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Part 1. “Traditional Biology”
Agriculture, Food, Nutrition
Medicine & Nursing
Physiology
Pharmacy Science & Pharmacology
Forensics
Environment & Ecology
Occupational & Environmental
Health/Safety
Biochemistry
• Biology Abstracting & Indexing Services
• Pharmaceutisches Central-Blatt
1830
• Engineering Index
• Index Medicus
(MEDLINE & PubMed)
• Science Abstracts
• Chemical Abstracts (SciFinder Scholar)
• Biological and Agricultural Index
1916/18
• Biological Abstracts
• Abstracts of Bacteriology
• Botanical Abstracts
• Applied Science and Technology
Abstracts
• Excerpta Medica
1884
1879
1898
1907
1926
1917-26
1918-26
1932
1947
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Biology A&I Services, cont.
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Science Citation Index
Genetics Abstracts*
Nucleic Acid Abstracts *
Amino Acid, Peptide, and Protein Abstracts
BIOETHICSLINE
Biology Digest *
Biotechnology Research Abstracts *
Derwent Biotechnology Abstracts
Current Biotechnology
Current Advances in Biochemistry
Current Advances in Genetics and
Molecular Biology
1961
1968
1970
1972
1973
1974
1982
1982
1983
1984
1984
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Oncogenes and Growth Factors Abstracts * 1989
Plant Genetic Resources Abstracts
1992
Current Advances in Protein Biochemistry 1992
Applied Science and Technology Abstracts
1993
1993
Bioengineering Abstracts
Medical and Pharmaceutical Biotechnology 1993
Abstracts
• Scopus
2004
Trend for increased specialization of topical coverage of
bibliographic databases
*
CSA Cambridge Scientific Abstracts
Final Four
In the Library Literature
• Library, Information Science & Technology
Abstracts with Full Text
• 478 Titles
• Journal of the American Society for Information Science &
Technology
• Journal of the American Medical Informatics Association
• Journal of the Medical Library Association
• Information Retrieval
• World Patent Information
• Medical Reference Services Quarterly
Growth of Literature
70000
Nucleic Acids, DNA, RNA,
Bioinformatic, Genomics in CA
60000
# of Citations
50000
40000
Nucleic Acids
30000
Bioinformatics
Proteomics
20000
10000
0
1920
1940
1960
1980
Year
2000
2010
SciFinder Scholar — It’s Not Just
Chemistry
Part 2. Digging Deeper: “The New
Biology”
Biological Information in the Post-Genomic
Era Dominated by Molecular Biology
It Starts with DNA — The Molecule of Life
WoS Journal Coverage 2005-2011: 439,459
PLoS One
J. Biol. Chem.
PNAS
Nucleic Acids Res.
J. Virology
Biochem. Biophys. Res.
Commun.
J. Bacteriol.
BMC Genomics
7512
7484
7076
5756
4055
3242
3034
2926
A Brief History — Friedrich Mieschler
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“Friedrich Miesclher: The Man
Who Discovered DNA”
• by George Wolf in Chemical
Heritage 21(2):10-11,37-41, 2003
• 1869 (not published until 1871)
• Nuclein
• Proteins 1838
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Gerardus Johannes Mulder
Jöns Jakob Berzelius
• leukocyte nuclei from (pus)
• Looking for chemical composition
of tissues
• High phosphate
• Sperm of Salmo salar
• Almost entirely nuclein
Albrecht Kossel
Nobel Prize ~ 1910 Physiology & Medicine
• Physiological chemist and
medical doctor
• Studied proteins and nucleins
• Discovered a protein-like
composition of nucleins
• Also a non-protein component:
nucleic acids
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Adenine
Cytosine
Guanine
Thymine
Uracil
• 1st Nobel Prize (nucleic acids)
James Watson & Francis Crick
1962
• DNA not a protein
• Erwin Chargaff
• Equal number of A—T bases
• Equal number of C—G bases
• Linus Pauling
• Helical shape of protein
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X-Ray crystallography
• Franklin’s Photo 51
• Form of A, C, G, T bases
• Avery, MacLeod, & McCarty
• DNA linked to heredity
• DNA “transforming factor”
• Nobel with Maurice Wilkins
Rosalin Franklin — The Dark Lady of DNA
• Determined chemical
structure of DNA by
molecular structure and
X-ray crystallography
• Photo of the DNA molecule
taken by Rosalin Franklin
• Photo shown to Watson by
Maurice Wilkins, co-worker
of Franklin and who shared
Nobel Award with Watson
& Crick
• Photo 51
• She didn’t know her
photo was shown to
them
Staying Current
•
The Scientist
• www.the-scientist.com/
• Chemical & Engineering
News
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• pubs.acs.org/cen/index.html
Science
• www.sciencemag.org/
Nature
• www.nature.com/genomics/
Bio-IT World
• www.bioitworld.com/index.html
• Nucleic Acid
Research
•
1st January issue—Database
Reviews
(became “Database Issue” 2004)
• Reviews and updates of
database developments
• 40-50 articles per issue (1996
to present)
• 1st July issue—Web/Internet
Reviews (became “Web Servers
Issue” 2004)
• Reviews Web servers and
services
• 40-50 articles per issue (2003
to present)
nar.oupjournals.org/contents-by-date.0.shtml
Books
Human Genome Project
Evolution of the “New Biology”
Biology & Life Sciences
Biochemistry & Medicine
Genetics
Cell Biology & Physiology
Genomics
Proteomics
Physics
Polymer Physics
DNA/RNA Structure & Folding
Molecular & Structural Biology/Genetics
Chemistry
Medicinal/Pharmacy
Combinatorial Chemistry
Instrumentation
Engineering
Biotechnology
Robotics
Laboratory Automation
Informational Molecular Biology,
Computational Biology, Systems Biology
Chemical Biology
Bioinformatics
Mathematics & Statistics
Computer Science
Topology & Knot Theory
Hardware Configuration & Software Development
Algorithmic Theory, Gene Mapping, Micro-Array Analysis
Information Science
Applications
Simulations and Modeling
Visualization
Data Archives
Growth of Genomic Data & Access
Managing the Data & Information
www.ncbi.nlm.nih.gov
• Established in 1988
• public databases,
• conducts research in
computational biology
• develops software
tools for analyzing
genome data
• disseminates
biomedical information
• National Center
for Biotechnology
Information
(NCBI)
NCBI at a (VERY QUICK) Glance
1 gcgggcgggc gggcaggagg ccgggaggag ggaggcggcg gcggcggcgg cggcggcggc
61 gagagcccag agccagagcc cggccggggc cgagcggagc gcggcggcgg cggcggcggc
121 ggcggctggg ccgggagagg ctggcgcgcc gggcggctcc gcgaatcctc cggcatccgc
181 cccggcgggc cgcccccgcc cgcggcagcc ccccgagcag tggcccggca tcggcgcctt
241 cccggcgggc aagagtgagc catggagcta cgtgtgggga acaagtaccg cctgggacgg
301 aagatcggga gcgggtcctt cggagatatc tacctgggtg ccaacatcgc ctctggtgag
361 gaagtcgcca tcaagctgga gtgtgtgaag acaaagcacc cccagctgca catcgagagc
421 aagttctaca agatgatgca gggtggcgtg gggatcccgt ccatcaagtg gtgcggagct
481 gagggcgact acaacgtgat ggtcatggag ctgctggggc ctagcctcga ggacctgttc
541 aacttctgtt cccgcaaatt cagcctcaag acggtgctgc tcttggccga ccagatgatc
601 agccgcatcg agtatatcca ctccaagaac ttcatccacc gggacgtcaa gcccgacaac
661 ttcctcatgg ggctggggaa gaagggcaac ctggtctaca tcatcgactt cggcctggcc
721 aagaagtacc gggacgcccg cacccaccag cacattccct accgggaaaa caagaacctg
781 accggcacgg cccgctacgc ttccatcaac acgcacctgg gcattgagca aagccgtcga
841 gatgacctgg agagcctggg ctacgtgctc atgtacttca acctgggctc cctgccctgg
901 caggggctca aagcagccac caagcgccag aagtatgaac ggatcagcga gaagaagatg
Data Repository for ALL U.S. Genome R&D
NCBI Science Primer—Basics of Biology
Having a BLAST with NCBI
Chromosome Mapping
Database Integration
Training
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