Class 8 - Bioinformatics

Synopsys

Microbes can generate a lot of data. Especially 3D data is beautiful and essential to understand. We will give enzyme analysis a try. Next, spectroscopy is a great tool for monitoring the growth and production in your bioreactor. We will make our own light source and detector setup. The class is about other analytical techniques too.

Schedule

• Bioinformatics [PDF] (/bha5/class/8/pdf/8.1 Bioinformatics.pdf) - VIDEO
• Guest Lecture Andrea Polli VIDEO
• Spectrometer Design PDF - VIDEO
• Practicals
  • Iodine Clock Reaction
  • Optional: PyMOL

Devices

This week we will build a spectrometer. We have created 2 spectrometer designs, you may choose which design to build. The Webcam based device is the simplest.

Webcam-based spectrometer

For fast and easy graphical analysis.

• BHA_Webcam_Spectrophotometer repository

Photodiode array-based photospectrometer

This is a more precise analytical instrument. Why not hack it into a flow cell spectrometer?

• BHA_Spectrophotometer repository

Bill of Materials

In order to take part in this class you will need the following materials:

• Webcam Spectrophotometer materials
• Spectrophotometer materials

Additional reading and hacking

• Spectroscopy
  • PublicLab
  • Calibration Assays
• DIY Spectrometers
  • Really Basic - Instructable
  • Spectruino
  • CCD array
  • TSL1402R
  • open source DI-Lambda Uno Spectrometer from Koi Science - Github
• DIY absorbance meters
  • Open Source Colorimeter

Feeling lazy?

Go ahead and buy a spectrometer:

• Second hand photospectrometers at LabX

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