Koch Lab:Protocols

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One of the goals of our lab is to share protocols in a form that makes it as easy as possible for other labs to build off of them. These will be a combination of protocols that we will develop and also those that Steve has developed in the past but has not had a good opportunity to distribute yet. If any of the following protocols are of particular interest, drop us a line or make a note on the discussion page! We also want to share software applications and computational modules (mostly LabVIEW) that would be useful to others.

General Lab Techniques

Every lab has its own standards when it relates to lab safety, cleanliness, and shared equipment protocols. Below we've documented our specific techniques with regards to these general lab standards:

• Cleaning Glassware
• Using Pipettes
• Laser Safety
• How to Autoclave
• How to Clean the Autoclave

Molecular Biology Protocols

Standard Techniques

• PCR
• Gel Electrophoresis
• Cloning
• Transformation into E. Coli

KochLab Techniques

• Kinesin protocols
• DNA Protocols
• Flow cell

Equipment Setup

• Optical Tweezers
• Microscopy
• Gel Imaging System

Computational Protocols

• Shotgun DNA Mapping
• Kinesin Processivity
• Kinesin Tracking
• Motion Detection Camera
• Loading Rate Clamp
• Maximum likelihood anlaysis of single-molecule disruption data with Evan Evans' et al. Dynamic Force Spectroscopy (DFS) model. Much better and easier than performing Gaussian fits to histograms. Used in 2003 Phys. Rev. Let. paper, PMID 12906513.
• Finite Element Magnetic Modeling (FEMM) for predicting forces on magnetic microspheres, as in 2006 Appl. Phys. Let. (PDF)