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  • Services — RCMI (2011-2016)
    compare quantitation levels The spot picker automatically cuts the protein gel spots to be identified using the LTQ XL MS MS Protein identification A topnotch LTQ XL tandem mass spectrometer from Thermo Scientific is available and configured for maximum coverage in protein identification It can also be configured for better detection of post translational modifications and other experiments of interest This mass spectrometer features multiple dissociation techniques Pulsed Q Dissociation Electron Transfer Dissociation Collision Induced Dissociation capabilities extensive coverage for predicted and unpredicted metabolites fast polarity switching for high sensitivity analysis of unknowns Intelligent Data Dependent TM acquisition and a platform for high resolution accurate mass hybrids Immunoprecipitation and in bead digestion for studies of protein interactions Monoclonal antibodies against a targeted protein can be used for protein specific immunoprecipitation from a given sample using a IP WB kit Samples are pre cleared by immunoprecipitation with beads for 1 hour and the samples are incubated with antibody conjugated beads overnight followed by several washes Pre cleared samples are incubated with unconjugated beads as controls for non specific binding Immunoprecipitated proteins are digested in solution by an overnight incubation with trypsin 0 1 µg µl at 37 C Peptides are extracted 60 acetonitrile with 0 1 trifluoroacetic acid TFA dried and then re suspended 0 5 TFA prior to purification using ZipTip Millipore Corporation Billerica MA Peptides are re suspended in 2 acetonitrile with 0 1 formic acid prior to fractionation on a microcapillary RP C 18 column New Objectives Woburn MA Peptides are then fragmented and sequenced using a LTQ XL MS MS ThermoElectron Thermo Fisher Scientific Walthan MA The spectra obtained were searched against UniProtKB Swiss prot fasta indexed for human proteins using the Turbo SEQUEST search engine BioWorks 3 2 Protein hits are subjected to exclusion criteria and accepted as positive with high confidence if two or more unique peptides were sequenced per protein Immunoprecipitation and protein identification experiments are performed with two biological replicates Quantitative Proteomics Proteomics is a science that encompasses much more than just identifying proteins in a sample The proteome is dynamic and constantly changing to adapt to new environments and thus differences in abundance of certain proteins at a given time can give insights into what changes are occurring at a molecular level that may explain diseases and symptoms In quantitative proteomics differentially labeled samples are combined and analyzed together using a mass spectrometer The differences in the peak intensities of the labeled pooled samples or isotope pairs accurately reflect difference in the abundance of the corresponding proteins at a given time point The RCMI Translational Proteomics Center has incorporated methods for sample preparation and corresponding analysis software such as Isobaric Tag for Relative and Absolute Quantitation iTRAQ Isotope Coded Affinity Tags ICAT Stable Isotope Labeling with Amino Acids in Cell Culture SILAC and O 18 labeling Dr Serrano We are currently in the process of incorporating a relatively new approach to quantitation using label free methods However collaboration with other Mass Spectrometry

    Original URL path: http://rcmi.rcm.upr.edu/resreso/corefacnetwork/tpc/services (2015-11-01)
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  • Seminars Series and Journal Club — RCMI (2011-2016)
    In addition local investigators are given the opportunity to share their data and knowledge among the scientific community A Proteomics Journal Club has been established to discuss cutting edge articles in the field among the scientific community and meets once a month An e mail with the schedule of journal club will be send by the Key Proteomics Director at the beginning of each semester to the current user group for sign up To receive information on our seminars and journal club please join the Proteomics electronic mailing list by going to http rcmiweb rcm upr edu mailman listinfo proteomics and subscribing If you need further assistance please contact the Core s personnel Navigation Research Resources Core Facilities Network Translational Proteomics Center Staff Specialized Instrumentation Services Seminars Series and Journal Club Guidelines for Use Acknowledgment of RCMI Support Center for Genomics in Health Disparities and Rare Diseases Translational Neuroscience Program Infectious and Global Diseases Research Program CentIT2 RCMI Affiliated Facilities RCMI E Ticket System Guidelines for Core Facilities Collaborations Partnerships Our YouTube Channel Twitter eagle i WebNews Our monthly newsletter Contact us Emma Fernández Repollet Ph D Principal Investigator RCMI Program Room 621 A 6th floor Guillermo Arbona Building Medical Sciences Campus GPO Box 365067 San Juan PR 00936 5067 Email e fernandez upr edu Voice 787 763 9401 FAX 787 758 5206 UPR Acknowledgement of Funding This program is funded by RCMI grant G12 MD007600 National Institute on Minority Health and Health Disparities from the National Institutes of Health Please use this number to acknowledge support November 2015 November Su Mo Tu We Th Fr Sa 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 Upcoming Events NeuroAIDS

    Original URL path: http://rcmi.rcm.upr.edu/resreso/corefacnetwork/tpc/proteo_sem (2015-11-01)
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  • Guidelines for Use — RCMI (2011-2016)
    then overnight Peptide extraction 10 hrs Zip tip clean up 10 hrs MS MS 2 days Database search 2hrs sample Note MS MS experiments can only be stopped after step 3 by storing samples at 80C and after step 4 until analysis Rules of operation All users will be required to meet with Dr Juliana Pérez Laspiur and complete the Project Registration Form Appendix A prior to be included in the Center s research calendar and waiting lists Users will be placed on a waiting list if instruments are not immediately available All investigators interested in using our facility must cover the cost for sample preparation and analysis Universal Safety Precautions apply for the use of these instruments Additional precautions will be explained in the facility and will be communicated to all users All projects must have the corresponding up to date Biosafety IRB and Animal Use and Care Committee approvals from the appropriate institution prior to starting Proteomics analyses please provide copy of the approval letters with the Registration Form As an NIH funded facility we are required to compile information on our user s progress for external evaluation The RCMI Translational Proteomics Center is evaluated yearly and its success is evidenced by the number of scholarly publications presentations grant submissions and funding and participation in Seminar series and Journal Club of our users Principal Investigators are required to certify in written form that they will provide evidence of any report poster presentation oral presentation and manuscript or research proposal which includes data or analysis performed at the Translational Proteomics Center and give proper credit by acknowledging RCMI Support G12RR03051 Reports The Proteomics core will provide a general report summary including generic methods to Principal investigators at the end of the study During the study PIs are encouraged to be involved in all parts of experiments and analyses core personnel will provide written communication with news and progress of the study The general report for DIGE will include a table with spots numbers p values and expression fold changes of all detected spots in a study Pictures of spots and gels are available upon request and can also be accessed by the PI or graduate student with the DIGE DECYDER Program located in the Proteomics Core It is the responsibility of the PIs to prepare reports pictures tables and graphs for proposals manuscripts and progress reports For MS MS a list of identified proteins that pass our exclusion criteria with peptide sequences will be provided in a table format with a generic method section to facilitate report manuscript preparation Further analysis preparation of reports manuscripts organization and integration of data relative to the system of interest and any further bioinformatics analysis and validation is responsibility of the PI Drs Melendez and Perez Laspiur are available to collaborate in manuscript review prior to submission Instrumentation and consultation for protein validation by ELISA and Western blots is also available at the Translational Proteomics Center Download Guidelines PDF Navigation Research Resources Core

    Original URL path: http://rcmi.rcm.upr.edu/resreso/corefacnetwork/tpc/guides_prot (2015-11-01)
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  • Acknowledgment of RCMI Support — RCMI (2011-2016)
    Floor UPR Medical Sciences Campus so that it can be included in the program s reports Navigation Research Resources Core Facilities Network Translational Proteomics Center Staff Specialized Instrumentation Services Seminars Series and Journal Club Guidelines for Use Acknowledgment of RCMI Support Center for Genomics in Health Disparities and Rare Diseases Translational Neuroscience Program Infectious and Global Diseases Research Program CentIT2 RCMI Affiliated Facilities RCMI E Ticket System Guidelines for Core Facilities Collaborations Partnerships Our YouTube Channel Twitter eagle i WebNews Our monthly newsletter Contact us Emma Fernández Repollet Ph D Principal Investigator RCMI Program Room 621 A 6th floor Guillermo Arbona Building Medical Sciences Campus GPO Box 365067 San Juan PR 00936 5067 Email e fernandez upr edu Voice 787 763 9401 FAX 787 758 5206 UPR Acknowledgement of Funding This program is funded by RCMI grant G12 MD007600 National Institute on Minority Health and Health Disparities from the National Institutes of Health Please use this number to acknowledge support November 2015 November Su Mo Tu We Th Fr Sa 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30

    Original URL path: http://rcmi.rcm.upr.edu/resreso/corefacnetwork/tpc/acknowlprot (2015-11-01)
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  • Center for Genomics in Health Disparities and Rare Diseases — RCMI (2011-2016)
    organisms and biological samples for nucleic acids sequence analysis in general The Center organizes a series of seminars and training workshops focused on pharmacogenomics genetic diseases and molecular biology to further advance the expertise of our scientists and to strengthen collaborations among basic and clinical scientists both locally and internationally The specific aims of the Center for Genomics in Health Disparities and Rare Diseases are To develop a multidisciplinary collaborative research program that supports local national and international scientists working in pharmacogenomics human genomics and molecular biology by providing efficient and specialized core laboratory services including technical support consulting training and DNA banking capabilities To develop a structured training program in translational research by providing training activities and support for the development of young scientists as well as established basic and clinical researchers in pharmacogenomics human genetics and genomics and molecular biology To develop a Translational Genomics Network that stimulates new scientists both clinical and basic to become actively engaged in projects that employ pharmacogenomics human genetics and genomics and molecular biology approaches in order to leverage on local and national resources such as the PRCTRC and the RTRN Contacts Carmen L Cadilla Ph D Director Human Genetics Email carmen cadilla upr edu Telephone 787 758 2525 Ext 1638 1372 José R Rodríguez Medina Ph D Director Molecular Biology Email jose rodriguez123 upr edu Telephone 787 758 2525 Ext 1633 2299 Location Department of Biochemistry 6th Floor Labs A 621 A 639 UPR Medical Sciences Campus Navigation Research Resources Core Facilities Network Translational Proteomics Center Center for Genomics in Health Disparities and Rare Diseases Staff Specialized Instrumentation Services and Applications Guidelines for Use Acknowledgment of RCMI Support Translational Neuroscience Program Infectious and Global Diseases Research Program CentIT2 RCMI Affiliated Facilities RCMI E Ticket System Guidelines for Core Facilities Collaborations Partnerships

    Original URL path: http://rcmi.rcm.upr.edu/resreso/corefacnetwork/cghdrd (2015-11-01)
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  • Translational Neurosciences Program — RCMI (2011-2016)
    diverse in scope these investigations are unified by certain methodological considerations and requirements They also share a need to detect specific proteins messenger RNAs or physiological events within complex three dimensional structures This detection must often be achieved with very high levels of spatial and or temporal resolution that can only be accomplished with modern neuroimaging approaches The goal of the Translational Neuroscience Program is to integrate cutting edge imaging facilities and instrumentation with existing RCMI Molecular Neurobiology and Neurogenetics cores and technological support Additional objectives are to promote the capacity for the neuroscientists of Puerto Rico to participate in local national and global networking initiatives and to disseminate knowledge concerning neurological health disparities to the larger community The Translational Neuroscience Program agenda will be advanced by the three specific aims Specific Aim 1 To enhance the RCMI Neurogenetics and Molecular Neurobiology Core Facilities with advanced NeuroImaging instrumentation and infrastructure Specific Aim 2 To support programmatic activities that will promote dialogue and collaboration with other RCMI core facilities and between the basic and clinical Neuroscience communities Specific Aim 3 To stimulate national an international networking between investigators addressing health disparities in neurological disorders Contact Mark Miller Ph D Director Email mark miller upr edu Telephone 787 724 4149 Exts 230 271 Location Institute of Neurobiology 201 Calle Norzagaray Old San Juan Navigation Research Resources Core Facilities Network Translational Proteomics Center Center for Genomics in Health Disparities and Rare Diseases Translational Neuroscience Program Staff Specialized Instrumentation Services Guidelines for Use Acknowledgment of RCMI Support Infectious and Global Diseases Research Program CentIT2 RCMI Affiliated Facilities RCMI E Ticket System Guidelines for Core Facilities Collaborations Partnerships Our YouTube Channel Twitter eagle i WebNews Our monthly newsletter Contact us Emma Fernández Repollet Ph D Principal Investigator RCMI Program Room 621 A 6th floor Guillermo

    Original URL path: http://rcmi.rcm.upr.edu/resreso/corefacnetwork/tnp (2015-11-01)
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  • CentIT2: The Center for Information Technologies and Telecommunications — RCMI (2011-2016)
    global dissemination of information about Medical Sciences Campus research capabilities resources activities and contributions to global health and health disparities research Services related to this specific aim include the creation of a comprehensive RCMI Portal support in the use of general as well as private social network technologies limited video production capabilities for posting in the RCMI YouTube Channel development of content specific online resources and creation of group specific list servers Specific Aim 3 To provide information technology services to reengineer and support operations of RCMI Key Activities as well as operations of other cores and facilities These services include consultation on database creation and management optional centralization of research databases assistance in the implementation of laboratory management system software LIMS optional centralized server management and backup systems and technical support for software and hardware Contact José G Conde Santiago M D M P H Director CentIT2 email jose conde1 upr edu Telephone 787 758 25252 exts 1620 and 1621 or direct 787 763 9401 Location Rooms BB 42 A Basement Main Building Medical Sciences Campus Navigation Research Resources Core Facilities Network Translational Proteomics Center Center for Genomics in Health Disparities and Rare Diseases Translational Neuroscience Program Infectious and Global Diseases Research Program CentIT2 CentIT2 Staff Services Hardware and Software Tools Guidelines for Use Acknowledgment of RCMI Support RCMI Affiliated Facilities RCMI E Ticket System Guidelines for Core Facilities Collaborations Partnerships Our YouTube Channel Twitter eagle i WebNews Our monthly newsletter Contact us Emma Fernández Repollet Ph D Principal Investigator RCMI Program Room 621 A 6th floor Guillermo Arbona Building Medical Sciences Campus GPO Box 365067 San Juan PR 00936 5067 Email e fernandez upr edu Voice 787 763 9401 FAX 787 758 5206 UPR Acknowledgement of Funding This program is funded by RCMI grant G12 MD007600 National Institute

    Original URL path: http://rcmi.rcm.upr.edu/resreso/corefacnetwork/centit2 (2015-11-01)
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  • RCMI Affiliated Facilities — RCMI (2011-2016)
    Central Electron Microscopy Unit CEMU Flow Cytometry Unit FCU Shared Instrumentation Facility RCMI E Ticket System Guidelines for Core Facilities Collaborations Partnerships Our YouTube Channel Twitter eagle i WebNews Our monthly newsletter Contact us Emma Fernández Repollet Ph D Principal Investigator RCMI Program Room 621 A 6th floor Guillermo Arbona Building Medical Sciences Campus GPO Box 365067 San Juan PR 00936 5067 Email e fernandez upr edu Voice 787 763 9401 FAX 787 758 5206 UPR Acknowledgement of Funding This program is funded by RCMI grant G12 MD007600 National Institute on Minority Health and Health Disparities from the National Institutes of Health Please use this number to acknowledge support November 2015 November Su Mo Tu We Th Fr Sa 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 Upcoming Events NeuroAIDS A Tango of HIV and the Host Nov 17 2015 12 00 PM 01 00 PM Amphitheater 6th floor Guillermo Arbona Bldg Medical Sciences Campus 2nd International Symposium of Health Informatics in Latin America and the Caribbean Nov 20 2015 Nov 22 2015 San Juan Marriott Resort Stellaris

    Original URL path: http://rcmi.rcm.upr.edu/resreso/corefacnetwork/affiliatedfacs (2015-11-01)
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