100 Ideas

"One a year" - A pre-retrospective: 2008-2108

multitouch $50 microscope

Testing a multitouch interface to a 2-axis microscope stage powered by cheap servo motors, controlled by an arduino, processing, and TUIO events from an iPhone. My dream is to be able to put my fingers on giant microbes and swipe them around. Based on diybio.org/ucam. ucam development 25 Feb 2010 ...

Culturing bioluminescent microbes, part 1

[caption id="" align="alignnone" width="500" caption="1-second exposure overlayed with a 30-second (slightly warped to optimize registration) overlayed using photoshop's "lighten" blending mode at 100% opacity. More photos at flickr"][/caption] I've been fascinated by bioluminescence from the first time I saw pictures of deep-sea angler fish. Since then, I've seen dozens ...

Building an example BioWeatherMap dataset

I want to make an example "BioWeatherMap" based on existing metagenomic data, so I'm looking for a dataset of 16s ribosomal dna (rDNA) sampled from tens or hundreds of environmental locations. First I'd start by creating a simple map rom the basic data (sequences + location) - something like ...

Problem: sequencing a heterologous mix of 16s PCR products

Possible solution: Use gel electrophoresis to separate the DNAs. Temperature Gradient Gel Electrophoresis (TGGE) and Denaturing Gradient Gel Electrophoresis (DGGE) DGGE of small ribosomal subunit coding genes was first described by Gerard Muyzer, while he was Post-doc at Leiden University, and has become a widely used technique in microbial ecology. ...

Garage Metagenomics

The BioWeatherMap project, led by DIYbio member Jason Bobe, is developing a ~$5 kit that will let users identify thousands of the microbes present in or on a given sample or surface. The kit helps the user prepare an arbitrary sample for direct DNA sequencing. In the pilot program, hundreds ...

Colophon

I'm Mac Cowell. I'm an amateur biologist. I'm a part of diybio.org. I'm interested in synthetic biology and refactoring and reengineering existing biological tools and techniques to be cheaper, easier, safer, and more accessible.

Syndicate

February 26th 2010
Tags: DIYbio, good ideas No Comments

multitouch $50 microscope

Testing a multitouch interface to a 2-axis microscope stage powered by cheap servo motors, controlled by an arduino, processing, and TUIO events from an iPhone. My dream is to be able to put my fingers on giant microbes and swipe them around. Based on diybio.org/ucam. ucam development 25 Feb 2010 ...
January 15th 2010
Tags: DIYbio, bioluminescence, microbiology No Comments

Culturing bioluminescent microbes, part 1

[caption id="" align="alignnone" width="500" caption="1-second exposure overlayed with a 30-second (slightly warped to optimize registration) overlayed using photoshop's "lighten" blending mode at 100% opacity. More photos at flickr"][/caption] I've been fascinated by bioluminescence from the first time I saw pictures of deep-sea angler fish. Since then, I've seen dozens ...
August 19th 2009
Tags: Uncategorized No Comments

The Upshot of Diagnostic Kits

As part of the interview process, Carolina Rossini asked me to write a short report on "The Problems of Patents on Diagnostic Testing Kits" (pdf). Later that summer, I read Steven Levy's "Hackers: The Heros of the Computer Revolution." Now I've started to see an analogy between the tools used by nascent ...
June 26th 2009
Tags: articles No Comments

The Web Ecology Project pub 01

Over the last few weeks I've been putting my shoulder into ruby, twitter analytics, basic statistics, and visualization along with the fine young minds of the nascent Web Ecology Project. One of the first things we looked at was the trending terms on twitter; Specifically, for every day over the ...
May 27th 2009
Tags: DIYbio, Garage Metagenomics No Comments

Building an example BioWeatherMap dataset

I want to make an example "BioWeatherMap" based on existing metagenomic data, so I'm looking for a dataset of 16s ribosomal dna (rDNA) sampled from tens or hundreds of environmental locations. First I'd start by creating a simple map rom the basic data (sequences + location) - something like ...

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