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20.109(S22):Spring 2022 schedule	20.109(S23):Assignments	20.109(S23):Class data
20.109(S23):Communication	20.109(S23):Data Summary	20.109(S23):FYI
20.109(S23):Homework	20.109(S23):Journal article presentation	20.109(S23):Laboratory tour
20.109(S23):M1D1	20.109(S23):M1D2	20.109(S23):M1D3
20.109(S23):M1D4	20.109(S23):M1D5	20.109(S23):M1D6
20.109(S23):M1D7	20.109(S23):M1D8	20.109(S23):M2D1
20.109(S23):M2D2	20.109(S23):M2D3	20.109(S23):M2D4
20.109(S23):M2D5	20.109(S23):M2D6	20.109(S23):M2D7
20.109(S23):M2D8	20.109(S23):M3D1	20.109(S23):M3D2
20.109(S23):M3D3	20.109(S23):M3D4	20.109(S23):Module 1
20.109(S23):Module 2	20.109(S23):Module 3	20.109(S23):Research article
20.109(S23):Research proposal presentation	20.109(S23):Research talk	20.109(S23):Spring 2023 schedule
20.109(S24):Assignments	20.109(S24):Class data	20.109(S24):Communication
20.109(S24):Data Summary	20.109(S24):FYI	20.109(S24):Guidelines for working in the tissue culture facility
20.109(S24):Homework	20.109(S24):Journal article presentation	20.109(S24):Laboratory tour
20.109(S24):M1D1	20.109(S24):M1D2	20.109(S24):M1D3
20.109(S24):M1D4	20.109(S24):M1D5	20.109(S24):M1D6
20.109(S24):M1D7	20.109(S24):M1D8	20.109(S24):M2D1
20.109(S24):M2D2	20.109(S24):M2D3	20.109(S24):M2D4
20.109(S24):M2D5	20.109(S24):M2D6	20.109(S24):M2D7
20.109(S24):M2D8	20.109(S24):M3D1	20.109(S24):M3D2
20.109(S24):M3D3	20.109(S24):M3D4	20.109(S24):Module 1
20.109(S24):Module 2	20.109(S24):Module 3	20.109(S24):Research article
20.109(S24):Research proposal presentation	20.109(S24):Research talk	20.109(S24):Spring 2024 schedule
20.109:Lab basics	20.109:Module 1	20.109:Module 2
20.109:Module 3	20.109:Module 4	20.109:OWW basics
20.109:People	20.109: Spring 2007 schedule	20.109 (F07): Phage by design
20.109 (S07): Atomic force microscopy	20.109 (S07): Transmission electron microscopy	20.109 Main Page
20.309:Course Information	20.309:DAQ System	20.309:Lab Report Guidelines
20.309:Learning outcomes	20.309:Safety	20.309: Exam 1 Topics
20.309 Assignment 1: Optics bootcamp	20.309 Main Page	20.309 development to-do list
20.345:Course Information	20.345:Final project proposal	20.345:Key Factors Table
20.345:Literature search	20.345:Main page	20.345: Wiki guidelines
A.Williams: Objectives and Literature Review	AFM	ANOID Project
Additional Resources	Aligning the optical trap	Alumni Page
Aperture and field stops	Assignment 1, Part 1: Pre-lab questions	Assignment 1, Part 2: Optics bootcamp
Assignment 1, Part 3: Building your transillumination microscope	Assignment 1, Part 3: Microscope design	Assignment 1, Part 4: Building your transilluminated microscope
Assignment 1, Part 4: Measuring magnification and bead size	Assignment 10, Part 1: Measuring the osmotic shock response of yeast	Assignment 10 Overview
Assignment 11: Tell us about your lab visit	Assignment 1: Microscope design	Assignment 1: Optics bootcamp
Assignment 1: Pre-lab questions	Assignment 1: Transilluminated microscope	Assignment 1: Transillumination microscopy
Assignment 1 Overview: Transillumination microscopy	Assignment 2: epi illuminator for fluorescence microscopy	Assignment 2: fluorescence microscopy
Assignment 2 Part 1: Noise in images	Assignment 2 Part 2: Fluorescence microscopy	Assignment 2 Part 3: Build an epi-illuminator for your microscope
Assignment 2 Part 4: Fluorescent imaging of actin	Assignment 3, Part 1: visualizing actin with fluorescence contrast	Assignment 3, Part 2: experimental design with fluorescence
Assignment 3: visualizing actin using fluorescence contrast	Assignment 3: visualizing actin with fluorescence contrast	Assignment 3 Overview
Assignment 4: finding and measuring things	Assignment 4 part 1: Make a fake image	Assignment 4 part 2: Measure resolution
Assignment 4 part 3: Track microspheres over time	Assignment 5, Part 1: MSD difference tracking and microscope stability	Assignment 5, Part 1: viscosity and diffusivity in glycerol-water mixtures
Assignment 5, Part 2: live cell particle tracking of endocytosed beads	Assignment 5: Spring 2020	Assignment 5: cellular microrheology
Assignment 5 Overview	Assignment 5 navigation	Assignment 6, Part 1: Pre-lab questions
Assignment 6, Part 1: build a two-color microscope	Assignment 6, Part 2: Electronics bootcamp	Assignment 6, Part 2: electronics written problems
Assignment 6, Part 3: Identifying unknown filter circuits	Assignment 6 Overview	Assignment 6 Overview: two color microscope
Assignment 7, Part 1: op amp golden rules questions	Assignment 7, Part 2: measure temperature and fluorescence	Assignment 7, Part 3: testing your instrument and measuring a DNA melting curve
Assignment 7: Amplifiers and feedback	Assignment 7 Overview	Assignment 8, Part 0: convolution practice
Assignment 8, Part 1: convolution	Assignment 8, Part 1: fabricate a microfluidic device	Assignment 8, Part 2: build a two-color microscope
Assignment 8, Part 2: fabricate a microfluidic device	Assignment 8, Part 2: lock-in amplifier and temperature control	Assignment 8, Part 3: add flow control and test your device
Assignment 8 Overview	Assignment 8 Overview: flow channel & two-color microscope	Assignment 9, Part 1: Analyze two-color yeast images
Assignment 9, Part 1: model function	Assignment 9, Part 2: Simulating DNA melting data and testing the model function	Assignment 9, Part 3: Fitting your data
Assignment 9 Overview	Assignment 9 Overview: Analyzing yeast images	BEECH(F23)
BEECH(F23):Build Communication Toolkit	BEECH(F23):Build Community	BEECH(F23):Build Knowledge
BEECH(F23):Build Your Project	BEECH(F23):People	BEECH(F23): 2023-2024 schedule
BEECH Main Page	BE Classroom Computer Documentation	BE TA Training(Su16):Homepage
BE TA Training (Su17)	BE TA Training (Su18)	BE TA Training (Su19)
Beam Expander Example	Beech	Bode plots
Bode plots and frequency response	Bryan Hernandez/20.109/Lab notebook/Module 1/Day 2	Bryan Hernandez/20.109/Lab notebook/Module 1/Day 3
Bryan Hernandez/20.109/Lab notebook/Module 1/Day 4	Bryan Hernandez/20.109/Lab notebook/Module 1/Day 5	Bryan Hernandez/20.109/Lab notebook/Module 1/Day 6
Bryan Hernandez/20.109/Lab notebook/Module 2/Day 2	CM March14	CM March28
CRISPRi module, Part II: Increasing ethanol yield in E. coli MG1655	Calculating MSD and Diffusion Coefficients	Capacitors and inductors
Cartridge Manipulation	Cell Printing	Cell Printing Experimentation
Cell Reservations	Cellular microrheology	Complex Number Review
Compound Microscope Example	Confocal Wiki	Converting Gaussian fit to Rayleigh resolution
Course Journal -- Nathan S Lachenmyer	Coursework	Creating 20.109(S17):Scan slides to identify FKBP12 binders (Day5)
DAQ Ribbon Cable	DNA Melter Improvements	DNA Melting
DNA Melting: DNA Sequences	DNA Melting: Model function and parameter estimation by nonlinear regression	DNA Melting: Processing DNA Melting Data
DNA Melting: Simulating DNA Melting - Basics	DNA Melting: Simulating DNA Melting - Intermediate Topics	DNA Melting: Using the Basic DNAMelter GUI
DNA Melting: Using the LockIn DNAMelter GUI	DNA Melting: Using the Matlab DNAMelter GUI	DNA Melting II: Using the Matlab DNALockIn GUI
DNA Melting Part 1: Measuring Temperature and Fluorescence	DNA Melting Part 1: Simulating DNA Melting - Basics	DNA Melting Part 2: Lock-in Amplifier and Temperature Control
DNA Melting Part 2: Measuring Temperature and Fluorescence	DNA Melting Part 3: Simulating DNA Melting - Intermediate Topcs	DNA Melting Part 3: Simulating DNA Melting - Intermediate Topics
DNA Melting Part 4: Lock-in Amplifier and Temperature Control	DNA Melting Report Requirements	DNA Melting Report Requirements for Part 1
DNA Melting Report Requirements for Part 2	DNA Melting Thermodynamics	DNA melting: Identifying the unknown sample
DNA melting lab wiki pages	Data Sheets	Deconvolved Image
Develop Research proposal ideas and presentations	Device Creation	ESTORM
Electronics Mini-Lab	Electronics Module	Electronics Primer
Electronics boot camp I: passive circuits and transfer functions	Electronics boot camp lab part 1	Electronics bootcamp II: feedback systems
Electronics primer	Electronics written problems	Electronics written problems II
Emmanuel Quiroz	Equipment on loan	Error analysis
Estimating second order system parameters from noise power spectra using nonlinear regression	Exam 2 study guide	FPGA Design Environment
Fall 2010: DNA melting report outline	Fall 2010: Microscopy report outline	Fall 2010: Problem Set 3
Fall 2010 Syllabus	Fall 2012: Journal Presentations	Final Project: Spatial Light Modulator Galore
Final Project -- Nathan S Lachenmyer	Final Project Proposal Williams	Final Projects
Finding and measuring things	Flat-field correction	Fluorescence Imaging of Actin Cytoskeleton
Geometrical Optics	Geometrical optics and ray tracing	Hattie Chung
Identifying the unknown DNA sample	Impedance Analysis	In silico cloning of pdCas9 construct
Inkjet Technologies	Input and output impedance	Intro Electronics Lab Report
Introduction	Key Project Elements	Key estimates
Lab 1 Report -- Nathan S Lachenmyer	Lab 2 Report -- Nathan S Lachenmyer	Lab Manual:Atomic Force Microscopy (AFM)
Lab Manual:Intro to electronics	Lab Manual:Introduction to electronics	Lab Manual:Measuring DNA Melting Curves
Lab Manual:Optical Microscopy	Lab Manual:Optical Trapping	Lab Manual:Processing DNA Melting Data
Lab Manual: Atomic Force Microscopy (AFM)	Lab Manual: Limits of Detection	Lab Manual: Measuring DNA Melting Curves
Lab Manual: Optical Microscopy	Lab Manual: SLA 3D-Printed Microfluidic Device Master Mold	Lab Report Guidelines
Lab orientation	Laser cutter safe operating procedure	Lecture Notes:Modeling real systems with ideal elements
Limits of Detection:Report Requirements	Limits of Detection: Data Sessions	Limits of Detection: Lab Manual
Locating objects in a fluorescent microscopic image	MATLAB: Estimating resolution from a PSF slide image	MATLAB: Estimating viscoelastic spectrum using Mason's method
MATLAB: Intensity-weighted centroid noise formula	MRI lab: FPGA controller documentation	MSD of Sum and Difference Trajectories
Main Page	Manta G032 camera measurements	March14
Matlab:Division operators	Matlab:Image Processing for Fluorescent Microscopy	Matlab:Matlab Fundamentals
Matlab:Simulating DNA Melting	Matlab:Simulating DNA melting	Matlab: Scalebars
Matlab: Simulating Brownian motion	Measuring biological forces mini-lab	Measuring optical magnification
Methods	Microrheology Measurements via Particle Tracking	Microscope Objective Lenses
Microscopy report general guidelines	Microscopy report outline	More info on BJC2100 Attempt
Nonlinear regression	Objective	Optical Microscopy: Brownian motion and microscope stability
Optical Microscopy: Brownian motion and microscopy stability	Optical Microscopy: Construction of a microscope	Optical Microscopy: Fluorescence Microscopy
Optical Microscopy: Part 1 Report Outline	Optical Microscopy: Part 2 Report Outline	Optical Microscopy: Part 3 Report Outline
Optical Microscopy: Part 4 Report Outline	Optical Microscopy Data Sheets	Optical Microscopy Part 1: Bright Field Microscopy
Optical Microscopy Part 1: Brightfield Microscopy	Optical Microscopy Part 1b: Geometrical Optics and Ray Tracing	Optical Microscopy Part 1b: Ray Tracing
Optical Microscopy Part 1c: Physical Optics and Limits of Detection	Optical Microscopy Part 1d: Noise Sources in Light Detection	Optical Microscopy Part 2: Fluorescence Microscopy
Optical Microscopy Part 2b: High Resolution Microscopy Techniques	Optical Microscopy Part 3: Particle Tracking	Optical Microscopy Part 3: Particle Tracking Applications

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