Difference between revisions of "Ajvree Week 10"

Latest revision as of 18:15, 18 November 2013

10/29/13 Lecture Notes

• Library homepage>Libguides>link to BIO 367>databases
• Open access: physics(peer sharing) and life sciences (availability of granted research)
• PMC Journal: information designated by govt to be available to all
• Now authors pay journal to have information published, makes open access controversial
• http://libguides.lmu.edu/BIOL367
• Google scholar ranks articles, dates will be all over the place, etc.
• MeSH terms: medical subheading
• information needed: a reference genome for species/main reference strand, usually the earliest date

[edit] Search Results:

[edit] Article 1:

• Searched Web of Science for transcriptional profiling Streptococcus pneumoniae under topic, got 38 results.
• Found article titled : Gene expression profile of early in vitro biofilms of Streptococcus pneumoniae (Mukesh Kumar Yadav et al., 2012)
• Used Google Scholar to search for full article
• Article PDF involves comparing microarray data of S. pneumoniae biofilm to planktonic cells. 21 biological microarray replicates were done, with the control being the planktonic cells.
• Searched article for location of microarray data, located here: http://www.ncbi.nlm.nih.gov/geo under

accession number GSE34751

• PDF: S. pneumoniae Article 1
• Full Citation:
  

Yadav, M. K., Kwon, S. K., Cho, C. G., Park, S.-W., Chae, S.-W. and Song, J.-J. (2012), Gene expression profile of early in vitro biofilms of Streptococcus pneumoniae. Microbiology and Immunology, 56: 621–629.

• Based on this report and other titles listed while searching, a lot of research regarding vaccines against the pathogenic strain is popular, in addition to research on how to prevent the bacteria from growing.

[edit] Article 2:

• Found second article using references from first article, looked for key words in title about transcription activity/microarray data
• link to article: [1]
• Full Citation:

Ng, WL, Kazmierczak, KM Robertson, GT, et al., 2003. Transcriptional regulation and signature patterns revealed by microarray analyses of Streptococcus pneumoniae R6 challenged with sublethal concentrations of translation inhibitors. Journal of Bacteriology. Volume 185, Issue 1, Pages 359-370.

• In this experiment, cell cultures were exposed to 4 different translation inhibitors to determine the effect on the transcript activity. The control used was a 1% DMSO culture that contained no antibiotics. There were 3 replicates done of the microarray analysis, and Northern blot analysis was also used.

[edit] Links

Streptococcus pneumoniae

Import Export Cycle 1: tATK Export One: TIGR4 Testing Report

Import Export Cycle 2: tATK E2: TIGR4 Testing Report

Import Export Cycle 3: tATK E3: TIGR4 Testing Report

Import Export Cycle 4: tATK E4: TIGR4 Testing Report

Data Information

• Kmeilak Week 10, Kmeilak Week 11, Kmeilak Week 12, Kmeilak Week 13
• Taur.vil Week 10, Taur.vil Week 11, Taur.vil Week 12, Taur.vil Week 13, Taur.vil Week 14, Taur.vil Week 15
• Ajvree Week 10, Ajvree Week 11, Ajvree Week 12, Ajvree Week 13, Ajvree Week 14, Ajvree Week 15