Younshin Oh

Publications (2)1.28 Total impact

• Article: A simple, rapid, efficient and inexpensive strategy for sequencing clones from cDNA libraries

  Dinh Truong Nguyen, Younshin Oh, Vijaya R. Dirisala, Hojun Choi, Keun-Kyu Park, Jin-Hoi Kim, Chankyu Park
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  ABSTRACT: In this report, we describe a simple, rapid, efficient and inexpensive strategy for sequencing inserted DNAs from clones of cDNA or gDNA libraries. This strategy uses PCR products directly amplified from transformed bacterial colonies, with universal primers within the vector. The method can be applied for sequencing cDNA or gDNA libraries with up to 4 ∼ 5 kb insert sizes, without overnight liquid culture or plasmid DNA preparation steps. We successfully used this method to analyze clones from full-length, enriched cDNA libraries. Although simple, following this strategy will significantly help researchers to avoid unnecessary steps in the analysis of a cDNA library. KeywordscDNA library-screening-sequencing-colony PCR
  Biotechnology and Bioprocess Engineering 04/2010; 15(5):817-821. · 1.28 Impact Factor
• Source

  Available from: genominfo.org

  Article: Identification of 1,531 cSNPs from Full-length Enriched cDNA Libraries of the Korean Native Pig Using in Silico Analysis

  Younshin Oh, Dinh Truong Nguyen, Kwangha Park, Vijaya R Dirisala, Hojun Choi, Chankyu Park
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  ABSTRACT: Sequences from the clones of full-length enriched cDNA libraries serve as valuable resources for functional ge-nomics related studies, genome annotation and SNP discovery. We analyzed 7,392 high-quality chromato-grams (Phred value ≥30) obtained from sequencing the 5' ends of clones derived from full-length enriched cDNA libraries of Korean native pigs including brain-stem, liver, cerebellum, neocortex and spleen libraries. In addition, 50,000 EST sequence trace files obtained from GenBank were combined with our sequences to identify cSNPs in silico. The process generated 11,324 contigs, of which 2,895 contigs contained at least one SNP and among them 610 contigs had a minimum of one sequence from Korean native pigs. Of 610 contigs, we randomly selected 262 contigs and performed in sili-co analysis for the identification of cSNPs. From the re-sults, we identified 1,531 putative coding single nucleo-tide polymorphisms (cSNPs) and the SNP detection fre-quency was one SNP per 465 bp. A large-scale se-quencing result of clones from full-length enriched cDNA libraries and identified cSNPs will serve as a useful re-source to functional genomics related projects such as a pig HapMap project in the near future.
  Genomics & Informatics. 07/2009; 7:65-84.