The tiger genome and comparative analysis with lion and snow leopard genomes

[1]  Yun Sung Cho,et al.  The Genetic Basis of White Tigers , 2013, Current Biology.

[2]  Huanming Yang,et al.  Whole-genome sequencing of giant pandas provides insights into demographic history and local adaptation , 2012, Nature Genetics.

[3]  Loretta Auvil,et al.  The yak genome and adaptation to life at high altitude , 2012, Nature Genetics.

[4]  Carolyn Tregidgo,et al.  Genome Sequencing and Analysis of the Tasmanian Devil and Its Transmissible Cancer , 2012, Cell.

[5]  Albert J. Vilella,et al.  Insights into hominid evolution from the gorilla genome sequence , 2012, Nature.

[6]  The UniProt Consortium,et al.  Reorganizing the protein space at the Universal Protein Resource (UniProt) , 2011, Nucleic Acids Res..

[7]  A. Linacre,et al.  The complete mitochondrial genome analysis of the tiger (Panthera tigris) , 2011, Molecular Biology Reports.

[8]  Kristopher J. L. Irizarry,et al.  Sequencing and comparative genomic analysis of 1227 Felis catus cDNA sequences enriched for developmental, clinical and nutritional phenotypes , 2012, BMC Genomics.

[9]  L. Peshkin,et al.  Genome sequencing reveals insights into physiology and longevity of the naked mole rat , 2011, Nature.

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

[11]  N. Friedman,et al.  Trinity: reconstructing a full-length transcriptome without a genome from RNA-Seq data , 2011, Nature Biotechnology.

[12]  Tom H. Pringle,et al.  Genetic diversity and population structure of the endangered marsupial Sarcophilus harrisii (Tasmanian devil) , 2011, Proceedings of the National Academy of Sciences.

[13]  Carol Soderlund,et al.  SyMAP v3.4: a turnkey synteny system with application to plant genomes , 2011, Nucleic acids research.

[14]  Yiping Shen,et al.  A genome-wide search for signals of high-altitude adaptation in Tibetans. , 2011, Molecular biology and evolution.

[15]  Albert J. Vilella,et al.  Comparative and demographic analysis of orang-utan genomes , 2011, Nature.

[16]  Evgeny M. Zdobnov,et al.  OrthoDB: the hierarchical catalog of eukaryotic orthologs in 2011 , 2010, Nucleic Acids Res..

[17]  E. Eichler,et al.  Limitations of next-generation genome sequence assembly , 2011, Nature Methods.

[18]  Adam C. Siepel,et al.  PHAST and RPHAST: phylogenetic analysis with space/time models , 2011, Briefings Bioinform..

[19]  Le Kang,et al.  De Novo Analysis of Transcriptome Dynamics in the Migratory Locust during the Development of Phase Traits , 2010, PloS one.

[20]  S. O’Brien,et al.  Applying molecular genetic tools to tiger conservation. , 2010, Integrative zoology.

[21]  J. Ragle,et al.  IUCN Red List of Threatened Species , 2010 .

[22]  G. Luikart,et al.  Genomics and the future of conservation genetics , 2010, Nature Reviews Genetics.

[23]  Kathy MacKinnon,et al.  Bringing the Tiger Back from the Brink—The Six Percent Solution , 2010, PLoS biology.

[24]  P. Bork,et al.  A method and server for predicting damaging missense mutations , 2010, Nature Methods.

[25]  Dawei Li,et al.  The sequence and de novo assembly of the giant panda genome , 2010, Nature.

[26]  Nancy F. Hansen,et al.  Light whole genome sequence for SNP discovery across domestic cat breeds , 2010, BMC Genomics.

[27]  Christoph Mayer,et al.  Genome-wide analysis of tandem repeats in Daphnia pulex - a comparative approach , 2010, BMC Genomics.

[28]  Siu-Ming Yiu,et al.  SOAP2: an improved ultrafast tool for short read alignment , 2009, Bioinform..

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

[30]  Richard Durbin,et al.  Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .

[31]  S. O’Brien,et al.  Mitochondrial Phylogeography Illuminates the Origin of the Extinct Caspian Tiger and Its Relationship to the Amur Tiger , 2009, PloS one.

[32]  Thomas J. Nicholas,et al.  The genomic architecture of segmental duplications and associated copy number variants in dogs. , 2008, Genome research.

[33]  E. Birney,et al.  Pfam: the protein families database , 2013, Nucleic Acids Res..

[34]  R. S. W. van de Wal,et al.  North American ice-sheet dynamics and the onset of 100,000-year glacial cycles , 2008, Nature.

[35]  M. Wojczynski,et al.  Definition of phenotype. , 2008, Advances in genetics.

[36]  Jean L. Chang,et al.  Initial sequence and comparative analysis of the cat genome. , 2007, Genome research.

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

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

[39]  Keith Bradnam,et al.  CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes , 2007, Bioinform..

[40]  David N. Messina,et al.  Evolutionary and Biomedical Insights from the Rhesus Macaque Genome , 2007, Science.

[41]  M. Ruggero,et al.  Similarity of Traveling-Wave Delays in the Hearing Organs of Humans and Other Tetrapods , 2007, Journal for the Association for Research in Otolaryngology.

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

[43]  G. Weinstock,et al.  Creating a honey bee consensus gene set , 2007, Genome Biology.

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

[45]  David Haussler,et al.  The UCSC Known Genes , 2006, Bioinform..

[46]  Agostinho Antunes,et al.  The Late Miocene Radiation of Modern Felidae: A Genetic Assessment , 2006, Science.

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

[48]  Jean L. Chang,et al.  Initial sequence of the chimpanzee genome and comparison with the human genome , 2005, Nature.

[49]  D. Haussler,et al.  Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. , 2005, Genome research.

[50]  Ari Löytynoja,et al.  An algorithm for progressive multiple alignment of sequences with insertions. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[51]  S. O’Brien,et al.  Tyrosinase and tyrosinase related protein 1 alleles specify domestic cat coat color phenotypes of the albino and brown loci. , 2005, The Journal of heredity.

[52]  Timothy B Sackton,et al.  A Scan for Positively Selected Genes in the Genomes of Humans and Chimpanzees , 2005, PLoS biology.

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

[54]  Sean R. Eddy,et al.  Rfam: annotating non-coding RNAs in complete genomes , 2004, Nucleic Acids Res..

[55]  James G. R. Gilbert,et al.  The vertebrate genome annotation (Vega) database , 2004, Nucleic Acids Res..

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

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

[58]  James L. D. Smith,et al.  Phylogeography and Genetic Ancestry of Tigers (Panthera tigris) , 2004, PLoS biology.

[59]  E. Schwinger,et al.  Detection of 53 novel DNA variations within the tyrosinase gene and accumulation of mutations in 17 patients with albinism , 2004, Human mutation.

[60]  Jianzhi Zhang,et al.  Testing the chromosomal speciation hypothesis for humans and chimpanzees. , 2004, Genome research.

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

[62]  Lm Smith,et al.  Collecting, archiving and processing DNA from wildlife samples using FTA® databasing paper , 2004, BMC Ecology.

[63]  D. Haussler,et al.  Aligning multiple genomic sequences with the threaded blockset aligner. , 2004, Genome research.

[64]  H. Prins,et al.  The Role of Incentive Programs in Conserving the Snow Leopard , 2003 .

[65]  Stephen M. Mount,et al.  Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies. , 2003, Nucleic acids research.

[66]  C. Summers,et al.  Tyrosinase gene mutations in oculocutaneous albinism 1 (OCA1): definition of the phenotype , 2003, Human Genetics.

[67]  Rodrigo Lopez,et al.  Multiple sequence alignment with the Clustal series of programs , 2003, Nucleic Acids Res..

[68]  W. J. Kent,et al.  BLAT--the BLAST-like alignment tool. , 2002, Genome research.

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

[70]  J. Rice,et al.  Definition of the phenotype. , 2001, Advances in genetics.

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

[72]  Rolf Apweiler,et al.  The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000 , 2000, Nucleic Acids Res..

[73]  S Rozen,et al.  Primer3 on the WWW for general users and for biologist programmers. , 2000, Methods in molecular biology.

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

[75]  Hiroyuki Ogata,et al.  KEGG: Kyoto Encyclopedia of Genes and Genomes , 1999, Nucleic Acids Res..

[76]  G. Benson,et al.  Tandem repeats finder: a program to analyze DNA sequences. , 1999, Nucleic acids research.

[77]  James L. D. Smith,et al.  Landscape Analysis of Tiger Distribution and Habitat Quality in Nepal , 1998 .

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

[79]  S. Eddy,et al.  tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. , 1997, Nucleic acids research.

[80]  T. Attwood,et al.  PRINTS--a database of protein motif fingerprints. , 1994, Nucleic acids research.

[81]  T. Attwood,et al.  PRINTS--a protein motif fingerprint database. , 1994, Protein engineering.

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

[83]  J. Corbett.  The Temple Tiger and More Man-Eaters of Kumaon , 1946 .