作者： Francesco Napolitano

关键词：Reproducible research ; R language ; Data flows ; Data pipelines

刊名：BMC Bioinformatics

出版年：2017

作者：Takanori Hasegawa (1)
Tomoya Mori (1)
Rui Yamaguchi (2)
Teppei Shimamura (3)
Satoru Miyano (2)
Seiya Imoto (2)
Tatsuya Akutsu (1)

1. Bioinformatics Center ; Institute for Chemical Research ; Kyoto University ; Gokasho ; Kyoto ; 611-0011 Uji ; Japan
2. Human Genome Center ; The Institute of Medical Science ; The University of Tokyo ; 4-6-1 Shirokanedai ; Tokyo ; 108-8639 Minato-ku ; Japan
3. Division of Systems Biology ; Nagoya University Graduate School of Medicine ; 65 Tsurumai-cho ; Nagoya ; 466-8550 Showa-ku ; Japan

关键词：Gene regulatory networks ; Time series analysis ; Systems biology ; Data assimilation ; Monte Carlo

刊名：BMC Systems Biology

出版年：2015

作者：Josep Basha Gutierrez (20)
Martin Frith (21)
Kenta Nakai (22)

20. Department of Medical Bioinformatics ; Graduate School of Frontier Sciences ; The University of Tokyo ; 5-1-5 Kashiwanoha ; Kashiwa-shi ; Chiba-ken ; 277-8561 ; Japan
21. Computational Biology Research Center ; AIST Tokyo Waterfront Bio-IT Research Building ; 2-4-7 Aomi ; Koto-ku ; Tokyo ; 135-0064 ; Japan
22. Human Genome Center ; The Institute of Medical Science ; The University of Tokyo ; 4-6-1 Shirokane-dai ; Minato-ku ; Tokyo ; 108-8639 ; Japan

关键词：Motif finding ; Genetic Algorithm ; Transcription Factor Binding Site ; Statistical significance

刊名：Lecture Notes in Computer Science

出版年：2015

作者：Robert Hoehndorf (1) (2)
Luke Slater (1) (2) (3)
Paul N Schofield (4)
Georgios V Gkoutos (3)

1. Computational Bioscience Research Center ; King Abdullah University of Science and Technology ; 4700 KAUST ; Thuwal ; 23955-6900 ; Saudi Arabia
2. Computer ; Electrical and Mathematical Sciences & Engineering Division ; King Abdullah University of Science and Technology ; 4700 KAUST ; Thuwal ; 23955-6900 ; Saudi Arabia
3. Department of Computer Science ; Aberystwyth University ; Llandinam Building ; Aberystwyth ; SY23 3DB ; UK
4. Department of Physiology ; Development & Neuroscience ; University of Cambridge ; Downing Street ; Cambridge ; CB2 3EG ; UK

关键词：Ontology ; based data access ; Linked data ; OWL

刊名：BMC Bioinformatics

出版年：2015

作者：Lin Gou (1)
Yi Zhan (2) (3)
Jinhyuk Lee (4) (5)
Xuan Li (6)
Zhi-Rong L眉 (3)
Hai-Meng Zhou (2) (3)
Hang Lu (7)
Xi-Yao Wang (8)
Yong-Doo Park (3)
Jun-Mo Yang (9)

1. College of Biology and Science ; Sichuan Agriculture University ; Chengdu ; 611130 ; People鈥檚 Republic of China
2. School of Life Science ; Tsinghua University ; Zhongguancun Street ; Beijing ; 100084 ; People鈥檚 Republic of China
3. Zhejiang Provincial Key Laboratory of Applied Enzymology ; Yangtze Delta Region Institute of Tsinghua University ; Jiaxing ; 314006 ; People鈥檚 Republic of China
4. Korean Bioinformation Center (KOBIC) ; Korea Research Institute of Bioscience and Biotechnology ; Daejeon ; 305-806 ; Republic of Korea
5. Department of Bioinformatics ; University of Sciences and Technology ; Daejeon ; 305-350 ; Republic of Korea
6. College of Life Sciences ; Zhejiang Sci-Tech University ; Hangzhou ; 310018 ; People鈥檚 Republic of China
7. College of Landscape Architecture ; Sichuan Agriculture University ; Cheng Du ; 611130 ; People鈥檚 Republic of China
8. College of Agronomy ; Sichuan Agriculture University ; Cheng Du ; 611130 ; People鈥檚 Republic of China
9. Department of Dermatology ; Sungkyunkwan University School of Medicine ; Samsung Medical Center ; Seoul ; 135-710 ; Republic of Korea

关键词：Alpha ; glucosidase ; Malic acid ; Inhibition

刊名：Applied Biochemistry and Biotechnology

出版年：2015

作者：Xin Wang (1) (2)
Adrian M. Dubuc (1) (2)
Vijay Ramaswamy (1) (2) (3)
Stephen Mack (1) (2)
Deena M. A. Gendoo (4)
Marc Remke (1) (2)
Xiaochong Wu (1)
Livia Garzia (1)
Betty Luu (1)
Florence Cavalli (1)
John Peacock (1) (2)
Borja L贸pez (1)
Patryk Skowron (1) (2)
David Zagzag (5)
David Lyden (6)
Caitlin Hoffman (1) (7)
Yoon-Jae Cho (8)
Charles Eberhart (9)
Tobey MacDonald (10)
Xiao-Nan Li (11)
Timothy Van Meter (12)
Paul A. Northcott (13)
Benjamin Haibe-Kains (14) (4)
Cynthia Hawkins (15)
James T. Rutka (7)
Eric Bouffet (3)
Stefan M. Pfister (13)
Andrey Korshunov (16)
Michael D. Taylor (1) (7)

1. Developmental and Stem Cell Biology Program ; The Hospital for Sick Children ; University of Toronto ; Toronto ; ON ; Canada
2. Department of Laboratory Medicine and Pathobiology ; University of Toronto ; Toronto ; ON ; Canada
3. Division of Haematology/Oncology ; Hospital for Sick Children ; Toronto ; ON ; Canada
4. Bioinformatics and Computational Genomics Laboratory ; Princess Margaret Cancer Centre ; University Health Network ; Toronto ; ON ; Canada
5. Departments of Pathology and Neurosurgery ; NYU Langone Medical Center ; New York ; NY ; USA
6. Departments of Pediatrics ; Cell and Developmental Biology ; Weill Medical College of Cornell University ; New York ; NY ; USA
7. Division of Neurosurgery ; Hospital for Sick Children ; 555 University Ave ; Ste 1503 ; Toronto ; ON ; M5C 1X8 ; Canada
8. Department of Neurology and Neurological Sciences ; Stanford University School of Medicine ; Stanford ; CA ; USA
9. Departments of Pathology ; Ophthalmology and Oncology ; John Hopkins University School of Medicine ; Baltimore ; MD ; USA
10. Pediatric Neuro-Oncology Program ; Emory University School of Medicine ; Atlanta ; GA ; USA
11. Department of Pediatrics ; Brain Tumor Program ; Children鈥檚 Cancer Center ; Baylor College of Medicine ; Houston ; TX ; USA
12. Department of Pediatrics ; Virginia Commonwealth University School of Medicine ; Richmond ; VA ; USA
13. Division of Pediatric Neurooncology ; Department of Pediatric Hematology and Oncology ; German Cancer Consortium (DKTK) ; German Cancer Research Center (DKFZ) ; Heidelberg University Hospital ; Heidelberg ; Germany
14. Department of Medical Biophysics ; University of Toronto ; Toronto ; ON ; Canada
15. Department of Pathology ; Hospital for Sick Children ; Toronto ; ON ; Canada
16. Clinical Cooperation Unit Neuropathology ; German Cancer Research Center (DKFZ) ; Heidelberg ; Germany

关键词：Medulloblastoma ; Metastasis ; Molecular subgroups ; Integrative genomics ; Gene expression ; DNA methylation

刊名：Acta Neuropathologica

出版年：2015

作者：Juyong Lee (1) (2)
Kiho Lee (2)
InSuk Joung (2) (4)
Keehyoung Joo (2) (3)
Bernard R Brooks (1)
Jooyoung Lee (2) (4)

1. Laboratory of Computational Biology ; National Heart ; Lung ; and Blood Institute ; National Institutes of Health ; 5635 Fishers Ln ; Bethesda ; 20852 ; USA
2. Center for In Silico Protein Science ; Korea Institute for Advanced Study ; Seoul ; Korea
4. School of Computational Sciences ; Korea Institute for Advanced Study ; Seoul ; Korea
3. Center for Advanced Computation ; Korea Institute for Advanced Study ; Seoul ; Korea

关键词：Template ; based modeling ; Homology modeling ; Random forest ; Machine learning ; Protein structure ; Protein structure prediction ; Protein sequence ; Bioinformatics ; Statistics

刊名：BMC Bioinformatics

出版年：2015

作者：Arnon Mazza (5)
Allon Wagner (5) (6)
Eytan Ruppin (5) (7) (8)
Roded Sharan (5)

5. Blavatnik School of Computer Science ; Tel Aviv University ; 69978 ; Tel Aviv ; Israel
6. Department of Electrical Engineering and Computer Science ; University of California ; Berkeley ; CA ; 94720-1770 ; USA
7. The Sackler School of Medicine ; Tel Aviv University ; 69978 ; Tel Aviv ; Israel
8. Department of Computer Science ; Institute of Advanced Computer Sciences (UMIACS) & the Center for Bioinformatics and Computational Biology ; University of Maryland ; College Park ; MD ; 20742 ; USA

刊名：Lecture Notes in Computer Science

出版年：2015

作者：Ali J Berens (1) (2)
James H Hunt (3) (4) (5)
Amy L Toth (1) (2) (6)

1. Program in Bioinformatics and Computational Biology ; Iowa State University ; Ames ; IA ; 50011 ; USA
2. Department of Ecology ; Evolution ; and Organismal Biology ; Iowa State University ; Ames ; IA ; 50011 ; USA
3. Department of Biological Sciences ; North Carolina State University ; Raleigh ; NC ; 27695 ; USA
4. Department of Entomology ; North Carolina State University ; Raleigh ; NC ; 27695 ; USA
5. W. M. Keck Center for Behavioral Biology ; North Carolina State University ; Raleigh ; NC ; 27695 ; USA
6. Department of Entomology ; Iowa State University ; Ames ; IA ; 50011 ; USA

关键词：Phenotypic plasticity ; Nourishment ; Social castes ; Transcriptomics ; Polistes

刊名：BMC Genomics

出版年：2015

作者：Muneesh Tewari (1)

1. Departments of Internal Medicine and Bioengineering ; Biointerfaces Institute and Center for Computational Medicine and Bioinformatics ; University of Michigan ; 109 Zina Pitcher Place ; 4029 BSRB ; SPC 2200 ; Ann Arbor ; MI ; 48109-2200 ; USA

刊名：Genome Biology

出版年：2015