The genome of Mekong tiger perch (Datnioides undecimradiatus) provides insights into the phylogenetic position of Lobotiformes and biological conservation

[1]  L. Redd,et al.  International Union for Conservation of Nature , 2010, Permanent Missions to the United Nations, No. 309.

[2]  Jian Wang,et al.  Efficient and unique cobarcoding of second-generation sequencing reads from long DNA molecules enabling cost-effective and accurate sequencing, haplotyping, and de novo assembly , 2019, Genome research.

[3]  Huihong Zhao,et al.  Characterization of the Complete Mitochondrial Genome Sequences of Three Croakers (Perciformes, Sciaenidae) and Novel Insights into the Phylogenetics , 2018, International journal of molecular sciences.

[4]  Nicolás Bellora,et al.  Comprehensive phylogeny of ray-finned fishes (Actinopterygii) based on transcriptomic and genomic data , 2018, Proceedings of the National Academy of Sciences.

[5]  J. Volff,et al.  Teleost Fish-Specific Preferential Retention of Pigmentation Gene-Containing Families After Whole Genome Duplications in Vertebrates , 2018, G3: Genes, Genomes, Genetics.

[6]  B. Faircloth,et al.  Explosive diversification of marine fishes at the Cretaceous–Palaeogene boundary , 2018, Nature Ecology & Evolution.

[7]  Jian Wang,et al.  SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data , 2017, GigaScience.

[8]  J. M. Mirande,et al.  Combined phylogeny of ray‐finned fishes (Actinopterygii) and the use of morphological characters in large‐scale analyses , 2017, Cladistics : the international journal of the Willi Hennig Society.

[9]  Nicolas Bailly,et al.  Phylogenetic classification of bony fishes , 2017, BMC Evolutionary Biology.

[10]  Sudhir Kumar,et al.  TimeTree: A Resource for Timelines, Timetrees, and Divergence Times. , 2017, Molecular biology and evolution.

[11]  Shuhua Xu,et al.  Adaptation of human skin color in various populations , 2017, Hereditas.

[12]  Frank Noé,et al.  Major Histocompatibility Complex (MHC) Class I and MHC Class II Proteins: Conformational Plasticity in Antigen Presentation , 2017, Front. Immunol..

[13]  Yue Bisong,et al.  CpGIScan: An Ultrafast Tool for CpG Islands Identification from Genome Sequence , 2017 .

[14]  H. Nezamabadi-pour,et al.  Genome-wide analysis of CpG islands in some livestock genomes and their relationship with genomic features , 2016 .

[15]  Reinhold Hanel,et al.  Evolution of the immune system influences speciation rates in teleost fishes , 2016, Nature Genetics.

[16]  N. Weisenfeld,et al.  Direct determination of diploid genome sequences , 2016, bioRxiv.

[17]  R. Cameron,et al.  DNA Extraction Protocols for Whole-Genome Sequencing in Marine Organisms. , 2016, Methods in molecular biology.

[18]  Terry. Grande,et al.  Fishes of the World: Nelson/Fishes of the World , 2016 .

[19]  Evgeny M. Zdobnov,et al.  BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs , 2015, Bioinform..

[20]  Haibao Tang,et al.  jcvi: JCVI utility libraries , 2015 .

[21]  O. Kohany,et al.  Repbase Update, a database of repetitive elements in eukaryotic genomes , 2015, Mobile DNA.

[22]  M. Fiorillo,et al.  The multifaceted nature of NLRP12 , 2014, Journal of leukocyte biology.

[23]  Alexandros Stamatakis,et al.  RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies , 2014, Bioinform..

[24]  Vaishali Katju,et al.  Copy-number changes in evolution: rates, fitness effects and adaptive significance , 2013, Front. Genet..

[25]  David W. Cheung,et al.  SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler , 2012, GigaScience.

[26]  L. Holm,et al.  The Pfam protein families database , 2011, Nucleic Acids Res..

[27]  Inge Jonassen,et al.  The genome sequence of Atlantic cod reveals a unique immune system , 2011, Nature.

[28]  R. Durbin,et al.  Inference of human population history from individual whole-genome sequences. , 2011, Nature.

[29]  R. Durbin,et al.  Inference of Human Population History From Whole Genome Sequence of A Single Individual , 2011, Nature.

[30]  Joshua M. Stuart,et al.  Genome 10K: a proposal to obtain whole-genome sequence for 10,000 vertebrate species. , 2009, The Journal of heredity.

[31]  Gonçalo R. Abecasis,et al.  The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..

[32]  Nansheng Chen,et al.  Using RepeatMasker to Identify Repetitive Elements in Genomic Sequences , 2009, Current protocols in bioinformatics.

[33]  Meredith E. Protas,et al.  Evolution of coloration patterns. , 2008, Annual review of cell and developmental biology.

[34]  Leng Han,et al.  CpG island density and its correlations with genomic features in mammalian genomes , 2008, Genome Biology.

[35]  Jonathan E. Allen,et al.  Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments , 2007, Genome Biology.

[36]  Jeffery P. Demuth,et al.  Accelerated Rate of Gene Gain and Loss in Primates , 2007, Genetics.

[37]  Robert S. Harris Improved Pairwise Alignmnet of Genomic DNA , 2007 .

[38]  Ziheng Yang PAML 4: phylogenetic analysis by maximum likelihood. , 2007, Molecular biology and evolution.

[39]  Manfred Schartl,et al.  Evolution of pigment synthesis pathways by gene and genome duplication in fish , 2007, BMC Evolutionary Biology.

[40]  Zhao Xu,et al.  LTR_FINDER: an efficient tool for the prediction of full-length LTR retrotransposons , 2007, Nucleic Acids Res..

[41]  Burkhard Morgenstern,et al.  AUGUSTUS: ab initio prediction of alternative transcripts , 2006, Nucleic Acids Res..

[42]  Amos Bairoch,et al.  The PROSITE database , 2005, Nucleic Acids Res..

[43]  Paramvir S. Dehal,et al.  TreeFam: a curated database of phylogenetic trees of animal gene families , 2005, Nucleic Acids Res..

[44]  Leszek Rychlewski,et al.  FFAS03: a server for profile–profile sequence alignments , 2005, Nucleic Acids Res..

[45]  Tatiana Tatusova,et al.  NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins , 2004, Nucleic Acids Res..

[46]  Sébastien Carrère,et al.  The ProDom database of protein domain families: more emphasis on 3D , 2004, Nucleic Acids Res..

[47]  Hiroaki Kitano,et al.  The PANTHER database of protein families, subfamilies, functions and pathways , 2004, Nucleic Acids Res..

[48]  R. Durbin,et al.  GeneWise and Genomewise. , 2004, Genome research.

[49]  Nansheng Chen,et al.  Using RepeatMasker to Identify Repetitive Elements in Genomic Sequences , 2009, Current protocols in bioinformatics.

[50]  S. Wright,et al.  Effects of recombination rate and gene density on transposable element distributions in Arabidopsis thaliana. , 2003, Genome research.

[51]  Rolf Apweiler,et al.  InterProScan - an integration platform for the signature-recognition methods in InterPro , 2001, Bioinform..

[52]  M. Ashburner,et al.  Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.

[53]  S. Karlin,et al.  Prediction of complete gene structures in human genomic DNA. , 1997, Journal of molecular biology.

[54]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[55]  J. P. Fontenot,et al.  Urea, Calcium, Potassium and Sulfur Impregnation of Whole Corn—Development and In Vitro Evaluation , 1985 .

[56]  Mosè Manni,et al.  BUSCO: Assessing Genome Assembly and Annotation Completeness. , 2019, Methods in molecular biology.

[57]  Hartmut Rehbein,et al.  Fishery products: quality, safety and authenticity. , 2009 .

[58]  Susumu Goto,et al.  KEGG: Kyoto Encyclopedia of Genes and Genomes , 2000, Nucleic Acids Res..

[59]  Peer Bork,et al.  SMART: identification and annotation of domains from signalling and extracellular protein sequences , 1999, Nucleic Acids Res..