User:Anthony Salvagno/Notebook/Research/2009/10/07/A-Exam Outline

As far as webcasting goes. I think I could do it live, but I don't know what the best method is. I did find ustream, which broadcasts live streaming video. I can also use the digital cameras in lab to record and save it. I could also just use google chat probably. My laptop also has a webcam built into it, but that might not be the best option because powerpoint for mac doesn't get along with powerpoint for windows. (Steve Koch 02:14, 8 October 2009 (EDT):It's probably 100x easier to just record it and then figure out how to broadcast it later. Given time frame, that's my recommendation.  A quick message to J-C, though, would possibly be worth it, because I know he's somehow linked syncronized slides / speaking.)

Outline
Here is my tentative plan for my talk:

Welcome to the Lab

 * 1) Maybe have a slide of lab members
 * 2) Slide of Lab Research Focuses
 * 3) *SDM
 * 4) *Kinesin
 * 5) Current Kinesin Experiments
 * 6) *Bulk Assays of ATP Hydrolysis - Brigette
 * 7) *Gliding Motility
 * 8) *Surface Passivation - Andy
 * 9) *Kinesin Simulation - Larry

Introduction
Intro to DNA and problems with DNA
 * 1) What is DNA
 * 2) *This might be a couple of slides
 * 3) Chromatin and higher orders
 * 4) DNA to people
 * 5) *Central Dogma explanation
 * 6) *Maybe talk about transcription here
 * 7) Cancer is bad
 * 8) *Errors in DNA
 * 9) *Post Translational Modifications
 * 10) *Telomeres

SDM

 * 1) Single molecule studies
 * 2) *Unzipping Data of nucleosome, and Koch's protein studies
 * 3) What is SDM
 * 4) Simulation Info
 * 5) *"Tether" creation
 * 6) *Unzipping based on Ewlc, Efjc, Ebp
 * 7) Detection Capabilities
 * 8) *Larry Data from alt. splicing
 * 9) *Now what? - go to next section

Optical Tweezers

 * 1) Image of OT
 * 2) Basics of OT
 * 3) our OT design (Steve Koch 02:21, 8 October 2009 (EDT): Definitely show picture(s) here, because it looks very cool. Also, make sure to give props to people who worked on this design an various parts of it (Andy, Larry, Linh).

Molecular Biology
(Steve Koch 02:23, 8 October 2009 (EDT): Make sure to give props here, too -- Kelly, Diego, Brandon...It's a big challenge, but try to make this part interesting to both the biologists and the physicists. I think this can be accomplished by explaining things that can and / or did go wrong.)
 * 1) Start from Yeast
 * 2) digest genome
 * 3) clone fragments
 * 4) create unzipping construct
 * 5) ligate fragments and unzip construct
 * 6) tether and unzip

Future Plans

 * 1) Addition of nucleosomes
 * 2) *in vitro nucleosome unzipping
 * 3) *in vivo nucleosome unzipping
 * 4) *transcriptional studies
 * 5) **unzip profile of RNA Pol II
 * 6) **study RNA Pol II in different scenarios
 * 7) *telomere mapping