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Contents 1 20.309 course materials 1.1 General course information 1.2 Optical microscopy lab 1.3 Electronics 1.4 DNA melting lab 1.5 Presentations 1.6 Atomic Force Micrscopy (AFM) lab 1.7 Optical trapping lab 1.8 Limits of detection lab 2 Useful things 2.1 Resource lists 2.2 Lab manuals 2.3 Matlab tutorials 3 Projects

20.309 course materials

General course information

• 20.309:Lab Report Guidelines
• 20.309:Safety
• 20.309:Course Information

Reserve a lab station here: Bioinstrumentation Lab reservation system

Optical microscopy lab

• Shot noise and centroid finding
• Converting Gaussian fit to Rayleigh resolution
• Cell Reservations
• Optical Microscopy: Brownian motion and microscope stability
• Optical Microscopy: Construction of a microscope
• Protocols
• Fluorescence Imaging of Actin Cytoskeleton
• Microrheology Measurements via Particle Tracking
• Microscopy report outline
• Optical Microscopy Data Sheets
• Procedure: Particle tracking
• Procedure: Diffusion in biological gels
• Lab Manual:Optical Microscopy

Electronics

• Electronics Mini-Lab
• Resource List:Electronics
• Lab Manual:Introduction to electronics
• Electronics Primer

DNA melting lab

• Lab Manual:Measuring DNA Melting Curves
• DNA Melting: Simulating DNA Melting - Basics
• DNA Melting Part 1: Measuring Temperature and Fluorescence
• DNA Melting Report Requirements for Part 1
• DNA Melting: Simulating DNA Melting - Intermediate Topics
• DNA Melting Part 2: Lock-in Amplifier and Temperature Control
• DNA Melting: Model function and parameter estimation by nonlinear regression
• DNA Melting Report Requirements for Part 2

Presentations

• Fall 2012: Journal Presentations

Atomic Force Micrscopy (AFM) lab

• Limits of Detection: Lab Manual
• Limits of Detection:Report Requirements
• Lab Manual:Atomic Force Microscopy (AFM)

Optical trapping lab

• Limits of Detection: Lab Manual
• Limits of Detection:Report Requirements
• Procedure: Peptide-DNA Tethering Assay
• Lab Manual:Optical Trapping

Limits of detection lab

• Limits of Detection: Data Sessions
• Limits of Detection: Lab Manual
• Limits of Detection:Report Requirements

Useful things

Resource lists

• Resource list: Image Enhancement
• Resource list: Matlab
• Resource list: Image processing
• Resource list: Microscopy
• Resource List:Suppliers
• Resource List:Electronics
• Resource list: Particle tracking
• Resource list:Optical trapping
• Resource list:DNA melting and PCR
• Technical Writing
• Resource list:Optics
• Resource list:Magnetic Resonance Imaging

Lab manuals

• Limits of Detection: Lab Manual
• Cell Reservations
• Optical Microscopy: Brownian motion and microscope stability
• Optical Microscopy: Construction of a microscope
• Protocols
• Fluorescence Imaging of Actin Cytoskeleton
• Microrheology Measurements via Particle Tracking
• Spring 2012:PSF lab
• Limits of Detection:Report Requirements
• Lab Manual:Introduction to electronics
• Lab Manual:Measuring DNA Melting Curves
• Lab Manual:Atomic Force Microscopy (AFM)
• Lab Manual:Optical Trapping
• Lab Manual:Optical Microscopy

Matlab tutorials

• Resource list: Image Enhancement
• Resource list: Matlab
• DNA Melting: Simulating DNA Melting - Basics
• Matlab:Image Processing for Fluorescent Microscopy
• Matlab:Division operators
• Matlab:DNA Melting Data Analysis
• DNA Melting: Simulating DNA Melting - Intermediate Topics
• Matlab:Matlab Fundamentals

Projects

• eSTORM: super-resolution microscope for the classroom