. 21:661-670 (2004)

Bardwell L. A walk-through of the yeast mating pheromone response pathway. (REVIEW.) Peptides. 25:1465-1476 (2004)

Yeast Vector Papers

Broach JR. Transformation in yeast: development of a hybrid cloning vector and isolation of the CAN1 gene. Gene. 8(1):121-133 (1979)

Stearns, T. Manipulating yeast genome using plasmid vectors. (REVIEW.) Methods in enzymology. 185:280-297 (1990)

Hill JE et al. Yeast/E. coli Shuttle Vectors with Multiple Unique Restriction Sites. Yeast. 2:163-167 (1986)

Sikorski RS. A System of Shuttle Vectors and Yeast Host Strains Designed for Efficient Manipulation of DNA in Saccharomyces cerevisiae. Genetics. 122:19-27 (1989)

Mumberg D et al. Yeast vectors for the controlled expression of heterologous proteins in different genetic backgrounds. Gene. 156:119-122 (1995)

Other

JHU_0708_paper_TransfofYeast.pdf
JHU_0708_paper_Three-prongedgenomicanalysis.pdf
JHU_0708_paper_SCPD_a_promoter_database_of_the_yeast.pdf
JHU_0708_paper_Human_Left-Handed_Z-DNA_-_Schwartz_-_Science.pdf
JHU_0708_paper_GlobalTranscriptionRegulators.pdf
JHU_0708_paper_ForeignGeneExpression.pdf
JHU_0708_paper_DNAbendingnegativeregulatoryproteins.pdf
JHU_0708_paper_BentDNA.pdf
JHU_0708_paper_Aregularoryheirarchy.pdf

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