Searching BIOSIS Previews

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SearchingBIOSIS Previews
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If its in the life sciences, BIOSIS products
are the place to start
Kathleen Nealy, Reference Librarian Anschutz
Science Library University of Kansas
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About BIOSIS

• Worlds largest abstracting and indexing service
  for the life sciences
• Not-for-profit Company
• Headquartered in Philadelphia, USA
• European office in York, UK

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BIOSIS Previews

• Biological Abstracts
• Biological Abstracts/RRM(Reports, Reviews
  Meetings)

BIOSIS Previews
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BIOSIS Previews

• Comprehensive coverage ensures that life science
  researchers get the breadth and depth of coverage
  required
• Specialized indexing provides a unified structure
  for diverse information, making search and
  retrieval more effective

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BIOSIS Previews Coverage

• Broadest coverage of life sciences journals and
  books
• The most comprehensive source for meetings,
  conferences and symposia in the life sciences
• Patent coverage gives critical information
• e.g. drug delivery systems, genetic engineering,
  food technology, crop/livestock production

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Statistics

• Over 560,000 records will be added in the current
  year
• Over 12.5 million records are included from 1969
  to date

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Literature Sources

• The only life sciences database to integrate
  coverage of journals books conferences and
  meetings patents
• Integrated coverage means integrated indexing

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Sources

• Over 5,000 international scientific serials
• 1,500 international meetings
• Books
• Reviews
• U. S. Patents

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Geographical Coverage
North America (31)
Asia, Australasia (14)
Central S. America (2)
Europe Middle East (52)
Africa (1)
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Subject Coverage

• Traditional topics
• Interdisciplinary areas
• Related areas

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Specialized indexing for better retrieval

• By life scientists for life scientists
• Specialized indexing provides a unified structure
  for diverse information, making search and
  retrieval more effective
• CAS Registry Numbers and MeSH disease terms make
  searches more effective

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For many of our users BIOSIS Previews has become
the premier database. Our end users realized
that BIOSIS Previews not only complements, but
frequently surpasses Medline. Ben Bowman,
Max-Planck Institute
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BIOSIS Previews with SilverPlatter

• Data from 1969 forward
• CD-ROM
• In a variety of platforms
• WebSPIRS
• ERL
• SilverLinker

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Sample BIOSIS Previews Article Record
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Sample Article Record

• TI Title Successful ribavirin therapy for severe
  adenovirus hemorrhagic cystitis after allogeneic
  marrow transplant from close HLA donors rather
  than distant donors.
• AU Author, Editor, Inventor Miyamura-K a
  Hamaguchi-M Taji-H Kanie-T Kohno-A
  Tanimoto-M Saito-H Kojima-S Matsuyama-T
  Kitaori-K Nagafuji-K Sato-T Kodera-Y
• AD Author Address a First Department of
  Internal Medicine, Nagoya University School of
  Medicine, Tsurumai-cho 65, Showa-ku, Nagoya,
  466-8550, Japan
• SO Source Bone-Marrow-Transplantation. March,
  2000 25 (5) 545-548..
• PY Publication Year 2000
• DT Document Type Article-English
• IS ISSN (International Standard Serial Number)
  0268-3369
• LA Language English
• LS Language of Summary English
• AB Abstract Intravenous ribavirin was given to
  nine patients who had developed severe
  adenovirus-induced hemorrhagic cystitis (AD-HC)
  which was resistant to conventional therapy or
  where there was involvement of other organs after
  allogeneic BMT. Three patients recovered
  completely from AD-HC, two of whom had been
  resistant to vidarabine. All three had received
  sibling BMTs (2 HLA matched, 1 HLA
  mismatched)..
• AI Abstract Indicator Y

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Sample Article Record

• MC Major Concepts Infection- Hematology-
  (Human-Medicine, Medical-Sciences) Pharmacology-
• ST Super Taxa Adenoviridae- Animal-Viruses,
  Viruses-, Microorganisms- Hominidae- Primates-,
  Mammalia-,Vertebrata-, Chordata-, Animalia-
• OR Organisms adenovirus- (Adenoviridae-)
  pathogen human- (Hominidae-) patient, adult
• TN Taxa Notes Animal-Viruses Animals-
  Chordates- Humans- Mammals- Microorganisms-
  Primates- Vertebrates- Viruses-
• CB Chemicals and Biochemicals HLA- ribavirin-
  antiviral-drug
• DS Diseases adenovirus-induced
  hemorrhagic-cystitis AD-HC urologic-disease,
  viral-disease
• RN CAS Registry Number (R) 36791-04-5 RIBAVIRIN
• MQ Methods and Equipment allogeneic-marrow-transp
  lantation therapeutic-method
• MI Miscellaneous Descriptors clinical symptoms
• AN Accession Number 200000170837
• UD Update Code 20000425

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Searching for Record Identification Information

• Accession Number - reference to individual
  record
• Search example
• 200000170837 in AN
• AN200000170837

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Searching for Author Information

• Full first names appear after last names, when
  available
• Up to 100 author names may appear in each record
• Links are provided between Author names and
  Author Address field
• Corporate Source/Author Address includes author
  e-mail and URL, when available

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Searching for Author Information

• Search example Miyamura-K in AU Saito-H nagoya
  university in AD
• Display example (Authors)Miyamura-K a
  Hamaguchi-M Taji-H Kanie-T Kohno-A
  Tanimoto-M Saito-H Kojima-S Matsuyama-T
  Kitaori-K Nagafuji-K Sato-T Kodera-Y
• Display example (Author Address) a First
  Department of Internal Medicine, Nagoya
  University School of Medicine, Tsurumai-cho
  65, Showa-ku, Nagoya, 466-8550, Japan

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Searching for Source Information

• Publication Year PY2000 or 2000 in PY
• Language LAJAPANESE or JAPANESE in LA
• Summary Language
• LSENGLISH or ENGLISH in LS
• Document Type
• DTARTICLE or BOOK in DT

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Searching for Source InformationJournals

• Can be searched using field tag SO for journal
  name, volume, issue, pagination, and publication
  year.
• Journal URL included, when available

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Searching for Source InformationJournals

• Search exampleSObone-marrow-transplantationSO
  New-England-Journal-of-MedicineSOCell-
• BIOSIS Serial Sources provides a complete journal
  list

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Searching for Source InformationJournals

• ISSN International Standard Serial 0268-3369
  in IS

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Searching for Source Information Meetings

• Search for Meeting Information using Document
  Type (DT) Meeting (MT ) Sponsor (SP)

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Searching for Source Information Books

• Locate all books by using Document Type
• DT Book
• Search for specific books using ISBN
• 9058091023 in IB

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Searching for Source Information U.S. Patents and
Software Reviews

• Search for Patent information using the Document
  Type
• Additional fields are available
• Search Software Review in Document Type field
• DTsoftware review

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Searching for Subject InformationSearching
natural language terms

• BIOSIS Previews is largely a natural language
  database
• When searching for specific subjects, make
  liberal use of
• Free text
• Truncation
• Abbreviations

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Controlled Vocabulary(Authority File)

• Controlled vocabulary file
• A file built on the strengths of natural language
• Also available on the BIOSIS website www.biosis.o
  rg/authorityfile.html

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Controlled Vocabulary Authority File Branches
(Thesaurus)

• Major Concepts
• Organism
• New Taxon modifiers
• Fossil modifiers
• Super Taxa
• Taxa Notes
• Diseases
• Disease modifiers
• Parts, Structures, Systems
• Organ System modifiers

• Chemicals Biochemicals
• Drug modifiers
• Sequence Data
• Sequence type modifiers
• Geographical Name
• Institutions and Organizations
• Institution type modifiers

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Accessing the Controlled VocabularyThesaurus

• TERM DETAIL FOR Pharmacology
• SCOPE NOTE The development or use of
• drugs for the diagnosis, prevention, or treatment
  of
• disease in animals and humans includes drug
• design, testing and clinical trials, drug
• pharmacokinetics, and pharmacodynamics
• studies.
• Tree 1 of 1 Major Concepts
• Major Concept Terms
• Pharmacology Pharmaceuticals Pharmacognosy

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Accessing the Controlled VocabularyThesaurus

• From the Term Details screen you have several
  options
• Explode Term
• Single-Term Search
• Back
• Add to list

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Searching the Subject Terms FieldTS

• Simultaneously searches
• alternate indexing major concepts
• super taxa methods equipment
• chemicals biochemicals miscellaneous
  descriptors
• institutions organizations registry
  numbersdiseases organism names
• geopolitical location sequence data
• industry parts, structures systems taxa
  notes time persons

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Searching for Subject InformationImproving
precision

• Limit searches to specific fields
• Turkey yields 759 hits (no field limit)
• Turkey in TI,TS yields 692 hits (Title Subject
  Terms)
• Turkey in GE yields 399 hits (Geopolitical
  Location)
• Turkey in OR yields 245 hits (Organism)

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Controlled vs Non-controlled terms
Check application for broader and/or narrower
terms, as well as related terms and scope notes
Search completed successfully
Qualify search term(s) by using controlled
vocabulary lists (Authority File) or the BIOSIS
Search Guides Vocabulary Guide section
YES
YES
Are the search term(s) controlled? Check synonyms
and variants (singular/plural etc.)
Carry out search, expand if necessary
Review results for relevancy. Relevant?
NO
NO
Depending on your search strategy, include more
controlled and/or non controlled terms to
refine/broaden your search
Search as non controlled term(s) using natural
language including any synonyms, variants
(singular/plural) etc.
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Searching for Subject InformationIndexing syntax
Classifier
Key Term
Modifier
Variant
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Searching for Subject InformationIndexing syntax
example
Diptera
Drosophila melanogaster
pest
fruit fly
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Organization of Subject InformationSubject
Indexing fields
Higher level taxonomic terms
Sentence 1
Sentence 2
Organisms Plasmodium-falciparum (Sporozoa-)
parasite- human- (Hominidae-) host-, child-
roles
Taxa Notes animals- chordates- humans-
invertebrates- mammals- primates- protozoans-
vertebrates-
Disease modifiers
Diseases malaria- blood-and-lymphatic-disease,
parasitic-disease
Synonyms
Drug modifiers
Chemicals pyrimethamine-dapsone Maloprim-
antiparasitic-drug, antiprotozoal-drugBiochemical
s chemoprophylaxis-, efficacy-, side-effects
chloroquine- antiparasitic-drug, antiprotozoal-d
rug, chemoprophylaxis-, efficacy-, side-effects
Specific geographic terms
Geopolitical Tanzania- (Africa-,
Ethiopian-region) Kilombero-DistrictLocation
Higher level geographic terms
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Searching for Subject Information

• Broad topics Major Concepts Concept Codes
• Specific topics Title Subject Terms Individual
  subject fields

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Searching for Broad SubjectsMajor Concepts

• Controlled terms for broad subjects emphasized by
  the author
• Use Controlled Vocabulary (Authority File) to
  locate suitable terms
• Search example hematology in MC medical
  sciences in MC pharmacology in MC
• Display example Infection- Hematology-
  (Human-Medicine, Medical-Sciences) Pharmacology-

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Searching for Broad SubjectsConcept Codes

• Five-digit codes representing broad topics in the
  life sciences
• Consult the BIOSIS Search Guide for a complete
  list of Concept Codes
• Concept Code names can be searched using CN

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Searching for Broad SubjectsConcept Codes

• 98 Concept Code groups can be cascaded to three
  digits
• Search five-digit codescc15506 in CC (for
  Urinary System Pathology)
• OR
• Search Code groupingscc155 in CC (for all
  Urinary System codes)

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Searching for Specific TopicsTitle Abstract

• As written by the author
• U.S. or British spelling
• Abbreviated or spelled out forms
• Truncation
• Synonyms
• Book synopses
• Search example
• marrow transplant in TI
• ribavirin therapy in AB

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Searching for Specific SubjectsParts, Structures
Systems

• Contains components above the macromolecular
  level (e.g. organ systems, body parts)
• Controlled Vocabulary (Authority File) contains
  organ system modifiers
• Search example digestive-system in PS
• Display examples cerebellum- nervous-system
  liver-tissue digestive-system, postmortem-

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Searching for Specific SubjectsDiseases

• Search for human, animal, or plant diseases,
  disorders or pathologies
• Controlled Vocabulary (Authority File) contains
  controlled disease modifiers
• Corresponding MeSH term appears in the Alternate
  Indexing field
• Search example viral-disease in DS hemorrrhagic
  cystitis in DS
• Display example adenovirus-induced-hemorrhagic-cy
  stitis AD-HC urologic-disease, viral-disease

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Searching for Specific SubjectsAlternate Indexing

• MeSH disease terminology
• Search example arthritis rheumatoid in ALT
• Display example Alternate Indexing
  Arthritis,-Rheumatoid-(MeSH) Diseases
  rheumatoid-arthritis connective-
  tissue-disease, immune-system-disease

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Searching for Specific SubjectsAlternate
Indexing MeSH Examples

• BIOSIS Diseases field
• prostate-cancer neoplastic-disease,
  reproductive-system-disease/male
• cancer neoplastic-disease leukemia
  blood-and-lymphatic disease, neoplastic-disease

• Alternate Indexing
• Prostatic-neoplasms- (MeSH)
• Leukemia-(MeSH) Neoplasms-(MeSH)

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Searching for Specific SubjectsChemicals
Biochemicals

• Chemical names are as given in the paper.
• Locate controlled Drug modifiers in the
  Controlled Vocabulary (Authority File)
• Search examples ribavirin in CB hla in CB
• Display example HLA- ribavirin- antiviral-drug

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Searching for Specific SubjectsChemicals
Biochemicals Gene Name

• Gene name plus organism from which it is isolated
  indexed in Chemical Names field
• Examples Human-MDM2-gene (Hominidae-)
  protooncogene-
• Rat-E2A-gene (Muridae-)

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Searching for Specific SubjectsCAS Registry
Numbers

• CAS Registry Numbers assigned to chemicals,
  followed by chemical name
• Search example
• 36791-04-5 in RN
• Display example
• 36791-04-5 RIBAVIRIN

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Searching for Specific SubjectsMethods and
Equipment

• Includes methods, apparatus or scientific
  techniques studied in the item
• Search using free text terms
• Search example allogeneic marrow transplantation
  in MQ therapeutic method in MQ
• Display example allogeneic-marrow-transplantation
  therapeutic- method

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Searching for Specific SubjectsSequence Data

• Sequence Data includes databank accession numbers
  or other macromolecular sequence information
• Controlled Vocabulary (Authority File) includes
  three sequence type terms
• Search example AF001177 in SD
• Display example AF001177- GenBank-,
  amino-acid-sequence U89896- GenBank-,
  amino-acid-sequence, nucleotide- sequence

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Searching for Specific SubjectsTime (Geologic)

• Includes archeological time, climatic, historic
  and geologic time periods
• Search example Paleozoic in TM
• Display examples Cambrian- Paleozoic-
  Devonian- Ordovician- Paleozoic-
  Silurian- 21st century 18th century

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Searching for Specific SubjectsGeopolitical
Location

• Includes country, continent and zoogeographical
  regions
• Locate suitable terms using the Controlled
  Vocabulary (Authority File)
• Search example
• BRAZIL in GE
• BRAZIL in TS
• Display example Arizona- (USA-, North-America,
  Nearctic-Region) Brazil- (South-America,
  Neotropical-region) Caruaru-

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Searching for Specific SubjectsPerson

• Provides information on people discussed in the
  item
• Search example Charles Darwin in NP Albert
  Einstein in NP
• Display example Charles Darwin Albert Einstein,
  inventor

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Searching for Specific SubjectsIndustry

• Contains industry types discussed in the item
• Search examples biotechnology industry in
  IN pharmaceutical industry in IN
• Display example pharmaceutical
  industry biotechnology industry

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Searching for Specific SubjectsInstitutions
Organizations

• Contains information on named companies discussed
  in the item, and the type of institution
  discussed
• Controlled Institution Type modifiers
• Search example Braun in NC Monsanto in NC
• Display example Monsanto Company,
  company/organization

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Searching for Specific SubjectsMiscellaneous
Descriptors

• Field includes additional words and phrases not
  indexed to specific fields
• Search example clinical symptoms in MI
• Display example clinical-symptoms immune-cell-ac
  tivation inflammatory- mediator-release
  meeting-abstract

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Searching for Organisms

• Broad organism groups Super Taxa Taxa
  Notes Biosystematic Codes
• Specific organisms Organisms Title Miscellaneou
  s Descriptors

Controlled Vocabulary(Thesaurus)
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Searching for Broad Organism GroupsSuper Taxa

• Higher level taxonomic terms that allow searching
  broad categories of organisms using hierarchical
  scientific names
• Use the Controlled Vocabulary (Authority File) to
  locate appropriate terms
• Search example viruses in ST hominidae in ST
• Display example Adenoviridae- Animal-Viruses,
  Viruses-, Microorganisms- Hominidae-
  Primates-, Mammalia-, Vertebrata-, Chordata-,
  Animalia-

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Searching for Broad Organism GroupsTaxa Notes

• Common names of broad groups of organisms
• Use the Controlled Vocabulary (Authority File) to
  locate suitable terms
• Search examples animal viruses in TN humans in
  TN
• Display example Animal-Viruses Animals-
  Chordates- Humans- Mammals- Microorganisms-
  Primates- Vertebrates- Viruses-

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Searching for Broad Organism Groups
Biosystematic Codes

• Five-digit codes representing broad organism
  groups
• Search example bc86215 in BC bc02610 in BC

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Searching for Specific OrganismsOrganisms

• Includes specific scientific or common name
  followed by higher taxonomic category and
  modifying terms
• Search examples human in OR (bottlenose
  dolphin OR tursiops truncatus) in OR adenovirus
  in OR
• Display example Adenovirus- (Adenoviridae-)
  pathogen- human- (Hominidae-) host-, patient-
• bottlenose-dolphin (Delphinidae-)

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Searching for Specific OrganismsOrganisms

• Non controlled modifiers are linked to the
  organism name and may include race, gender,
  developmental stages, roles etc.
• Search organism linked to modifiers using the
  NEAR
• Search examples (human NEAR patient) in
  OR (acarina NEAR new-species) in OR (rat NEAR
  animal model) in OR
• Display examples Adenovirus- (Adenoviridae-)
  pathogen- human- (Hominidae-) patient- rat-
  (Muridae-) animal-model Equus-caballus
  horse- (Equidae-)

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Searching for Specific OrganismsNew Taxon
Modifiers

• Controlled terms representing newly classified
  taxonomic groupings
• Use the Controlled Vocabulary (Authority File) to
  identify suitable terms
• Search example (diptera NEAR new-genus) in OR
• Display example Lambrusca- (Diptera-)
  Tachinidae-, description-, new-genus

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Searching for Specific OrganismsFossil Modifiers

• Identifies the organism as fossil
• Three Controlled Vocabulary (Authority File)
  terms
• Search example (coniferopsida NEAR paleobotany
  NEAR new-species) in OR
• Display example Sigmaphyllum-tasmanensis
  (Coniferopsida-) new-species, paleobotany-

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Benefits of Organism Indexing

• Improves search relevancy and precision
• Controlled Vocabulary (Authority File) search
  commands facilitate searching broader and
  narrower organism groups
• Controlled Vocabulary (Authority File)
  facilitates searching for new taxa and
  identifying fossil species

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Searching for Humans

• Search for humans ashuman in ORhumans in
  TNHominidae in OR includes fossil species
• Use appropriate modifiers for gender,
  developmental stages, etc
• Search example (human NEAR female) IN OR
• Display example human- (Hominidae-) female-,
  patient-, child-

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Search Tips for Drugs/Chemicals

• Use the Controlled Vocabulary (Authority File) to
  identify controlled drug modifiers for drug
  actions
• Include as many drug modifiers as appropriate
• The most specific modifier is applied in the
  record
• Use the link operator between the drug name and
  modifier to specify particular actions
• Use synonyms and variants including trade names
  for complete retrieval
• Consider using registry number

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Field enhancements - SilverPlatter
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Search principles

• Pose the question
• Identify the main topics
• Determine how to search the main topics
• Carry out the search
• Review results and modify if necessary

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Sample Question 1

• Which animal models are used to study Alzheimers
  disease?
• For maximum retrieval(animal model AND
  alzheimer) in TI,TS
• For increased relevancyanimal model in OR AND
  Alzheimer in DS

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Sample Question 2

• Find references on the use of ibuprofen for fever
  and headache
• For maximum retrieval
• ((IBUPROFEN OR MOTRIN) AND
• ANTIPYRETIC AND ANALGESIC) IN TI,TS
• For increased relevancy(IBUPROFEN OR MOTRIN)
  NEAR (ANTIPYRETIC AND ANALGESIC) IN CB
• 15687-27-1 in RN AND (antipyretic and analgesic)
  in CB

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Sample Question 3

• What information is available on population
  studies of humpback whales in the North Pacific?
• For maximum retrieval(population studies AND
  (megaptera novaeangliae or humpback whale) AND
  north pacific) in TI,TS
• For increased relevancypopulation studies in MC
  AND (megaptera novaeangliae or humpback whale)
  in OR AND north pacific in GE

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Controlled vs Non-controlled terms
Check application for broader and/or narrower
terms, as well as related terms and scope notes
Search completed successfully
Qualify search term(s) by using controlled
vocabulary lists (Authority File) or the BIOSIS
Search Guides Vocabulary Guide section
YES
YES
Are the search term(s) controlled? Check synonyms
and variants (singular/plural etc.)
Carry out search, expand if necessary
Review results for relevancy. Relevant?
NO
NO
Depending on your search strategy, include more
controlled and/or non controlled terms to
refine/broaden your search
Search as non controlled term(s) using natural
language including any synonyms, variants
(singular/plural) etc.
76
Limit features on SilverPlatter

• Publication year py2000 pygt1998 py1998-1999
• Document Type
• Languages
• Summary Languages
• Abstract Indicator
• Update

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Updates

• CD-ROM
• Monthly updates
• Weekly available via SilverPlatters QUICKdata
  Internet download for networked ERL installations
• Web
• Weekly
• Search example 20001128 in UD UD20001128

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Questions???
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BIOSIS Search Guide
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The BIOSIS Search Guide

• Editorial Policies
• Search System Information
• Vocabulary Usage guide
• Taxonomic Guide
• Concept Code Directory
• Controlled Vocabulary (Authority File)
• Searching Fundamentals

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Using the BIOSIS Search Guide

• Locate the search topics in the Vocabulary Guide
  section
• Attempt to find controlled terminology and check
  relevancy in scope notes
• Generally search terms in Title or
  Descriptors/Keywords, but use specific fields or
  broader controlled terms to place topics in
  context

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Comparisons

• Comparison of BIOSIS Previews with other life
  science databases

83
BIOSIS/MedLine/EMBASE Serials
BIOSIS vs MedLine
BIOSIS vs EMBASE
84
BIOSIS/MedLine/EMBASEPrimary Emphasis
BIOSIS All life science areas, including Agricult
ure Biochemistry Biomedicine Biotechnology Botany
Ecology Environmental Sciences Genetics Microbiolo
gy Pharmacology
EMBASE Drug Research Pharmacology Human
Medicine Basic Biological Research Health Policy
Management Public, Occupational and
Environmental Health Substance Dependence
Abuse Psychiatry Forensic Science Biomedical
Engineering Instrumentation
MedLine Biomedicine, including Clinical
Medicine Experimental Medicine
Nursing Dentistry Public Health Genetics Toxicolo
gy Pharmacology Allied Health Sciences
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BIOSIS/MedLine/EMBASE Value added indexing
EMBASE Hierarchical tree Drug indexing Trade
names Manufacturer names Routes of
administration Clinical Trials
BIOSIS Relational Indexing Controlled natural
language keywords Broad subject codes Broad
organism group codes Supertaxa
MedLine Hierarchical medical tree Topical
subheadings Check tags
86
BIOSIS/Web of Science/CSA Serials
BIOSIS vs ISI Web of Science (SCI Expanded)
BIOSIS vs Cambridge Scientific Abstracts
87
Contact Support
88
BIOSIS Support Services

• 1999/2000 Search Guide
• Web updates
• Workshops
• Brochures
• Quick Reference Cards
• Newsletter BIOSIS Evolutions
• World Wide Website
• Interactive Training Program
• www.biosis.org

89
BIOSIS Support ServicesHelp Desks

• US Office
• Tel [phone] (US Canada)
• 1 215 587 4800 (Worldwide)
• Fax [phone]
• Email info_at_mail.biosis.org
• UK Office
• Tel [phone]
• Fax [phone]
• Email helpdesk_at_york.biosis.org

90
BIOSIS Support Services - Japan

• 1999/2000 Search Guide
• Workshops
• Brochures
• Quick Reference Cards
• Newsletter BIOSIS Evolutions
• Help Desk
• Fax [phone]
• World Wide Website
• Interactive Training Program
• www.biosis.org