Cis-Action

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David Baltimore’s perspectives on Synthetic Biology

Here's a rough transcript of Dr. Baltimore's talk: I helped organize Asilomar. That was more than 30 years ago; none of you were born then, but perhaps you've heard of it. Back then we had no experience with recombinant technology. We didn't know what to expect of it ...

Summaries of selected 10-minute short talks

Caroline Ajo-Franklin (Harvard Medical School) presented work on a cell-cycle counter. Steffen Mueller (SUNY Stony Brook) spoke about synthetic virus design. Live attenuated viruses are usually generated through big serial dilutions in a costly and time consuming process, and the resulting mutations that attenuate it are usually few in number. Instead, ...

"Synthetic retrotransposons" - Jef Boeke

Retrotransposition is one of the two basic types of transposition we find in biology. It's sort of fun to survey where transposons are in the tree of life: in the case of more eukaryotes, most of the genome is transposons; little of microbial genomes are retrotransposons. LINEs (L1) transposon sequences ...

"Synthetic immunology: engineering immunity" - David Baltimore

"The world's major killers are killers because they elude immune attack: HIV, malaria, tuberculosis," etc. What are needed are new approaches to stopping these pathogens. "The don't work because they haven't worked" - and what I mean by that is that the immune system is gonna fail when ...

"Secreting Spider Silk in Salmonella" - Chris Voigt

Let's engineer a "super" salmonella that can construct and extrude silk filaments from its membrane. Spider silks have a wide variety of desirable materials properties. Dragline silk is equal strength of kevlar, but 10 times more elastic. Silks are amino acid biopolymers with elastic and crystalline elements, ...

"Synthetic mammalian gene networks" - Martin Fussenegger

For any therapeutic intervention, dosing is key. Consider a system for gas-inducible transcription control composed of a fungal trans-activator (expected to be functional in mammalian cells), AlcR, and an operator, activated by small concentrations of a chemical found in tabacco smoke. Some of their work (biotechnol bioeng. 83:810 2003) demonstrated that different ...

HEALTH SESSION: "Directed evolution of new viruses for gene delivery" - David Schaffer

Overview of Health & Synthetic Biology by Wedell Lim: The ability to systematically and flexibly manipulate and control cellular systems is the threshold to a new era in medicine, hence the importance of synthetic biology synthetic organic chemistry -> intellectual capital: understanding of biochemical reactions; tangible benifits: construction of novel molecules Synthetic biology ...

"Towards the design and synthesis of an artificial cell" - Jack Szostak

First point: "I really don't think this has any practical applications, at least in the foreseeable future." Goal is to build a simple cell based on a replication vesicle for compartmentalization and a replicating genome. If the cell is to be simple, the environment must be correspondingly complex. ...

"Chemical tools for probing the glycome" - Carolyn Bertozzi

Chemical tools for probing the glycome - Carolyn Bertozzi Glycosyltation is the most complex form of posttranslational modification. polysaccharaides attached to membrane-bound proteins can facilitate cell-cell (or membrane-membrane, at least) communication by interacting with corresponding membrane-bound receptors. Fundamental "glycomics" questions: Which proteins are modified with what kinds of glycans (50% of eykaryotic ...

"New bacterial communication lines by laboratory evolution of LuxR" - Frances Arnold

Let's make a new communication system by utilizing an existing communication system. "I'm just the parts lady; I'm the one who has to sit there figure out how to define parts to... and so LuxR is my chosen substrate." Novel idea for using signal pathways: predator-prey system, consensus consortium - something activates ...

October 17th 2008
Tags: food No Comments

Cuchi Cuchi 1

Thai cocktail It's like an effervescent thai foot massage... For your tongue. It even taste a little gingery, but it lacks Ginger. A syrupy lime kick transitions into basilness, somehow ending with licorice. Yum! Caip They say it's been made impure with all the extra ingredients.. But it's like ...
August 1st 2008
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Eastern Standard Cocktails

Notes from my exploration of eastern standard's cocktail menu: Old Cuban: reminds me of a mojito + champagne - it's very tasty. Periodista: "rum for the intrepid reporter" - a little more than simply a mojito in a cocktail glass (with delicious ice crystals), the periodista is a citrusy drink with a ...
July 14th 2008
Tags: diybio No Comments

DIYbio 3 - Gel Electrophoresis

Thanks to everyone for a great meeting: Michael, Jason, Sophia, Benny, Topher, Ricardo, Alex, Alec, nublabs, and everyone else. Overview: DIYbio 2 & 3 were focused on gel electrophoresis - we started by researching all the amateur gel protocols we could find online (notably the MacGuyver Project and the MAKE protocol, ...
July 9th 2008
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RubyU class 1 setup notes

My notes for getting all the prerequisites for Matt Knox's 1st RubyU class (hosted by Sermo) set up on my MacBook Pro (10.5).  Also see the friendfeed RubyU room. == getting prereqs installed == ruby > anvil:rubyclass macowell$ ruby -verison > ruby 1.8.6 (2008-03-03 patchlevel 114) [i686-darwin9.2.2] gems See http://www.rubygems.org/read/chapter/1 > anvil:rubyclass macowell$ gem environment > - ...
June 11th 2008
Tags: conference, diybio No Comments

DIYbio in 5 minutes - O’Reilly Ignite Boston 3

DIYbio in 5 minutes - O'Reilly ignite Boston from mac cowell on Vimeo. Here is an overview of DIYbio in 5 minutes - recorded at O'Reilly's Ignite Boston 2008.

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