Welcome to 20 109 Laboratory Fundamentals of Biological Engineering Orientation Lecture Fall 2007 20 109 Laboratory Fundamentals of Biological Engineering Course Mission To prepare students to be the future of Biological Engineering To teach cutting edge research skill and technology through an authentic research experience To inspire rigorous data analysis and its thoughtful communication Module 1 Module 2 Genome Engineering Expression Engineering Module 3 Biomaterials Engineering Cite as Angela Belcher Drew Endy Natalie Kuldell and Agi Stachowiak Course materials for 20 109 Laboratory Fundamentals in Biological Engineering Fall 2007 MIT OpenCourseWare http ocw mit edu 1 Massachusetts Institute of Technology Downloaded on DD Month YYYY Genome Engineering M13 redesign Courtesy of Elsevier Inc http www sciencedirect com Used with permssion Source Specthrie L et al Construction of a Microphage Variant of Filamentous Bacteriophage J Mol Biol 228 no 3 December 5 1992 720 4 Lab skills Experiments Modify existing genome to tag one coat protein Refactor genome order its synthesis and test Compare infection of minimal and robust E coli genome DNA manipulations digests transformation electrophoresis Western analysis Cell phage culture Expression Engineering siRNA Left Firefly photo courtesy of Eloise Mason Used with permission Center Plasmid map courtesy of Promega Corporation Used with permission Right Sea pansy Renilla reniformis courtesy of NOAA Used with permission Experiments Silence expression of a gene using Lab skills Genetic and physical manipulations RNAi siRNA design transfection RNA and protein measurements Assess intended and unintended consequences of mouse ES cells Luciferase measurements siRNA design Microarray analysis Biomaterial Engineering phage nanowires Experiments Build prototype electrochromic device Grow iridium nanowires on phage surface Pattern indium tin oxide slide Electrodeposit phage nanowires Overlay solid polymer electrolytes Lab skills Phage material production TEM Fabrication of bio based device Design and variation of experimental conditions Cite as Angela Belcher Drew Endy Natalie Kuldell and Agi Stachowiak Course materials for 20 109 Laboratory Fundamentals in Biological Engineering Fall 2007 MIT OpenCourseWare http ocw mit edu Massachusetts Institute of Technology Downloaded on DD Month YYYY 2 State of the Art Laboratory Classroom Space for 12 students Demonstration Area 20 Computer Drops Gas Vacuum Air Water Modern Equipment Cell and Tissue Culture Facility HEPA Filtered Air 3 Sterile Hoods 6 incubators 2 inverted microscopes Modern Culture Equipment Support Room Autoclave Dishwasher Ice Machine CO2 Source Vacuum Source Cite as Angela Belcher Drew Endy Natalie Kuldell and Agi Stachowiak Course materials for 20 109 Laboratory Fundamentals in Biological Engineering Fall 2007 MIT OpenCourseWare http ocw mit edu Massachusetts Institute of Technology Downloaded on DD Month YYYY 3 Course Details Lecture Tuesdays and Thursdays 11 12 Lab Tuesdays and Thursdays 1 5 Wednesdays and Fridays 1 5 There are no make up labs Work must be turned in on time lab reports homework at beginning of lab lab notebook pages at end of lab You will perform experiments in pairs Assignments can be worked on together but submitted individually Grading 50 Written Work Modules 1 and 2 30 Oral Presentations Modules 1 or 2 and 3 10 Homework Assignments 5 Daily Lab Quizzes 5 Lab Notebooks Foundations Skills Basic Laboratory Skills following and designing protocols rst hand experience with equipment and procedures how to keep a lab notebook Robust Quantitative Analysis of Data statistical analysis when appropriate repetition of protocols to assess quality of ndings effect of experimental perturbations on outcome Verbal and Written Communication two oral presentations two written reports Critical Thinking Analysis and discussion of primary scienti c literature Cite as Angela Belcher Drew Endy Natalie Kuldell and Agi Stachowiak Course materials for 20 109 Laboratory Fundamentals in Biological Engineering Fall 2007 MIT OpenCourseWare http ocw mit edu 4 Massachusetts Institute of Technology Downloaded on DD Month YYYY