Draft genome of the sea cucumber Apostichopus japonicus and genetic polymorphism among color variants
暂无分享,去创建一个
Sung-Jin Cho | Jihoon Jo | Sung-Gwon Lee | Jooseong Oh | Chungoo Park | E. Kern | Sung-Jin Cho | Hyun-Gwan Lee | Hyun-Gwan Lee | Hyun-Hee Hong | Seongmin Cheon | Elizabeth M. A. Kern | Soyeong Jin | Joong-Ki Park | Chungoo Park | Joong-Ki Park | Sung-Gwon Lee | Hyun-Hee Hong | Jihoon Jo | Joo-Seong Oh | Seongmin Cheon | Soyeong Jin
[1] Andrew R. Jackson,et al. The Genome of the Sea Urchin Strongylocentrotus purpuratus , 2006, Science.
[2] Evgeny M. Zdobnov,et al. BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs , 2015, Bioinform..
[3] David R. Kelley,et al. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks , 2012, Nature Protocols.
[4] Cole Trapnell,et al. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions , 2013, Genome Biology.
[5] Richard Durbin,et al. Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .
[6] Jongsun Park,et al. Comparative transcriptome analysis of three color variants of the sea cucumber Apostichopus japonicus. , 2016, Marine genomics.
[7] Jian Wang,et al. SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler , 2012, GigaScience.
[8] Stephen M. Mount,et al. Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies. , 2003, Nucleic acids research.
[9] S. Purcell. Value, Market Preferences and Trade of Beche-De-Mer from Pacific Island Sea Cucumbers , 2014, PloS one.
[10] O. Kohany,et al. Repbase Update, a database of repetitive elements in eukaryotic genomes , 2015, Mobile DNA.
[11] W. J. Kent,et al. BLAT--the BLAST-like alignment tool. , 2002, Genome research.
[12] Björn Usadel,et al. Trimmomatic: a flexible trimmer for Illumina sequence data , 2014, Bioinform..
[13] Nicholas H. Putnam,et al. Low coverage sequencing of three echinoderm genomes: the brittle star Ophionereis fasciata, the sea star Patiriella regularis, and the sea cucumber Australostichopus mollis , 2016, GigaScience.
[14] Farooq Anwar,et al. High-Value Components and Bioactives from Sea Cucumbers for Functional Foods—A Review , 2011, Marine drugs.
[15] J. Hamel,et al. The sea cucumber Apostichopus japonicus : history, biology and aquaculture , 2015 .
[16] Rodrigo Lopez,et al. The EMBL-EBI bioinformatics web and programmatic tools framework , 2015, Nucleic Acids Res..
[17] Keith Bradnam,et al. CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes , 2007, Bioinform..
[18] Tetsuya Hayashi,et al. Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads , 2014, Genome research.
[19] Ning Ma,et al. BLAST+: architecture and applications , 2009, BMC Bioinformatics.
[20] Ken‐ichi Yamamoto,et al. Effects of Water Temperature on Ventilation of the Japanese Common Sea Cucumber, Apostichopus japonicus of Different Color Pattern , 2005 .
[21] A. Gnirke,et al. High-quality draft assemblies of mammalian genomes from massively parallel sequence data , 2010, Proceedings of the National Academy of Sciences.
[22] Yun‐wei Dong,et al. Difference in Thermotolerance Between Green and Red Color Variants of the Japanese Sea Cucumber, Apostichopus japonicus Selenka: Hsp70 and Heat-Hardening Effect , 2010, The Biological Bulletin.
[23] David Haussler,et al. Using native and syntenically mapped cDNA alignments to improve de novo gene finding , 2008, Bioinform..
[24] María Martín,et al. UniProt: A hub for protein information , 2015 .
[25] The Uniprot Consortium,et al. UniProt: a hub for protein information , 2014, Nucleic Acids Res..
[26] A. Kijima,et al. Quantitative and Qualitative Evaluation on the Color Variation of the Japanese Sea Cucumber Stichopus japonicus , 2002 .
[27] N. Friedman,et al. Trinity: reconstructing a full-length transcriptome without a genome from RNA-Seq data , 2011, Nature Biotechnology.
[28] W. Lu,et al. Transcriptome Sequencing and Characterization for the Sea Cucumber Apostichopus japonicus (Selenka, 1867) , 2012, PloS one.
[29] 泰雄 大島. ナマコにみられる「アオ」と「アカ」の形態および生態的差異について , 1961 .
[30] M. DePristo,et al. The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. , 2010, Genome research.
[31] Gonçalo R. Abecasis,et al. The variant call format and VCFtools , 2011, Bioinform..