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| − | ==Class Notes week 10==
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| − | *To access database pages go through the LMU link
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| − | *journal availibility comes through PubMed central if it is funded by the government
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| − | ==Open Access Journals==
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| − | *Authors submit article to publishers and then pay to have it published
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| − | *How well are the quality control standards?
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| − | *Copyright rules are in flux
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| − | **most databases are public access
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| − | ==Google Scholar==
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| − | *serves as a key word search
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| − | *date order is all over the place
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| − | **means things can be out of date
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| − | ==Pubmed==
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| − | *also serves as a keyword search
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| − | *Advanced search= use the meSH terms
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| − | * For our species we need to find a reference genome = the main reference strain
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| − | **generally the earliest strain by date is the reference genome
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| − | ==Array express==
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| − | *this is one of the best databases I've seen in reference to finding array data
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| − | *The search can be sorted by organism and the arrays can be sorted by kinds
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| − | ==Individual Homework==
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| − | # I used pubmed for this part of the assignment
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| − | # The search terms I used for this were Sinorhizobium Meliloti and genome.
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| − | # Most of the results I got were concerned with DNA probes and specific sequences of DNA
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| − | # I got 20 results by using this database
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| − | *when I used array express I got 25 results by using the search term for the bacteria species Sinorhizobium Meliloti
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| − | ==Citations==
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| − | #Dual RpoH Sigma Factors and Transcriptional Plasticity in a Symbiotic Bacterium. Barnett MJ, Bittner AN, Toman CJ, Oke V, Long SR. , Europe PMC 22773790
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| − | #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
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| − | #Xavier Bailly, Gilles Béna, Vanina Lenief, Philippe de Lajudie, Jean-Christophe Avarre, Development of a lab-made microarray for analyzing the genetic diversity of nitrogen fixing symbionts Sinorhizobium meliloti and Sinorhizobium medicae, Journal of Microbiological Methods, Volume 67, Issue 1, October 2006, Pages 114-124, ISSN 0167-7012, http://dx.doi.org/10.1016/j.mimet.2006.03.006. (http://www.sciencedirect.com/science/article/pii/S0167701206000662
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| − | #Jan-Philip Schlüter, Jan Reinkensmeier, Svenja Daschkey, Elena Evguenieva-Hackenberg, Stefan Janssen, Sebastian Jänicke, Jörg D Becker, Robert Giegerich, Anke Becker, A genome-wide survey of sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobium meliloti BMC Genomics. 2010; 11: 245. Published online 2010 April 17. doi: 10.1186/1471-2164-11-245 PMCID: PMC2873474 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2873474/
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| − | ==Links==
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| − | #http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-36186/?keywords=&organism=Sinorhizobium+meliloti&array=&exptype[]=&exptype[]=
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| − | #http://www.ebi.ac.uk/arrayexpress/experiments/E-MEXP-785/?keywords=&organism=Sinorhizobium%20meliloti&array=&exptype[0]=&exptype[1]=&sortby=type&sortorder=ascending
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| − | ==Description of the Arrays==
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| − | #the first array deals with heat Shock. The control for this experiment was stationary phase growth and the variable was the bacteria under "heat shock"
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| − | # 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
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| − | [[user:mmalefyt|User Page]]
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| − | [[category: Individual Homework]]
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