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For the non-linear problem, an approximate solution using a perturbation method is searched.
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Especially because the method is searching for larger CNVs, using larger windows would be advantageous; however, in this case the observations of coverage at adjacent SNPs would no longer be independent, and thus not properly modelled as an HMM.
Proteins that were not assigned a GeneID using this method were searched by hand using the online search function (IPI Quick Search) and the search feature located at Entrez Gene by entering available accession numbers and the protein name.
Thus, other methods were searched for in order to simplify the whole process.
Third, the reference lists of the articles found with the above-mentioned methods were searched for additional articles.
Known antibiotic resistance genes and efflux pumps described in S. maltophilia but not retrieved by the two previous methods were searched in the draft genomes by BLASTP searches after retrieving these sequences in the GenBanK database (Benson et al. 2013).
Methods: PubMed was searched for studies examining hepatic fibrosis, cirrhosis, decompensated liver disease, hepatocellular carcinoma, and liver-related death.
Review methods Databases were searched for systematic reviews having an adverse event as the main outcome, published from January 2008 to April 2011.
In the third method, larger cDNAs were searched from Plant Transcript Assemblies Database (TIGR).
The merit of the direct search method is to search the optimum points rapidly by considering the search direction, step size and convergence limit.
Methods: The MEDLINE databases were searched for relevant studies published since 2001.
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