PubMed Session I - Getting Started: PCB3063 Term Project...

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Getting Started: PCB3063 Term Project and NCBI’s OMIM, PubMed and Sequence Resources Michele R. Tennant, Ph.D., M.L.I.S. Health Science Center Libraries/ U.F. Genetics Institute PCB3063, General Genetics [email protected]
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Today’s Session Your term project Resources to help you with your project … • HSCL Website, Catalog, etc. • NCBI Resources: OMIM – “review articles” PubMed – journal articles Nucleotides/RefSeq – gene sequences Receive your term project topic
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Your Term Project Scientific poster on an assigned genetic disorder Should cover all aspects of genetics – • Mode of inheritance • What gene normally does • What protein is encoded by gene • Map location and gene structure • Types of mutations and what they do to protein • Potential for gene therapy • Etc. (more info next time)
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Your Term Project Four assignments for your project: Part A: Identify disorder/gene in OMIM and MeSH Sakai assessment by start of class Feb. 10 Part B: Literature and sequence searches Sakai assessment by start of class Feb. 24 AND paper form and search print-outs in class Feb. 24 Part C: Structure, SNP, map and clinical db searches Sakai assessment by start of class Mar. 24 AND paper form and search print-outs in class Mar. 24 Poster Presentations – Apr. 14 Note – keep Parts A, B, and C (and the corresponding search print-outs) once they are returned to you; you may need to resubmit them with your poster.
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NCBI National Center for Biotechnology Information Located on the Bethesda National Institutes of Health campus Part of the National Library of Medicine (NLM), which is part of the NIH Created by Congress in 1988 Home of GenBank since 1992
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NCBI Mandates Develop automated systems for the storage, retrieval, and analysis of molecular, genetic and biochemical information Develop software for the study of molecule structure and function
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NCBI Mandates Facilitate the use of molecular databases and programs by both researchers and clinicians Coordinate international cooperation in gathering molecular, genetics and biochemical data
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Effective Searchers . .. know the content of the database • subjects, type of data, years of coverage, curated vs. non-curated understand the structure of the database • record structure, searchable fields, controlled vs non-controlled vocabularies understand searching options and tools • thesaurus, limits, AND/OR, etc.
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Entrez Search tool on the NCBI website Contains a variety of databases: • Nucleotide sequence; Protein sequence; Molecular structure; SNPs; Expression data; Journal literature • Each “database” contains “records” • Each “record” in database contains “fields”
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Entrez Search Options Similar among the various databases • Entrez conventions: AND, OR, NOT, * • Three ways to search: Basic: just enter your search terms Advanced: more controlled search - uses limits,
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This note was uploaded on 06/08/2011 for the course PCB 3063 taught by Professor Marta during the Spring '08 term at University of Florida.

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PubMed Session I - Getting Started: PCB3063 Term Project...

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