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Mollusks Sequence Database: Version II
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  • Journal title : The Korean Journal of Malacology
  • Volume 30, Issue 4,  2014, pp.429-431
  • Publisher : The Malacological Society of Korea
  • DOI : 10.9710/kjm.2014.30.4.429
 Title & Authors
Mollusks Sequence Database: Version II
Kang, Se Won; Hwang, Hee Ju; Park, So Young; Wang, Tae Hun; Park, Eun Bi; Lee, Tae Hee; Hwang, Ui Wook; Lee, Jun-Sang; Park, Hong Seog; Han, Yeon Soo; Lim, Chae Eun; Kim, Soonok; Lee, Yong Seok;
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 Abstract
Since we reported a BLAST server for the mollusk in 2004, no work has reported the usability or modification of the server. To improve its usability, the BLAST server for the mollusk has been updated as version II (http://www.malacol.or.kr/blast) in the present study. The database was constructed by using the Intel server Platform ZSS130 dual Xeon 3.20 GHz CPU and Linux CentOS system and with NCBI WebBLAST package. We downloaded the mollusk nucleotide, amino acid, EST, GSS and mitochondrial genome sequences which can be opened through NCBI web BLAST and used them to build up the database. The updated database consists of 520,977 nucleotide sequences, 229,857 amino acid sequences, 586,498 EST sequences, 23,112 GSS and 565 mitochondrial genome sequences. Total database size is 1.2 GB. Furthermore, we have added repeat sequences, Escherichia coli sequences and vector sequences to facilitate data validation. The newly updated BLAST server for the mollusk will be useful for many malacological researchers as it will save time to identify and study various molluscan genes.
 Keywords
Mollusks;Sequence;BLAST;
 Language
Korean
 Cited by
1.
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한국패류학회지, 2016. vol.32. 3, pp.185-188 crossref(new window)
2.
Construction of PANM Database (Protostome DB) for rapid annotation of NGS data in Mollusks,;;;;;;;;;

한국패류학회지, 2015. vol.31. 3, pp.243-247 crossref(new window)
3.
Characterization of Physa acuta expressed sequence tags and transcript mining following cadmium exposure,;;;;;;;;;;;;;;

Genes and Genomics, 2015. vol.37. 12, pp.1017-1025 crossref(new window)
4.
동남아시아 4개국 두족류의 분류 및 계통분류학적 연구,황희주;강세원;박소영;정종민;송대권;박형춘;박홍석;한연수;이준상;이용석;

한국패류학회지, 2016. vol.32. 1, pp.55-62 crossref(new window)
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한국패류학회지, 2016. vol.32. 2, pp.127-131 crossref(new window)
1.
Construction of PANM Database (Protostome DB) for rapid annotation of NGS data in Mollusks, The Korean Journal of Malacology, 2015, 31, 3, 243  crossref(new windwow)
2.
Characterization of Physa acuta expressed sequence tags and transcript mining following cadmium exposure, Genes & Genomics, 2015, 37, 12, 1017  crossref(new windwow)
3.
Classification and Phylogenetic Studies of Cephalopods from four countries of South-East Asia, The Korean Journal of Malacology, 2016, 32, 1, 55  crossref(new windwow)
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A Mitochondiral Cytochrome Oxidase I gene based identification of Corbicula ssp. commercially available in South Korea, The Korean Journal of Malacology, 2016, 32, 2, 127  crossref(new windwow)
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Transcriptome Analysis of the Tadpole Shrimp (Triops longicaudatus) by Illumina Paired-End Sequencing: Assembly, Annotation, and Marker Discovery, Genes, 2016, 7, 12, 114  crossref(new windwow)
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