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BIO 475 (01) SEMINAR
BIO 475 (01) SEMINAR Course Syllabus
Spring 2003 (Three Credit-Hours)
8:00 AM- 8:50 AM Mon., Wed. and Fri. SNHS Rm106
Dr. Yu-Wai Peter Lin
Office/Lab: SNHS Rm 330, Ph: (305) 899-3226
 | Office Hours: |
M & W 9:00 AM - 11:30 AM;
Th 7:00 - 7:30 PM
| Seminar Class Distribution List (Bucmail): |
BIO-475-01-0301@mail.barry.edu
How do I send email directly without searching the global address book ?
The class list addresses are created using the following format:
Course-ID-Section-YearTerm@mail.barry.edu
For example, Accounting 336 01 held in Fall 2001 would have ACC-336-01-0101@mail.barry.edu as the e-mail address.
Will everyone be able to send messages to my class list ?
No, only members (students registered in the course) of the list will be able to send to the class list. Instructors are added as members to the class list, allowing them to send messages.
CELEBRATING STUDENT EXCELLENCE; KNOWLEDGE EMPOWERS
MARC U*STAR Celebrates 20th Anniversary at Barry
February 13, 2003
MARC Symposium Registration
March 21, 2003
Dr. Richard Falvo
Click on the slide below to preview Dr. Falvo's presentation
April 23, 2003
Dr. Xiaotang Hu
Click here to preview Dr. Hu's presentation
|
Presentation of reports, discussions, lectures, and papers on selected topics in biology.
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Course Goals and Objective: |
Goals -- The major goal of the Seminar Course is to acquire an understanding of the Scientific Method and how to apply it through the use of Library Research techniques. A secondary aim is to familiarize students with current scientific literature and the use of the vast biomedical resources on the World Wide Web for research.
Objectives -- Upon completion of this course the student should be able to:
Results of the "Course Objective Writing Contest"
| Instructional Methods: |
This course will follow a weekly journal club format. Recent scientific articles in biomedical research will be assigned in advance to each student and discussed in class. The lecture portion of the course will consist of oral presentations given by the instructor and supplemented with overhead transparencies and AV slides. Peer review, cooperative learning, and active discussions with the students are encouraged. Term paper and homework will be assigned. Critical reading and discussion of recent scientific journal articles will be part of the regular student activities.
Computer assignments (HyperCELL), internet connection to biology web site on the World Wide Web (The Biology Place), online scientific journals (Current Opinion in Cell Biology- http://biomednet.com/cbiology/cel), CD-ROM (Current Content), Medline Search (Internet Grateful Med- http://igm.nlm.nih.gov), web connection to the National Library of Medicine, National Center for Biotechnology Information (PubMed- www.ncbi.nlm.nih.gov/pubmed) and simulations (PCGene) will be used during the course. Students are required to give at least two presentations during the semester.
| Text: |
Subscription to “Science” magazine and “The Biology Place” required
(Required subscription)
Copyright © 1999 by the American Association for the Advancement of Science
The Biology Place (Required subscription)
The Biology Place, a web learning environment that includes learning activities, study and testing aids, and a wide range of content to help you succeed in your course.
Student Subscription Options: You can purchase a subscription to Biology Place online and pay by credit card to gain immediate access. If you are ordering by check through the mail, a mail order form will be generated for you at the end of the process. To order, please click on the link below.
https://k2.peregrine-pub.com/center/subscribe.html
No required text. We will utilize journal articles for our weekly seminar discussion. The Barry Library currently holds a number of science journals with articles on scientific research. These include: Proceedings of the National Academy of Science (PNAS), the Quarterly Review of Biology, Journal of Experimental Zoology, Journal of Experimental Biology, Nature, and Science; just to name a few.
We will also utilize a number of on-line journals through the internet (BioMednet- http://biomednet.com, Medline- http://igm.nlm.nih.gov, NIH AIDS information resources, The Biology Place- www.biology.com etc.)
For references and links to some hot biology sites on the Internet, please visit the School of Natural and Health Science Homepage on the World Wide Web at http://www.barry.edu/snhs/snhs_menu.html [and click on Biology Link]
I will give out photo-copies of journal articles for the reading assignment, therefore a fee ($10-$15) for making photo-copies is required from each student taking the course.
| Disability Statement: |
Students with documented special learning needs may want to infrom the instructor so that accommodations may be made, or contact the Barry Office of Services for Students with Disabilities 305-899 3489
| Student Behavior Statement: |
All Barry University students are expected to behave according to accepted norms that ensure a climate wherein all can exercise their right to learn. Disruptive behavior is not acceptable in the classroom. Students engaging in such behavior may be asked to leave or may be removed from the class by security personnel. Actions such as violence, shouting, use of cell phones and/or beepers, using profanity, interrupting, and any other behavior that the instructor believes creates an unpleasant environment in the classroom will be grounds for withdrawal from the course, judicial proceedings, or failure of the course.
| BIOLOGY GRADING SCALE |
A = 90-100%
B = 80-89%
C = 70-79%
D = 60-69%
F = 0-59%
Your Final Grade for this course will be determined as follows:
Term Paper (1 st. to 3 rd draft) = 100 points total
Due: Apr. 11, 2003
Term Paper (Final draft) = 200 points
Due: Apr. 30, 2003
Three (3) Seminar Reports = 100 points each (300 total points)
1 st Report due: Feb. 03, 2003
2 nd Report due: Mar. 10, 2003
3 rd Report due: Apr. 07, 2003
Journal Club Participation and Presentation = 200 points
Homework/Library/Quizzes = 150 points
Subjective: Class participation, attendance, etc. = 50 points
Total = 1000 total points possible
Grade = Total points earned / 1000 x 100%
Note: All exams, quizzes and written assignments are the property of the School of Natural and Health Sciences, and will not be returned to the student. Graded assignment will be returned for review within 2 weeks after submission.
| Dishonesty Policy: |
Students should be aware that cheating will not be tolerated. Any student caught giving or receiving assistance during an exam, or using cheat sheet, etc. will receive a grade of ZERO for that exam. This zero grade may not be dropped or made up; and WILL be used when determining the student's final grade. Any student caught cheating a second time will receive a grade of F for the course and will be referred to his/her Dean for disciplinary action. The same is true with respect for quizzes. A plagiarized written assignment will receive a grade of ZERO.
(For further information concerning the dishonesty policy, please refer to your Barry University 2002-2003 Catalog)
| Term Paper and Homework/Library Assignments: |
There will be one term paper (worth 300 points), three (3) seminar reports (worth 100 points each) and three (3) homework/library assignments (worth 50 points each) during the semester. These assignments are important to your grade in the course and are intended to help guide your studying and to familiarize you with the recent and cutting edge scientific literature and research. Specifics regarding the term paper assignments are as follow:
a) Use 'Writing Papers in the Biological Sciences' by Victoria E. McMillan as the official guide.
b) Your paper is not meant to be a laboratory research paper (for example, you do not need to organize sections such as "Methods", "Results",etc). Instead, follow the guidelines and examples stated in Chapter 5 of McMillan's book (Writing a Review Paper).
c) All papers must be typed (double-spaced).
It is a good idea to ask me if there may be a question as to whether your paper is focused in the right direction. (I will be willing to review typed rough drafts up until Apr. 14, 2003).
Any assignment turned in late will be worth a maximum of 1/2 credit. Graded assignment will be returned for review within 2 weeks.
| Class Attendance |
Class Attendance is Mandatory
You are expected to attend and actively participate in all classes. The student who is consistently late or absent will not have the same opportunities to ask questions as punctual students who attend each lecture and seminar. Therefore, consistent tardiness and/or consistent absence will result in a significantly lower evaluation on class participation. Daily sign-in sheets will be provided for the student's protection. A record of students who arrive late for lecture will be kept. You are responsible for all material covered in lectures or labs. If you miss classes, you cannot expect to do well in this course.
ABSENCE FROM CLASS IS NO EXCUSE FOR
MISUNDERSTANDINGS ABOUT ASSIGNMENTS OR QUIZZES
| Dr. Lin's Biology Links (framed) |
| Dr. Lin's Biology Links (unframed version) |
| Definitions of Library Vocabulary and Terms |
| Library Research using Primary Sources |
| What are Primary Sources? (Yale Univ. Library) |
| The Joy of Teaching, JT: Pharisees' Question (Anticipatory Set, AS; Cognitive Domain, CD; Educational Objective, EO); Critical Thinking, CT; Educational Psychology Interactive (Dr. Huitt, Valdosta State Univ.) |
| The Scientific Method Science is best defined as a careful, disciplined, logical search for knowledge about any and all aspects of the universe, obtained by examination of the best available evidence and always subject to correction and improvement upon discovery of better evidence. What's left is magic. And it doesn't work. -- James Randi |
| Assignments |
http://gateway.nlm.nih.gov/gw/Cmd
The NLM Gateway is a Web-based system that lets users search simultaneously in multiple retrieval systems at the U.S. National Library of Medicine (NLM). It allows users of NLM services to initiate searches from one Web interface, providing "one-stop searching" for many of NLM's information resources or databases. It is being developed by the Lister Hill National Center for Biomedical Communications (LHNCBC) at the National Library of Medicine (NLM), a part of the National Institutes of Health (NIH).
| Medline Search: |
(PubMed- http://www.ncbi.nlm.nih.gov/entrez/query.fcgi)
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Medline Plus
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| Online Mendelian Inheritance in Man- OMIM online database for genetic diseases- www.ncbi.nlm.nih.gov/Omim |
| National Library of Medicine-http://www.nlm.nih.gov |
| National Center for Biotechnology Information http://www.ncbi.nlm.nih.gov/ |
| Centers for Disease Control and Prevention http://www.cdc.gov/ |
| AIDS LINKS: Acquired Immunodeficiency Syndrome |
|
Human Immunodeficiency Virus Infection and Acquired Immunodeficiency Syndrome (AIDS) - 1999 (Full Text) |
| Medscape - AIDS |
| JAMA - HIV Site |
| AMA Home Page |
| The World-Wide Web Virtual Library |
| The Body: A Multimedia AIDS and HIV Information Resource |
| AIDS Meds.com |
| "Human retroviruses and AIDS Compendia pdf", HIV Databases |
| United Nation -AIDS |
| The Official U.S. Government Definition Of "AIDS" (1993) |
| 
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| AEGiS AIDS Education Global Information System |
| Latin America and Caribbean HIV/AIDS Regional Initiative (LACRI). |
| Glossary of HIV/AIDS-Related Terms (Dept. of Health and Human Services) |
| MEDLINEplus Medical Encyclopedia: AIDS |
| 
AIDS Prevention and Vaccine Research (AIDScience) |
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A review of HIV transmission through breastfeeding, pdf (Joint United Nations Programme on HIV/AIDS)
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Morbidity and Mortality Weekly Report
25 Notable HIV and AIDS Reports Published in the Morbidity and Mortality Weekly Report (MMWR)
http://www.cdc.gov/mmwr/hiv_aids20.html
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documents
how NIH researchers answered such questions when asked to recall the early
days of HIV/AIDS. In launching this Web site, we commemorate the 20-year
struggle to confront the deadly HIV/AIDS pandemic.
To see the animated
version requires
Macromedia
Shockwave Player.
If you want to see a version that is not animated, please click
here
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| Electronic Databases & Journals at Barry |
http://bucwis.barry.edu/libraryservices
(On-Campus access only)
The Monsignor William Barry Memorial Library subscribes to nearly 150 electronic databases.
Most of our databases are available over the Internet. Online access to these databases is possible from any networked computer on the main campus or from any off-campus patron who has the VPN remote access software.
Electronic Databases
Electronic Databases http://bucwis.barry.edu/libraryservices/catalogresources/eDatabaseSubject.htm
Electronic Journals
(BioMedical)
Electronic Journals http://bucwis.barry.edu/libraryservices/catalogResources/eJournalSubject/biomedical.htm
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Copyright © 1999 by the National Academy of Sciences.
You can now get full text and search Proceedings of the National Academy of Sciences online by going to following web site: http://www.pnas.org
User Name is: comet
Password is: ******
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The Lancet Interactive software and compilation The Lancet Ltd. All rights reserved. The Lancet is an Elsevier Science trademark.
You can get full text and search Lancet online by going to: http://www.thelancet.com
Click on "subscribers" and enter:
Username: medbarry
Password: ********
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© Copyright 1999
Massachusetts Medical Society.
You can get full text and search The New England Journal of Medicine online by going to: http://www.nejm.org/content/index.asp
Click on "LOG ON TO FULL TEXT" and enter:
Username: BARRYMED
Password: ***********
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Copyright © 1999 by the American Association for the Advancement of Science
Search and View Full-text articles:
User Name: peterlin Password: ********
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Back to Top
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Nature © Macmillan Publishers Ltd 1999 Registered No. 785998 England.
Search and View Full-text articles:
http://www.nature.com/Dynasearch/App/DynaSearch.taf?target=journalsUser Name: chipola Password: ******
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| Annual Review of Microbiology |
Copyright © 2000 by Annual Reviews
Search and View Full-text articles:
http://micro.annualreviews.org/search.dtl(Full-text Only Accessible using On-Campus Computer)
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| Annual Review of Physiology |
Copyright © 2000 by Annual Reviews
Search and View Full-text articles:
http://physiol.annualreviews.org/search.dtl(Full-text Only Accessible using On-Campus Computer)
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| Journal of Biological Chemistry |
© 2000 by The American Society for Biochemistry and Molecular Biology, Inc.
ISSN 1083-351X
![[Feedback]](feedbackACT.gif){kind=small}
![[For Subscribers]](subscriberACT.gif){kind=small}
![[Archive]](archiveACT.gif){kind=small}
![[Search]](searchIN.gif){kind=small}
Search and View Full-text articles:
(Full-text Only Accessible using On-Campus Computer)
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| Journal of Applied Physiology |
Copyright © 2000 by the American Physiological Society.
![[Browse & Search]](bsIN.gif){kind=small}
Search and View Full-text articles:
http://jap.physiology.org/all.shtml
(Full-text Only Accessible using On-Campus Computer)
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Genetics
A periodical record of investigations bearing on heredity and variation
Copyright © 2000 by the Genetics Society of America.
Genetics http://www.genetics.org/
(Full-text Only Accessible using On-Campus Computer)
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The Journal of Heredity
Copyright© Oxford University Press
http://www3.oup.co.uk/Architext/AT-hdb-jheredquery.html
The Journal of Heredity use Excite Search to do the searching
(Full-text Only Accessible using On-Campus Computer)
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Copyright © 2000 by the Rockefeller University Press.
The Journal of Cell Biology http://www.jcb.org/
(Full-text Only Accessible using On-Campus Computer)
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http://www3.interscience.wiley.com/cgi-bin/jtoc?ID=28741
Online ISSN: 1097-0142 Print ISSN: 0008-543X
Cancer Copyright © 2000 American Cancer Society(Full-text Only Accessible using On-Campus Computer)
Diagram of Mature HIV
| Assignments: |
| Go to: Reading Assignment for the Week of January 27, February 24, March 24, 2003 |
Reading Assignment for the Week of January 13, 2003
Review Article
How Does HIV Cause AIDS ? Robin A. Weiss, Science 260:1273-1279 (May 23 1993)
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The Biology Place: http://www.biology.com
User ID- ******
Password- *********
Interactive Learning Activities:
HomeWork Assignment #1 (Due Jan 29, 50 Points)
Cell to Cell and Person to Person:
Investigating AIDS and HIV
by John Postlethwait,
University of Oregon
© 1997, Peregrine Publishers, Inc., All Rights Reserved
Part I: The Discovery and Epidemiology of AIDS
Part II: Investigating
HIV so as to Devise AIDS Therapies
http://www.biology.com/learning/hiv2/introduction.html
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Reading Assignment for the Week of January 27, 2003
Primary Source Article
Copyright © 1999 by the American Association for the Advancement of Science
User Name: Password: ********
Dean et.al. 1996, Science, 273:1856-1862, Fig.2
Genetic Restriction of HIV-1 Infection and Progression to AIDS by a Deletion Allele of the CKR5 Structural Gene. Michael Dean et.al. Science (Sept 27 1996) 273:1858-1862 http://www.sciencemag.org [Abstract] [Full Text] [html version]
Scientific American (http://www.sciam.com)
© 1996, 1997, 1998, 1999, 2000 Scientific American, Inc. All rights reserved.
The Search of AIDS-Resistance Gene.
Stephen J. O'Brien and Michael Dean. Scientific American, September, 1997 (http://www.sciam.com/0997issue/0997obrien.html)
[PDF version]
Co-Receptors for HIV: CKR5 (Project inform)
http://www.projinf.org/fs/dp-CKR5_Fusin.html
Structure of the CC-chemokine, RANTES
http://www.urmc.rochester.edu/smd/mbi/chime/ranframe.html
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Reading Assignment for the Week of February 24, 2003
| GAD and Type I Diabetes | |
|---|---|
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Science 1999 May 14; 284: 1085k (in This Week in Science) [Summary][html version] |
Fig. 2. The effect of cell-specific suppression of
GAD expression on the development of diabetes and insulitis
Control of Autoimmune Diabetes
in NOD Mice by GAD Expression or Suppression in
 Cells |
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|---|---|
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Ji-Won Yoon, Chang-Soon Yoon, Hye-Won Lim, Qi Quan Huang, Yup Kang, Kwang Ho Pyun, Kensuke Hirasawa, Robert S. Sherwin, and Hee-Sook Jun |
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Science 1999 May 14; 284: 1183-1187. (in Reports) [Abstract] [Full Text .html] [Full Text .pdf] |
Perspective
Gadfly autoantigen. Autoimmune diabetes develops in nonobese diabetic (NOD) mice when peptides derived from glutamic acid decarboxylase (GAD), which is expressed by the insulin-producing b-islet cells (blue) of the pancreas, are presented by antigen presenting cells (APCs) to T cells (A).
Harald von Boehmer and Adelaida Sarukhan
* [html version]http://www.sciencemag.org/cgi/content/full/284/5417/1135
Science Volume 284, Number 5417 Issue of 14 May 1999, pp. 1135 - 1137
©1999 by The American Association for the Advancement of Science.
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Reading Assignment for the Week of March 24, 2003
Fig. 1. Effect of CX3CR1 variants on HIV disease progression
Rapid Progression to AIDS in HIV+ Individuals with a Structural Variant of the Chemokine Receptor CX3CR1
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REVIEW
The Genome Sequence of Drosophila melanogaster
http://www.sciencemag.org/feature/data/genomes/landmark.shl
Coding Content of the Drosophila Genome
Reading Assignments :
Review Article
How Does HIV Cause AIDS ? Robin A. Weiss, Science 260:1273-1279 (May 23 1993)
Primary Source Article
Copyright © 1999 by the American Association for the Advancement of Science
User Name: Password: ********
Dean et.al. 1996, Science, 273:1856-1862, Fig.2
Genetic Restriction of HIV-1 Infection and Progression to AIDS by a Deletion Allele of the CKR5 Structural Gene. Michael Dean et.al. Science (Sept 27 1996) 273:1858-1862 http://www.sciencemag.org [Abstract] [Full Text] [html version]
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