作者：Erich D Jarvis (1)
Siavash Mirarab (2)
Andre J Aberer (3)
Bo Li (4) (5) (6)
Peter Houde (7)
Cai Li (4) (6)
Simon Y W Ho (8)
Brant C Faircloth (10) (9)
Benoit Nabholz (11)
Jason T Howard (1)
Alexander Suh (12)
Claudia C Weber (12)
Rute R da Fonseca (6)
Alonzo Alfaro-N煤帽ez (6)
Nitish Narula (13) (7)
Liang Liu (14)
Dave Burt (15)
Hans Ellegren (12)
Scott V Edwards (16)
Alexandros Stamatakis (17) (3)
David P Mindell (18)
Joel Cracraft (19)
Edward L Braun (20)
Tandy Warnow (2)
Wang Jun (21) (22) (23) (24) (4)
M Thomas Pius Gilbert (25) (6)
Guojie Zhang (26) (4)
The Avian Phylogenomics Consortium

1. Department of Neurobiology ; Howard Hughes Medical Institute and Duke University Medical Center ; Durham ; NC ; 27710 ; USA
2. Department of Computer Science ; The University of Texas at Austin ; Austin ; TX ; 78712 ; USA
3. Scientific Computing Group ; Heidelberg Institute for Theoretical Studies ; Heidelberg ; Germany
4. China National GeneBank ; BGI-Shenzhen ; Shenzhen ; 518083 ; China
5. College of Medicine and Forensics ; Xi鈥檃n Jiaotong University ; Xi鈥檃n ; 710061 ; China
6. Centre for GeoGenetics ; Natural History Museum of Denmark ; University of Copenhagen ; 脴ster Voldgade 5-7 ; 1350 ; Copenhagen ; Denmark
7. Department of Biology ; New Mexico State University ; Las Cruces ; NM ; 88003 ; USA
8. School of Biological Sciences ; University of Sydney ; Sydney ; NSW ; 2006 ; Australia
10. Department of Biological Sciences ; Louisiana State University ; Baton Rouge ; LA ; 70803 ; USA
9. Department of Ecology and Evolutionary Biology ; University of California Los Angeles ; Los Angeles ; CA ; 90095 ; USA
11. CNRS UMR 5554 ; Institut des Sciences de l鈥橢volution de Montpellier ; Universit茅 Montpellier II ; Montpellier ; France
12. Department of Evolutionary Biology ; Uppsala University ; SE-752 36 ; Uppsala ; Sweden
13. Biodiversity and Biocomplexity Unit ; Okinawa Institute of Science and Technology Onna-son ; Okinawa ; 904-0495 ; Japan
14. Department of Statistics and Institute of Bioinformatics ; University of Georgia ; Athens ; 30602 ; USA
15. Department of Genomics and Genetics ; The Roslin Institute and Royal (Dick) School of Veterinary Studies ; University of Edinburgh ; Easter Bush Campus ; Midlothian ; EH25 9RG ; UK
16. Department of Organismic and Evolutionary Biology and Museum of Comparative Zoology ; Harvard University ; Cambridge ; MA ; USA
17. Institute of Theoretical Informatics ; Department of Informatics ; Karlsruhe Institute of Technology ; D- 76131 ; Karlsruhe ; Germany
18. Department of Biochemistry & Biophysics ; University of California ; San Francisco ; CA ; 94158 ; USA
19. Department of Ornithology ; American Museum of Natural History ; New York ; NY ; 10024 ; USA
20. Department of Biology and Genetics Institute ; University of Florida ; Gainesville ; FL ; 32611 ; USA
21. Department of Biology ; University of Copenhagen ; Ole Maal酶es Vej 5 ; 2200 ; Copenhagen ; Denmark
22. Princess Al Jawhara Center of Excellence in the Research of Hereditary Disorders ; King Abdulaziz University ; Jeddah ; 21589 ; Saudi Arabia
23. Macau University of Science and Technology ; Avenida Wai long ; Taipa ; Macau ; 999078 ; China
24. Department of Medicine ; University of Hong Kong ; Hong Kong ; Hong Kong
25. Trace and Environmental DNA Laboratory Department of Environment and Agriculture ; Curtin University ; Perth ; WA ; 6102 ; Australia
26. Centre for Social Evolution ; Department of Biology ; Universitetsparken 15 ; University of Copenhagen ; DK-2100 ; Copenhagen ; Denmark

关键词：Avian genomes ; Phylogenomics ; Sequence alignments ; Species tree ; Gene trees ; Indels ; Transposable elements

刊名：GigaScience

出版年：2015

作者：Takafumi Ogawa (1)
Tetsuo Iwata (1)
Shinya Kaneko (2)
Mitsuhiro Itaya (3)
Junji Hirota (1) (4)

1. Department of Bioengineering ; Graduate School of Bioscience and Bioengineering ; Tokyo Institute of Technology ; Yokohama ; 226-8501 ; Japan
2. Department of Molecular Bioscience ; Graduate School of Bioscience and Bioengineering ; Tokyo Institute of Technology ; Yokohama ; 226-8501 ; Japan
3. Institute for Advanced Biosciences ; Keio University ; Tsuruoka ; 997-0017 ; Japan
4. Center for Biological Resources and Informatics ; Tokyo Institute of Technology ; 4259-B63 Nagatsuta-cho ; Midori-ku ; Yokohama ; 226-8501 ; Japan

关键词：Bacillus subtilis ; BGM vector ; Genome engineering ; RecA ; Homologous recombination

刊名：BMC Genomics

出版年：2015

作者：Guangdi Li (1) (2)
Supinya Piampongsant (1) (2)
Nuno Rodrigues Faria (3)
Arnout Voet (4)
Andrea-Clemencia Pineda-Pe帽a (2) (5)
Ricardo Khouri (2) (6)
Philippe Lemey (2)
Anne-Mieke Vandamme (2) (7)
Kristof Theys (2)

1. Metabolic Syndrome Research Center ; the Second Xiangya Hospital ; Central South University ; Changsha ; Hunan ; China
2. Rega Institute for Medical Research ; Department of Microbiology and Immunology ; KU Leuven ; Leuven ; Belgium
3. Department of Zoology ; University of Oxford ; Oxford ; OX1-3PS ; UK
4. Zhang IRU ; RIKEN Institute Laboratories ; Hirosawa 2-1 ; Wako-shi ; Saitama ; Japan
5. Clinical and Molecular Infectious Disease Group ; Faculty of Sciences and Mathematics ; Universidad del Rosario ; Bogot谩 ; Colombia
6. LIMI-LIP ; Centro de Pesquisa Gon莽alo Moniz ; FIOCRUZ ; Salvador-Bahia ; Brasil
7. Centro de Mal谩ria e Outras Doen莽as Tropicais and Unidade de Microbiologia ; Instituto de Higiene e Medicina Tropical ; Universidade Nova de Lisboa ; Lisbon ; Portugal

关键词：HIV genome ; Genomic diversity ; Conservation ; Peptide inhibitor ; HIV ; human protein interaction ; HIV phylogenetic tree ; HIV inter ; and inter ; clade genetic diversity ; Selective pressure ; Protein multimerization ; Protein intrinsic disorder

刊名：Retrovirology

出版年：2015

作者：Chao-Li Huang (1)
Pei-Hua Pu (1)
Hao-Jen Huang (1)
Huang-Mo Sung (1)
Hung-Jiun Liaw (1)
Yi-Min Chen (2)
Chien-Ming Chen (3)
Ming-Ban Huang (1)
Naoki Osada (4)
Takashi Gojobori (1) (4) (5)
Tun-Wen Pai (3)
Yu-Tin Chen (1)
Chi-Chuan Hwang (6)
Tzen-Yuh Chiang (1)

1. Department of Life Sciences ; National Cheng Kung University ; Tainan ; 701 ; Taiwan
2. Institute of Biotechnology ; National Cheng Kung University ; Tainan ; 701 ; Taiwan
3. Department of Computer Science and Engineering ; National Taiwan Ocean University ; Keelung ; 202 ; Taiwan
4. National Institute of Genetics ; Mishima ; Shizuoka ; 411-8540 ; Yata ; Japan
5. Computational Bioscience Research Center ; Biological and Environmental Sciences and Engineering Division ; King Abdullah University of Science and Technology ; Thuwal ; 23955-6900 ; Kingdom of Saudi Arabia
6. Department of Engineering Science and Supercomputing Research Center ; National Cheng Kung University ; Tainan ; 701 ; Taiwan

关键词：Xanthomonas ; Adaptive diversification ; Host shift ; Parapatric speciation ; Homologous recombination ; Comparative genomics

刊名：BMC Genomics

出版年：2015

作者：Kenji Nakahigashi (16)
Yuki Takai (16)
Yuh Shiwa (17) (18)
Mei Wada (16)
Masayuki Honma (16)
Hirofumi Yoshikawa (17) (19)
Masaru Tomita (16) (20)
Akio Kanai (16) (20)
Hirotada Mori (21)

16. Institute for Advanced Biosciences ; Keio University ; Tsuruoka ; Yamagata ; 997-0017 ; Japan
17. Genome Research Center ; NODAI Research Institute ; Tokyo University of Agriculture ; 1-1-1 Sakuragaoka Setagaya-ku ; Tokyo ; 156-8502 ; Japan
18. Division of Biobank and Data Management ; Iwate Tohoku Medical Megabank Organization ; Iwate Medical University Disaster Reconstruction Center ; 2-1-1 Nishitokuda ; Yahaba-cho ; Shiwa-gun ; Iwate ; 028-3694 ; Japan
19. Department of Bioscience ; Tokyo University of Agriculture ; 1-1-1 Sakuragaoka Setagaya-ku ; Tokyo ; 156-8502 ; Japan
20. Systems Biology Program ; Graduate School of Media and Governance ; Keio University ; Fujisawa ; 252-8520 ; Japan
21. Graduate School of Biological Sciences ; Nara Institute of Science and Technology ; Ikoma ; Nara ; 630-0101 ; Japan

关键词：Ribosome profiling ; Codon usage ; Codon preference ; Chloramphenicol ; Translation efficiency

刊名：BMC Genomics

出版年：2014

作者：Waleed H Omer (1)
Akira Narita (2) (6)
Kazuyoshi Hosomichi (1)
Shigeki Mitsunaga (2)
Yasuhiro Hayashi (3)
Atsushi Yamashita (3)
Avdyl Krasniqi (4)
Yuri Iwasaki (5)
Masami Kimura (5)
Ituro Inoue (1) (2)

1. Division of Human Genetics ; National Institute of Genetics ; The Graduate University for Advanced Studies (SOKENDAI) ; Yata 1111 ; Mishima ; 411-8540 ; Shizuoka ; Japan
2. Department of Molecular Life Sciences ; Basic Medical Science and Molecular Medicine ; Tokai University School of Medicine ; Shimokasuya143 ; Isehara ; 259-1193 ; Kanagawa ; Japan
6. Present address ; StaGen Co. ; Ltd. ; KUGA Building 8F ; 4-11-6 Kuramae ; Taito-ku ; Tokyo ; 111-0051 ; Japan
3. Faculty of Pharma-Sciences ; Teikyo University ; Kaga ; 2-11-1 ; Itabashi-ku ; Tokyo ; 173-8605 ; Japan
4. Department of Abdominal Surgery ; University Clinical Center of Kosovo ; 10 000 ; Prishtina ; Kosovo
5. Health Insurance Hitoyoshi General Hospital ; Oikami-machi 35 ; Hitoyoshi ; 868-8555 ; Kumamoto ; Japan

关键词：Exome re ; sequencing ; Splenic epidermoid cyst ; HMCN1 ; Linkage analysis

刊名：BMC Medical Genetics

出版年：2014

作者：1. Laboratory of Clinical & Epidemiological Virology ; Department of Microbiology & Immunology ; Rega Institute for Medical Research ; University of Leuven ; Minderbroedersstraat 10 ; 3000 Leuven ; Belgium2. Clinical Research and Development ; Novartis Vaccines & Diagnostics ; Inc ; Cambridge ; MA 02139 ; USA3. Laboratory of Infectious Diseases ; National Institute of Allergy and Infectious Diseases ; National Institutes of Health ; Bethesda ; MD 20892 ; USA4. Vector-Borne Diseases Program ; Institute for Animal Health ; Ash Road ; Pirbright ; Surrey ; GU24 0NF UK5. Veterinary Medical Research Institute ; Hungarian Academy of Sciences ; Hungária krt. 21 ; Budapest ; 1143 Hungary6. National Center for Biotechnology Information ; National Library of Medicine ; National Institutes of Health ; Bethesda ; MD 20892 ; USA7. Department of Microbiology and Ecology ; School of Medicine ; University of Valencia ; Avda. Blasco Ibá?ez ; 17 ; 46010 Valencia ; Spain8. Division of Viral Diseases ; National Center for Immunization and Respiratory Diseases ; Centers for Disease Control and Prevention ; Atlanta ; GA ; USA9. Department of Molecular Virology and Microbiology and Medicine-GI ; Baylor College of Medicine ; Houston ; USA10. Enteric Virus Unit ; Virus Reference Department ; Centre for Infection ; Health Protection Agency ; Colindale ; London ; UK11. Federal Institute for Risk Assessment ; Berlin ; Germany12. Enteric Virus Research Group ; Murdoch Childrens Research Institute ; Royal Children’s Hospital ; Parkville ; VIC ; Australia13. Department of Veterinary Public Health ; University of Bari ; Bari ; Italy14. Department of Molecular Microbiology and Immunology ; Nagasaki University ; Nagasaki ; 852-8523 Japan15. Instituto de Virología ; CICVyA ; INTA Castelar ; Buenos Aires ; Argentina16. Laboratory of Virology ; ICDDRB ; Mohakhali ; Dhaka ; 1212 Bangladesh17. Department of Veterinary Public Health & Food Safety ; Istituto Superiore di Sanità ; Rome ; Italy18. Food Animal Health Research Program ; Ohio Agricultural Research and Development Center ; The Ohio State University ; Wooster ; OH 44691 ; USA19. Departamento de Virologia ; Instituto de Microbiologia ; Universidade Federal do Rio de Janeiro ; Rio de Janeiro ; Brazil20. University of Ljubljana ; Faculty of Medicine ; Institute of Microbiology and Immunology ; Zaloska 4 ; 1104 Ljubljana ; Slovenia21. Department of Virology and Parasitology ; Fujita Health University School of Medicine ; Toyoake ; Aichi 470-1192 ; Japan22. Department of Medicine ; Addenbrooke’s Hospital ; University of Cambridge ; Cambridge ; UK

刊名：Archives of Virology

出版年：2011