Poster Session Abstracts**<strong>ABRF</strong> Poster Award Semifinalists102 Designing an Institutional Web-basedCore Facility Management SystemPoster Abstracts101 Center for Genome Research andBiocomputing at Oregon StateUniversityC. Rosato, M. Dasenko, A. Girard, M. Peterson,C. Sullivan, J.C. CarringtonCenter for Genome Research & Biocomputing,Oregon State University, Corvallis, OR, UnitedStatesThe Center for Genome Research and Biocomputing (CGRB) CoreLab at Oregon State University provides services for fee in genomictechnologies (DNA sequencing, DNA genotyping (fragment analysis))and in functional genomic technologies (microarray). We manage aZeiss LSM510Meta confocal microscope as a multi-user instrument;training is required and assistance is available, both for fee. Sequencingis provided both for traditional Sanger sequencing on an AB 3730 andultra high throughput sequencing on the Illumina Genome AnalyzerGAIIX. With the most recent s<strong>of</strong>tware and reagent upgrades, 2 x150bp runs are now supported with up to 40 million reads per lanepassing filter. DNA genotyping (fragment analysis) runs on the AB3730. Our microarray services include Affymetrix and NimbleGenplatforms, and sample labeling, hybridization and scanning are<strong>of</strong>fered. We purchased ArrayStar microarray analysis s<strong>of</strong>tware, whichis accessible to our researchers through our Biocomputing clusternetwork. The Agilent BioAnalyzer service <strong>of</strong>fers High Sensitivity DNAand RNA applications. Our Biocomputing capabilities have expanded.This past year we reorganized the computing resources into a cloudarchitecture. GENOME Cloud is at 507 Processors, 1.5TB Memoryand 300+TB Storage. We process around 20,000 jobs / day on thecloud. We have increased access to our computational resources,decreased analysis turn-around time, and we have added new toolsto monitor computational resources. The Biocomputing changes toour High Throughput Sequencing service include removing the IPARunit from the network and simplifying data pathways both for datamanagement and researcher analysis capabilities. The CGRB Core Labalso maintains multi-user instruments available to researchers. Theseinclude a Zeiss LSM510Meta confocal microscope, an AB 7500 FASTqPCR instrument includes High Resolution Melting (HRM) capability, aStorm 820 Phosphoimager, a Nanodrop, an Invitrogen Qubit, a GenetixQ-Pix colony picker, an Axon Genepix 4200A microarray scanner and afluorescent plate reader.A. Hagen 1 , D. Tabarini 2 , S. Clisham 3 , D. John 31iLab Solutions, LCC, Cambridge, MA, UnitedStates; 2 Memorial Sloan-Kettering Cancer Center,New York, NY, United States; 3 Institute for SystemsBiology, Seattle, WA, United States; 4 Dana-FarberCancer Institute, Boston, MA, United StatesThe authors and their four institutions collaborated to (i) identify the keychallenges to core facility management; (ii) identify the requirementsfor an effective core facility management system; (iii) design, test anddeploy such a system. Through a series <strong>of</strong> interviews with all participantsin the core work flow (customers, core staff, administrators), the teamidentified a number <strong>of</strong> key challenges, including: (i) difficulty forresearchers in identifying available services; (ii) inconsistent processesfor requesting services; (iii) inadequate controls for approving servicerequests; (iv) inefficient processes for tracking and communicating aboutproject processes; (v) time-consuming billing practices; (vi) incompleterevenue capture; (vii) manual reporting processes. The team identifiedthe following requirements for a system to address these challenges:(i) ability to support a broad range <strong>of</strong> core business practices suchas complex quote generation and project management; calendaring/equipment reservation management; sample tracking; complex forms;and import <strong>of</strong> usage data from hardware; (ii) ability to <strong>of</strong>fer servicesfor both internal and external customers, including flexible pricingand <strong>of</strong>f-site access; (iii) ability to interact with institutional financialsystems (e.g. SAP, PeopleS<strong>of</strong>t, Lawson, SunGard Banner) and identifymanagement systems (e.g. Micros<strong>of</strong>t Active Directory, LDAP, and otherSAML 2.0-compliant services). The team developed and deployed thissystem across the collaborative partners, as well as other major researchinstitutions.103 RI-INBRE Centralized Research CoreFacilityA. Ahmed, N. NousUniversity <strong>of</strong> Rhode Island, Kingston, RI, UnitedStatesThe RI-INBRE Centralized Research Core Facility inaugurated in July2003, is being supported by the Rhode Island IDeA Network <strong>of</strong>Biomedical Research Excellence (RI-INBRE) grant from NCRR /NIHand by the participating institutions that include: University <strong>of</strong> RhodeIsland, Brown University, Rhode Island College, Providence College,Salve Regina University, and Roger Williams University. This facility islocated in the College <strong>of</strong> Pharmacy at the University <strong>of</strong> Rhode Island’sKingston campus. It is equipped with instrumentation in biomedical,pharmaceutical and biotechnological research. The Core Facility isproviding access to research instrumentation and training supportto RI-INBRE participants as well as other scientists affiliated withacademic institutions and the private sector throughout the state <strong>of</strong>Rhode Island. Instrument reservation and scheduling are available,through the core facility’s website (wwww.uri.edu/inbre/corelab).All new users are supported with operator assisted access to theequipment. Independent access to the equipment is also available to60 • <strong>ABRF</strong> <strong>2011</strong> — Technologies to Enable Personalized Medicine
all trained users. In addition, full service access via sample submissionis provided particularly in ICP-MS, LC/MS/MS and N-terminal proteinsequencing. Technical staff members manage the laboratory and areavailable to assist in the operation <strong>of</strong> various instruments and to analyzesamples on a fee-for-service basis. (Supported by NIH-NCRR Grant #1P20RR16457)104 Implementation <strong>of</strong> QualityManagement in Core ServiceLaboratoriesB. Hicks, T. Creavalle, J. Dickens, K. Haque,C. Raley, M.W. SmithGenetics and Genomics Group, AdvancedTechnology <strong>Program</strong>, SAIC-Frederick, NationalCancer Institute at Frederick, Frederick, MD, UnitedStatesThe Genetics and Genomics group <strong>of</strong> the Advanced Technology<strong>Program</strong> <strong>of</strong> SAIC-Frederick exists to bring innovative genomic expertise,tools and analysis to NCI and the scientific community. The SequencingFacility (SF) provides next generation short read (Illumina) sequencingcapacity to investigators using a streamlined production approach.The Laboratory <strong>of</strong> Molecular Technology (LMT) <strong>of</strong>fers a wide range<strong>of</strong> genomics core services including microarray expression analysis,miRNA analysis, long read (Roche) next generation sequencing,transgenic genotyping, Sanger sequencing, and clinical mutationdetection services to investigators from across the NIH. SF and LMT areworking together to bring online the third generation Pacific BioscienceSMRT sequencing platform. As the technology supporting thisgenomic research becomes more complex, the need for basic qualityprocesses within all aspects <strong>of</strong> the core service groups becomes critical.The Quality Management groupworks alongside members <strong>of</strong> theselabs to establish or improve processes supporting operations control(equipment, reagent and materials management), process improvement(reengineering/optimization, automation, acceptance criteria for newtechnologies and tech transfer), and quality assurance and customersupport (controlled documentation/SOPs, training, service deficienciesand continual improvement efforts). Implementation and expansion <strong>of</strong>quality programs within unregulated environments demonstrates SAIC-Frederick’s dedication to providing the highest quality products andservices to the NIH community.105 Cornell University Life Sciences CoreLaboratories CenterG. Grills, J. VanEe, P. Schweitzer, S. Zhang,R. Williams, J. Pillardy, Q. Sun, W. Wang, Y. Li,D. Betel, T. Stelick, J. Spisak, L. Cote, R. Cameron,H. Wroblewski, B. Hover, L. Zhang, J. Mosher,Y. Xin, G. Westby, J. Busuttil, S. Monni,R. Sherwood, A.C. Ptak, W. Chen, J. McCardle,C. Bayles, J. Dela Cruz, M. Riccio, R. Bukowski,L. Ponnala, C. Myers, H. Singh, M. Howard,J. Flaherty, A. Manocchia, E. Dodge, K. Smith,C. Aquadro, A. Melnick, T. Brenna, W. Zipfel,A. Clark, A. Siepel, L. Carr, J.K.C. RoseCornell University, Ithaca, NY, United StatesThe Cornell University Life Sciences Core Laboratories Center (CLC)provides an array <strong>of</strong> genomics, proteomics, imaging and informaticsshared research resources and services to the university communityand to outside investigators. The CLC includes fee-for-service research,technology testing and development, and educational components.The Center has seven core facilities, including genomics (DNAsequencing, genotyping, and microarrays), epigenomics, proteomicsand mass spectrometry, microscopy and imaging, bioinformatics, bio-IT, and advanced technology assessment. The CLC is part <strong>of</strong> a NewYork State designated Center for Advanced Technology in Life ScienceEnterprise. The mission <strong>of</strong> the CLC is to promote research in the lifesciences with advanced technologies in a shared resource environment.Use <strong>of</strong> the CLC resources and services is steadily increasing due to thegrowth in the number and types <strong>of</strong> cores in the center, to the expansion<strong>of</strong> existing services and the implementation <strong>of</strong> new core technologies,and to the coordinated integration and synergy <strong>of</strong> services betweenthe CLC cores. Multidisciplinary support for multi-functional instrumentplatforms is implemented by integrated operations <strong>of</strong> the CLC corefacilities. Investigators are <strong>of</strong>fered coordinated project consultationswith the directors and staff <strong>of</strong> all relevant cores during the design,data production and analysis phases <strong>of</strong> their projects. The CLC isinvolved in establishing and supporting multidisciplinary researchprojects that involve both intercampus initiatives and multi-institutionalcollaborations. With a concentration <strong>of</strong> advanced instrumentation andexpertise in their applications, the CLC is a key resource for life sciencesresearch.106 Searchable Core Facility Database:Building Resource BridgesB. Fleming, T. HunterVermont Genetics Network, University <strong>of</strong> Vermont,Burlington, VT, United StatesThe VGN Searchable Core Facility Database (http://vgn.uvm.edu/corefacilities) is a directory <strong>of</strong> Core Facilities primarily focused on NorthAmerica but with entries from around the world. It is a tool intendedto foster collaboration and assist cores in growing their user base andproviding networking opportunities. It is populated with Core Facilitiesthat have voluntarily listed themselves and would like to be contactedby researchers and other core facilities for potential collaborations.Benefits: Allows researchers to locate resources needed for their studies;Provides a channel for facilities to collaborate; and Facilitates cores toreach financial sustainability. Researchers are able to perform searchesonline by service <strong>of</strong>ferings, location, association, and key phrases to finda facility that will best meet their needs. Information listed for individualcores include: short description <strong>of</strong> core, contact name, email, address,services <strong>of</strong>fered, hyperlink to website, equipment, and date <strong>of</strong> lastrevision <strong>of</strong> information. The data can be exported to an excel readableXML file. The database currently lists 292 cores, representing 39 statesplus DC, 104 institutions, and 10 associations.107 Dartmouth Genomics SharedResourcesJ. Hamilton, H. Trask, W. Taylor, C. TomlinsonDartmouth Medical School, Norris Cotton CancerCenter, Hanover, NH, United StatesIn order to carry out an accurate diagnosis, prognosis, and/ortherapeutic assessment for a disease; high-throughput approaches toexamine the whole genome and transcriptome are now a necessity formodern research. Furthermore, to more fully understand the underlyingcauses <strong>of</strong> disease, high-throughput genomics are required to examinePoster Abstracts<strong>ABRF</strong> <strong>2011</strong> — Technologies to Enable Personalized Medicine • 61
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IntegenX, Inc. Booth 2015720 Stoner
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Exhibit Hall FloorplanGrand Oaks Ba
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This workshop will present ways to
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MARCH 16-20, 2012 • DISNEY’S CO