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Genomics and PCR Core (JDC)

Director: Patti, Mary-Elizabeth, M.D.

Location: Joslin Diabetes Center, One Joslin Place, Boston, MA 02215

Core Summary:

Genomic Core: High-density oligonucleotide arrays allow simultaneous and quantitative analysis of expression of thousands of genes and EST and provide an efficient way to determine the full pattern of alterations in gene expression present in a wide variety of experimental conditions and pathologic states. Affymetrix chips are high-density collections of 25-mer oligonucleotides aligned in arrays on a silicon chip.

PCR Core: The PCR Core is part of the Genomics core and provides automated real-time PCR analysis of nucleic acids (e.g. quantitative RT-PCR, allelic discrimination, plus/minus).

Institutions:
  • Joslin Diabetes Center
Personnel/Contact Information:

Director: Patti, Mary-Elizabeth, M.D.
Phone: (617) 735-1966
Email

Member: General Inquiries
Email

Facilities and Equipment:

Location of Core: Joslin Diabetes Center, One Joslin Place, Boston, MA 02215

Major Equipment:

  • ABI Primer Express
  • ABI PRISM 7000 sequence detection system
  • ABI PRISM 7900HT Fast Sequence Detection System with automation
  • ABI PRISM 7900HT sequence detection system
  • Affymetrix Expression Console
  • GeneChip Fluidics Station 400
  • GeneChip Scanner 3000
  • Hybridization Oven 640
  • MJ Research PTC-200 96-well thermocycler
  • NanoDrop ND-1000 spectrophotometer
  • NanoDrop ND-3300 spectrophotometer
Services:
  • Affymetrix Expression Console data analysis service

    "Preliminary analysis of data is done with Affymetrix Expression Console."

  • Arrays services

    "Supported arrays: Affymetrix 3' Expression arrays, Gene arrays, Exon arrays, and Promoter arrays."

  • Bioinformatics services

    "Access to bioinformatics tools and collaboration with bioinformaticians, as part of the BIDMC/JDC/Children's shared NIDDK Biotechnology Center."

  • Data analysis services

    "Access to data analysis, bioinformatics tools available in Genomics Core and tutorials upon request."

  • Experimental design services

    "Assistance with sample preparation (RNA isolation), experimental design, and choice of chips."

  • Hybridization cocktail preparation service

    "Preparation of hybridization cocktails, including internal controls."

  • Hybridization service

    "Hybridization of cRNA samples to test arrays and/or experimental arrays."

  • Hybridization target preparation service

    "Preparation of cDNA for hybridization from total RNA provided by investigator; with spike-in controls."

  • PCR training Service

    "Instruction in RT-PCR setup, operation of SDS software, and operation of PCR machines."

  • Primer database access service

    "Primer database of validated target genes submitted by Joslin users."

  • Primer design services

    "Assistance with design of primers and probes."

  • Real-Time PCR services

    "Assistance with setup of RT-PCR experiments (provide background information about RT-PCR, reagents needed, etc.)."

  • SDS software analysis service

    "Assistance with analysis of results in SDS software and troubleshooting."

  • Secure data storage service

    "Secure data storage, accessible only by investigator/fellow, on our GCOS database."

  • Software training services

    "Instruction with operation of SDS software and operation of ABI Sequence Detection Systems."


Departmental Web Link(s):

Last updated: 2014-08-20T13:05:15.851-05:00