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：Steve Hoffmann (1) (2) (3)
Peter F Stadler (2) (3) (4) (5) (6) (7) (8)
Korbinian Strimmer (10) (9)

1. Junior Research Group Transcriptome Bioinformatics ; University Leipzig ; H盲rtelstra脽e 16-18 ; Leipzig ; Germany
2. Interdisciplinary Center for Bioinformatics and Bioinformatics Group ; University Leipzig ; H盲rtelstra脽e 16-18 ; Leipzig ; Germany
3. LIFE Research Center for Civilization Diseases ; University Leipzig ; H盲rtelstra脽e 16-18 ; Leipzig ; Germany
4. Department of Theoretical Chemistry ; University Vienna ; W盲hringer Stra脽e 17 ; Vienna ; Austria
5. RNomics Group ; Fraunhofer Institute for Cell Therapy and Immunology 鈥?IZI ; Perlickstra脽e 1 ; Leipzig ; Germany
6. Max-Planck-Institute for Mathematics in the Sciences ; Inselstra脽e 22 ; Leipzig ; Germany
7. Center for non-coding RNA in Technology and Health ; University of Copenhagen ; Gr酶nneg氓rdsvej 3 ; Frederiksberg ; Denmark
8. Santa Fe Institute ; 1399 Hyde Park Road ; Santa Fe ; USA
10. Department of Epidemiology and Biostatistics ; Imperial College London ; Norfolk Place ; London W2 1PG ; UK
9. Institute for Medical Informatics ; Statistics and Epidemiology ; University of Leipzig ; H盲rtelstra脽e 16鈥?8 ; Leipzig ; D-04107 ; Germany

刊名：Algorithms for Molecular Biology

出版年：2015

作者：Fabian Amman (30) (31)
Michael T Wolfinger (31) (32) (33)
Ronny Lorenz (31)
Ivo L Hofacker (31) (34) (38)
Peter F Stadler (30) (31) (34) (35) (36) (37)
Sven Findei脽 (31) (38)

30. Bioinformatics Group ; Department of Computer Science and the Interdisciplinary Center for Bioinformatic ; University of Leipzig ; H盲rtelstra脽e 16鈥?8 ; 04107 ; Leipzig ; Germany
31. Institute for Theoretical Chemistry ; University of Vienna ; W盲hringerstra脽e 17 ; 1090 ; Vienna ; Austria
32. Center for Integrative Bioinformatics Vienna (CIBIV) ; Max F. Perutz Laboratories ; University of Vienna ; Medical University of Vienna ; Dr. Bohr-Gasse 9 ; 1030 ; Vienna ; Austria
33. Department of Biochemistry and Molecular Cell Biology ; Max F. Perutz Laboratories ; University of Vienna ; Dr. Bohr-Gasse 9 ; 1030 ; Vienna ; Austria
34. Center for RNA in Technology and Health ; University of Copenhagen ; Gr酶nneg氓rdsvej 3 ; Frederiksberg C ; Denmark
38. Research group Bioinformatics and Computational Biology ; Faculty of Computer Science ; University of Vienna ; W盲hringerstra脽e 29 ; 1090 ; Vienna ; Austria
35. Max Planck Institute for Mathematics in the Sciences ; Inselstra脽e 22 ; D-04103 ; Leipzig ; Germany
36. Fraunhofer Institute for Cell Therapy and Immunology ; Perlickstra脽e 1 ; D-04103 ; Leipzig ; Germany
37. Santa Fe Institute ; 1399 Hyde Park Road ; Santa Fe NM ; 87501 ; USA

关键词：Differential RNA sequencing ; dRNA ; seq ; TSS ; Transcription start site annotation ; Transcriptome ; RESTful Web service ; Next generation sequencing

刊名：BMC Bioinformatics

出版年：2014

作者：Christian Anthon (1) (2)
Hakim Tafer (3) (4)
Jakob H Havgaard (1) (2)
Bo Thomsen (5)
Jakob Hedegaard (5) (6)
Stefan E Seemann (1) (2)
Sachin Pundhir (1) (2)
Stephanie Kehr (3) (4)
Sebastian Bartschat (3) (4)
Mathilde Nielsen (5)
Rasmus O Nielsen (5) (7)
Merete Fredholm (1) (2)
Peter F Stadler (1) (3) (4)
Jan Gorodkin (1) (2)

1. Center for non-coding RNA in Technology and Health ; University of Copenhagen ; DK-1870 ; Frederiksberg ; Denmark
2. Department of Clinical and Animal Sciences ; University of Copenhagen ; DK-1870 ; Frederiksberg ; Denmark
3. Bioinformatics Group ; Department of Computer Science ; Interdisciplinary Center for Bioinformatics ; Universit盲t Leipzig ; H盲rtelstr. 16 - 18 ; D-04107 ; Leipzig ; Germany
4. Transcriptome Bioinformatics group ; LIFE ; Leipzig Research Center for Civilization Diseases ; Universit盲t Leipzig ; Philipp-Rosenthal-Strasse 27 ; D-04107 ; Leipzig ; Germany
5. Department of Molecular Biology and Genetics ; Aarhus University ; Blichers All茅 20 ; DK-8830 ; Tjele ; Denmark
6. Department of Molecular Medicine (MOMA) ; Molecular Diagnostic Laboratory ; Aarhus University Hospital ; Skejby ; Brendstrupgaardsvej 100 ; DK-8200 ; Aarhus N ; Denmark
7. GenoSkan A/S ; Niels Pedersens All茅 2 ; DK-8830 ; Tjele ; Denmark

刊名：BMC Genomics

出版年：2014

作者：Jan Kok (1)
Eric Johansen (2)
Michiel Kleerebezem (3)
Bas Teusink (4)

1. Department of Molecular Genetics ; Groningen Biomolecular Sciences and Biotechnology Institute ; University of Groningen ; Top Institute Food and Nutrition ; Wageningen ; the Netherlands
2. Innovation ; Chr. Hansen A/S ; H酶rsholm ; Denmark
3. Host-Microbe Interactomics Group and Top Institute Food and Nutrition ; Wageningen ; NIZO Food Research ; Ede ; the Netherlands
4. Systems Bioinformatics ; Amsterdam Institute for Molecules ; Medicines and Systems ; VU University ; Amsterdam ; the Netherlands

刊名：Microbial Cell Factories

出版年：2014