M W F; 10:10 - 11:00 pm
Molecular Biology

Douglas W. Smith

York 2722
BIMM 100

5254 Muir Biology Building

Fall, 2000
x42620; dsmith@ucsd.edu

Journal Articles

Journal Articles or Papers:

Six journal articles or papers, or groups of papers, are assigned for the course. These will be emphasized in the Journal Article Section given by Smith. Copies of the papers are in the Soft Reserves Course Reader. The articles and week that they are assigned for discussion are given below and on the course Syllabus.

Five articles are research articles, and one is a group of short review articles.

You are responsible for the main points of the paper, not the experimental details.

These journal articles are fair game for the exams. You are responsible for Articles 1 and 2 for Midterm 1; Articles 3 and 4 for Midterm 2; and for ALL Articles for the Final Exam.

Article Week           Topic and Article(s)


   1.      2      Research Article on YACs as Cloning Vehicles: [PubMed Abstract]

                  Burke, D., Carle, G., and Olson, M.  1987.  Cloning of large 
                  segments of exogenous DNA into yeast by means of artificial 
                  chromosome vectors.  Science 236: 806-812.


   2.      3      Review Article on Whole Genome Analysis: [PubMed Abstract]

                  Bult, C.J. et al. 1996. Complete Genome Sequence of the 
                  Methanogenic Archaeon, Methanococcus jannaschii. 
                  Science 273: 1058-1073


   3.      5      Review Article on Eukaryotic DNA replication: [PubMed Abstract]

                  DePamphilis, M.L.  1999.  Replication origins in metazoan 
                  chromosomes: fact or fiction?  BioEssays 21: 5-16. 


   4.      6      Three perspectives on DNA Repair:

                  Sancar, A.  1994.  Mechanisms of DNA Excision Repair.
                  Science 266: 1954-1956.              [PubMed Abstract]

                  Hanawalt, P.C.  1994.  Transcription-Coupled Repair and Human
                  Disease.  Science 266: 1957-1958.    [PubMed Abstract]

                  Modrich, P.  1994.  Mismatch Repair, Genetic Stability, and
                  Cancer.  Science 266: 1959-1960.     [PubMed Abstract]



   5.      8      Research Article on Enhancers:       [PubMed Abstract]

                  Karin, M., Haslinger, A., Holtgreve, H., Richards, R., Krauter, 
                  P., Westphal, H., and Beato, M.  1984.  Characterization of DNA 
                  sequences through which cadmium and glucocorticoid hormones 
                  induce human metallothionein-IIA gene.  Nature 308: 513-519.


   6.     10      Research Article on Genome Expression:  [PubMed Abstract]

                  Eisen, M.B., Spellman, P.T., Brown, P.O., and Botstein, D. 1998.
                  Cluster analysis and display of genome-wide expression patterns.
                  Proc. Natl. Acad. Sci. USA 95: 14863-14868.
    
                  Click here for colored Figures of this Article.

Tips on Reading Research Journal Articles:

1. Read the Abstract and Introduction first for major take-home information and background.

2. Study the Figures and Tables; figure out what the data mean and its relation to the Abstract.

3. Read the Discussion. Relate these conclusions to the Figure and Table data.

4. Read the Results for details of how the data were obtained and what they mean.

5. Now, read the Materials and Methods or Experimental Details sections as desired for in-depth reading.

6. Re-read the Discussion and other parts of the paper as needed.

If you have problems or comments, send email to Doug Smith

M W F; 10:10 - 11:00 pm	Molecular Biology	Douglas W. Smith
York 2722	BIMM 100	5254 Muir Biology Building
Fall, 2000		x42620; dsmith@ucsd.edu