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  • Introductory Physics for the Life Sciences | VIIBRE | Vanderbilt University
    Physics Revamped Physics E1 Apply quantitative reasoning and appropriate mathematics to describe or explain phenomena in the natural world Demonstrate quantitative numeracy and facility with the language of mathematics Interpret data sets and communicate those interpretations using visual and other appropriate tools Make statistical inferences from data sets Extract relevant information from large data sets Make inferences about natural phenomena using mathematical models Apply algorithmic approaches and principles of logic including the distinction between cause effect and association to problem solving Examples highlight hypothesis generation and testing Quantify and interpret changes in dynamical systems E2 Demonstrate understanding of the process of scientific inquiry and explain how scientific knowledge is discovered and validated Develop observational and interpretive skills through hands on laboratory or field experiences Demonstrate ability to measure with precision accuracy and safety Be able to operate basic laboratory instrumentation for scientific measurement Be able to articulate in guided inquiry or in project based research scientific questions and hypotheses design experiments acquire data perform data analysis and present results Demonstrate the ability to search effectively to evaluate critically and to communicate and analyze the scientific literature E3 Demonstrate knowledge of basic physical principles and their applications to the understanding of living systems Demonstrate understanding of mechanics as applied to human and diagnostic systems Demonstrate knowledge of the principles of electricity and magnetism e g charge current flow resistance capacitance electrical potential and magnetic fields Demonstrate knowledge of wave generation and propagation to the production and transmission of radiation Demonstrate knowledge of the principles of thermodynamics and fluid motion Demonstrate knowledge of principles of quantum mechanics such as atomic and molecular energy levels spin and ionizing radiation Demonstrate knowledge of principles of systems behavior including input output relationships and positive and negative feedback E6 Apply understanding of principles of how molecular and cell assemblies organs and organisms develop structure and carry out function Employ knowledge of the general components of prokaryotic and eukaryotic cells such as molecular microscopic macroscopic and three dimensional structure to explain how different components contribute to cellular and organismal function Demonstrate knowledge of how cell cell junctions and the extracellular matrix interact to form tissues with specialized function Demonstrate knowledge of the mechanisms governing cell division and development of embryos Demonstrate knowledge of the principles of biomechanics and explain structural and functional properties of tissues and organisms E7 Explain how organisms sense and control their internal environment and how they respond to external change Explain maintenance of homeostasis in living organisms by using principles of mass transport heat transfer energy balance and feedback and control systems Explain physical and chemical mechanisms used for transduction and information processing in the sensing and integration of internal and environmental signals Explain how living organisms use internal and external defense and avoidance mechanisms to protect themselves from threats spanning the spectrum from behavioral to structural and immunologic responses Vanderbilt s PHYS 113 Introductory Physics for the Life Sciences VIIBRE affiliated faculty began teaching PHYS 113A B as a separate calculus based

    Original URL path: http://www.vanderbilt.edu/viibre/physics-life-sciences.php (2016-02-16)
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  • VIIBRE - Facilities | VIIBRE | Vanderbilt University
    and Control Laboratory is dedicated to high bandwidth i e rapid temporal response studies of the dynamics of cellular signaling and metabolism A particular focus is paid towards cell based biosensors and using soft lithographic MEMS fabrication techniques to create silicone based elastomeric Micro and Nanophysiometers that measure simultaneously from a small population of cultured cells in microliter to sub nanoliter cell culture chambers oxygen consumption extracellular pH glucose consumption lactate production amino acid consumption and production and release of specific small molecules intracellular quantities such as oxidation reduction potential transmembrane potential calcium concentration and the expression of selected chemokines Active pumps and feedback controls are being developed to maintain long term cell health in the highly restricted nanoliter culture volumes The VIIBRE cellular instruments are being created using state of the art multichannel potentiostats inverted microscopes computer controlled micropumps and high speed CCD and photodiode fluorescence imaging systems The Nanoparticle Dynamics Laboratory has a femtosecond laser system configured for measurements of the spatiotemporal and spectral properties of single and clustered molecules and nanoparticles including confocal fluorescence lifetime imaging microscopy and fluorescence recovery after photobleaching General VIIBRE Laboratories include a biochemistry laboratory a conference room a cold room a darkroom electronics and machine shops and a laboratory services room In addition to its own shops staffed by full time technicians and engineers VIIBRE is a regular user of the Natural Science Division Machine Shop also in Building 6 which is staffed by three full time instrument makers Other resources established by VIIBRE include various core technologies that are directly relevant to cell biology cancer biodefense and infectious disease detection These include Cytosensor microphysiometers with added capabilities for simultaneous measurement of glucose lactate and oxygen to create multianalyte microphysiometers MAMP microfabrication facilities nanophysiometers for measurements on single cells gradient migration chambers

    Original URL path: http://www.vanderbilt.edu/viibre/facilities.php (2016-02-16)
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  • VIIBRE - Access | VIIBRE | Vanderbilt University
    Publications Patents Presentations Portal Links Home VIIBRE Access VIIBRE Access Access to VIIBRE Labs To improve lab safety and help manage resources VIIBRE requires that all lab users follow the steps outlined below to gain access to labs Safety and following safety protocols must be kept mind at all times and resources must be managed in such a way that every project has the ability to utilize resources without interfering with the research of other projects Before working in some VIIBRE labs specific training is required Required steps to gain access and work in VIIBRE labs I Fill out a lab user form On the right side bar submit a request for access to the form on VIIBRE s SharePoint site II Take assigned safety training and upload completion certificates to VIIBRE s SharePoint site Instructions will be sent immediately after you fill out your lab user form III Fill out and send a New Protocol form if applicable to Ron Reiserer r reiserer vanderbilt edu This step is not required when using protocols already in place IV Take training in the lab s you will be using if required For work in VIIBRE Microfabrication Core labs email the Core manager VMCmanager vanderbilt edu For training in all other labs contact Ron Reiserer r reiserer vanderbilt edu Once these steps have been completed and access has been granted contact Don Berry don a berry vanderbilt edu and schedule a time to have your ID card scanned into our lock system For work in VIIBRE Microfab Core labs email the Core manager VMCmanager vanderbilt edu for instructions for setting up and use of a Vanderbilt Core account For additional information see the Microfab Core new user page http www vanderbilt edu mfc newuserinformation php For work in Core labs the Core

    Original URL path: http://www.vanderbilt.edu/viibre/access.php (2016-02-16)
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  • VIIBRE - Training | VIIBRE | Vanderbilt University
    Advisory Board Accomplishments In the News Publications Patents Presentations Portal Links Home VIIBRE Training VIIBRE Training VIIBRE Training Training is one of VIIBRE s most important goals We train students faculty and staff members in the art of microfabrication and related fields including but not limited to photolithography electronics and PCB design machining microscopy techniques and experimental design Integrating these technologies seamlessly into the design of experimental apparatus is a

    Original URL path: http://www.vanderbilt.edu/viibre/training.php (2016-02-16)
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  • VIIBRE - Safety | VIIBRE | Vanderbilt University
    you MUST have an approved protocol if there is not one already New Protocol Form PPE PPE Personal Protective Equipment is very important so learn how to read the MSDS to see what type of PPE you need to handle each chemical in your protocol Always wear the PPE required by the most dangerous material in use The minimum PPE when using ANY chemical ANYWHERE on campus is safety glasses gloves and lab coat Most MSDS s will not tell you what type of gloves or what type of respiratory protection you need It is up to you to find out what types of gloves are compatible with the chemicals that you will use and to determine the best respiratory protection for your experiment Every glove is different and you should not assume that one nitrile glove is the same as the next You should always look at the chemical resistance data for each type and brand of glove that you use Chemical Storage Chemicals stored in the same cabinet must be compatible and the cabinet must be rated to store the chemicals that you put in it Know where you will store your chemicals before you order them Some basic guidelines are Never store acids with organics Never store acids with bases Never store acids with oxidizers Never store flammables with oxidizers Never store flammables with bases Never store bases with oxidizers Organics in any of the categories should be stored separate from inorganics of the same category There are some chemicals that should be stored separate from all other chemicals and some that need to be stored under inert atmosphere The MSDS for the chemicals will tell you how to store them Under no circumstances should you ever store any chemicals at your desk Chemical Disposal Vanderbilt does NOT allow ANY chemical disposal down the drains You should put your used chemicals in an approved and chemically compatible secondary container properly marked with the contents fill out a pink collection tag supplied by VEHS or your lab manager and notify VEHS via their web site to pick up the waste Make sure the chemicals you put in the container are compatible as some chemical mixtures can generate explosive gases or may generate explosive pressure in a closed container VEHS Guide for Managing Chemical Waste Notes on Chemical Use There are a lot of reasons to use specific materials for experimental containers including but not limited to process contamination spill hazards and adverse chemical reactions e g you should not use polystyrene petri dishes to soak a substrate in acetone Please read the MSDS for ALL CHEMICALS used in your experiments If you are unable to locate an MSDS for one of your chemicals please contact Ron Reiserer If you spill something even water please clean it up immediately so others don t have to wonder what it is Read the MSDS sheet for that chemical for the proper spill cleaning procedure If you are ordering new chemicals you

    Original URL path: http://www.vanderbilt.edu/viibre/safety.php (2016-02-16)
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  • VIIBRE - Shared Resource Cores | VIIBRE | Vanderbilt University
    PerkinElmer Opera QEHS 2 0 A fully automated ultra highspeed confocal spinning disk microscope for screening applications with motorized stage and z focus drive ultra fast laser based autofocus 0 1s 4 laser exitation sources and tunable UV Vis 3 Peltier cooled CCD cameras one non cooled CCD multiple options for fluorescent filter selections simultaneous or separate exposures and multiple air as well as water immersion objectives for precision imaging In addition we offer the following high content image analysis software that seamlessly interfaces with large image quantities for batch analysis of high content images PerkinElmer Columbus software or Volocity 3D analysis software Columbus is a server based comprehensive and intuitive software with pre configured building blocks and semi automated software that complements PerkinElmer s fully customizable script based Acapella image analysis software Columbus also offers powerful machine learning capabilities Volocity allows the user to measure and analyze your large image sets in 3D To learn more schedule training or to utilize our Screening 4 Hire option please visit the ABC website or contact Vanessa Allwardt VIIBRE Microfabrication Core MFC The VIIBRE Microfabrication Core offers cleanroom facilities including photolithography and microfabrication labs as well as expertise for the design manufacture

    Original URL path: http://www.vanderbilt.edu/viibre/sharedresources.php (2016-02-16)
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  • Automated Microscopy | VIIBRE | Vanderbilt University
    Steering Committee Scientific Advisory Board Industrial Advisory Board Accomplishments In the News Publications Patents Presentations Portal Links Home Automated Microscopy Automated Microscopy Zeiss Axiovert 200M Inverted wide field fluorescence microscope equipped with a temperature controlled CO 2 incubation system for live cell time lapse experiments Objectives 1 25x EC Plan NEOFLUAR NA 0 03 WD 4 0mm 0 17mm coverglass 10x CP Achromat NA 0 25 WD 5 1mm 0 17mm coverglass 20x LD A Plan NA 0 3 WD 4 2mm 0 2mm coverglass 20x LD ACHROPLAN NA 0 4 WD 10 2mm 0 1 5mm coverglass w corr collar 40x LD ACHROPLAN NA 0 6 WD 2 5mm 0 2mm coverglass w corr collar 63x Oil Plan APOCHROMAT NA 1 4 WD 0 19mm 0 17mm coverglass oil immersion Brightfield Phase I II III DIC II III Fluorescent Filters FITC DAPI Texas Red Rhodamine Photometrics CoolSNAP HQ 12 bit CCD camera Motorized XY stage objective turret shutters Metamorph software Nikon Eclipse T i E Fully motorized inverted wide field fluorescence microscope Objectives 10x CFI Plan Fluor DL NA 0 3 WD 16mm 20x CFI Super Plan Fluor ELWD NA 0 45 WD 8 2mm 40x CFI Super Plan

    Original URL path: http://www.vanderbilt.edu/viibre/automatedmicroscopy.php (2016-02-16)
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  • High Content Screening (ABC) | VIIBRE | Vanderbilt University
    Christina C Marasco CV Administrative Staff Technical Staff Faculty Fellows External Associates Scientific Steering Committee Scientific Advisory Board Industrial Advisory Board Accomplishments In the News Publications Patents Presentations Portal Links Home High Content Screening ABC High Content Screening ABC The Opera QEHS is available to all Vanderbilt researchers through C O R E S Please visit our Automated Biosystems Core website to find out more PerkinElmer Opera QEHS 2 0 Highly fexlible fully automated and fastest HCS HTS confocal microscope at Vanderbilt Objectives 10x Air NA 0 4 WD 3 1mm conf depth 6 microns 20x Air NA 0 45 WD 6 9mm conf depth 6um w corr collar 40x Air NA 2 7 WD 2 7mm conf depth 2 7um w corr collar 2 0x Water Immersion NA 0 7 WD 0 6mm conf depth 2um 40x Water Immersion NA 0 9 WD 0 16mm conf depth 1 2um 4 laser excitation sources 405 488 561 640nm tunable UV Vis 350 410nm TLED brightfield Wide range of fluorescent emission filter combinations 450 50 520 35 540 75 565 40 585 40 600 40 690 50 3 Peltier cooled high res CCD cameras 1 3 MP 12 bit 1 non

    Original URL path: http://www.vanderbilt.edu/viibre/high-content-screening.php (2016-02-16)
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