https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?action=history&feed=atom&title=Individual_hw_week_10 2026-04-23T20:07:26Z Revision history for this page on the wiki MediaWiki 1.20.3 https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Individual_hw_week_10&diff=4929&oldid=prev 2013-11-05T18:27:03Z

<p>Created page with &quot;==Class Notes week 10== *To access database pages go through the LMU link *journal availibility comes through PubMed central if it is funded by the government ==Open Access J...&quot;</p> <p><b>New page</b></p><div>==Class Notes week 10==<br /> *To access database pages go through the LMU link<br /> *journal availibility comes through PubMed central if it is funded by the government<br /> <br /> ==Open Access Journals==<br /> *Authors submit article to publishers and then pay to have it published<br /> *How well are the quality control standards?<br /> *Copyright rules are in flux<br /> **most databases are public access<br /> <br /> ==Google Scholar==<br /> *serves as a key word search<br /> *date order is all over the place<br /> **means things can be out of date<br /> <br /> ==Pubmed==<br /> *also serves as a keyword search<br /> *Advanced search= use the meSH terms <br /> * For our species we need to find a reference genome = the main reference strain <br /> **generally the earliest strain by date is the reference genome<br /> <br /> ==Array express==<br /> *this is one of the best databases I&#039;ve seen in reference to finding array data<br /> *The search can be sorted by organism and the arrays can be sorted by kinds<br /> <br /> ==Individual Homework==<br /> # I used pubmed for this part of the assignment<br /> # The search terms I used for this were Sinorhizobium Meliloti and genome.<br /> # Most of the results I got were concerned with DNA probes and specific sequences of DNA<br /> # I got 20 results by using this database<br /> <br /> <br /> *when I used array express I got 25 results by using the search term for the bacteria species Sinorhizobium Meliloti<br /> <br /> ==Citations==<br /> #Dual RpoH Sigma Factors and Transcriptional Plasticity in a Symbiotic Bacterium. Barnett MJ, Bittner AN, Toman CJ, Oke V, Long SR. , Europe PMC 22773790<br /> #Transcriptome Profiling Reveals the Importance of Plasmid pSymB for Osmoadaptation of Sinorhizobium meliloti. Dominguez-Ferreras, Ana; Perez-Arnedo, Rebeca; Becker, Anke; Olivares, Jose; Soto, Maria J.; Sanjuan, Juan. The Journal of Bacteriology 188(21):7617 (2006), Europe PMC 16916894<br /> <br /> ==Links==<br /> #http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-36186/?keywords=&amp;organism=Sinorhizobium+meliloti&amp;array=&amp;exptype[]=&amp;exptype[]=<br /> #http://www.ebi.ac.uk/arrayexpress/experiments/E-MEXP-785/?keywords=&amp;organism=Sinorhizobium%20meliloti&amp;array=&amp;exptype[0]=&amp;exptype[1]=&amp;sortby=type&amp;sortorder=ascending<br /> <br /> ==Description of the Arrays==<br /> #the first array deals with heat Shock. The control for this experiment was stationary phase growth and the variable was the bacteria under &quot;heat shock&quot;<br /> # The array deals with the osmotic upshift ellicited by salt or sucrose. The control in this experiment would be a normal osmotic gradient and the variables would be the gradient when subjected to salt and sucrose<br /> <br /> <br /> [[user:mmalefyt|User Page]]<br /> [[category: Individual Homework]]</div>

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