Long-term dataset on aquatic responses to concurrent climate change and recovery from acidification.

Autor: Leach TH; Rensselaer Polytechnic Institute, Department of Biological Sciences, Troy, New York 12180, USA., Winslow LA; Rensselaer Polytechnic Institute, Department of Biological Sciences, Troy, New York 12180, USA., Acker FW; Patrick Center for Environmental Research, Academy of Natural Sciences of Drexel University, Philadelphia, Pennsylvania 19103, USA., Bloomfield JA; New York State Department of Environmental Conservation, Albany, New York 12233, USA., Boylen CW; Rensselaer Polytechnic Institute, Department of Biological Sciences, Troy, New York 12180, USA.; Darrin Fresh Water Institute, Bolton Landing, New York 12814, USA., Bukaveckas PA; Virginia Commonwealth University, Center for Environmental Studies and Department of Biology, Richmond, Virginia 23111, USA., Charles DF; Patrick Center for Environmental Research, Academy of Natural Sciences of Drexel University, Philadelphia, Pennsylvania 19103, USA., Daniels RA; New York State Museum, Cultural Education Center, Albany, New York 12230, USA., Driscoll CT; Department of Civil and Environmental Engineering, Syracuse University, Syracuse, New York 13244, USA., Eichler LW; Darrin Fresh Water Institute, Bolton Landing, New York 12814, USA., Farrell JL; Darrin Fresh Water Institute, Bolton Landing, New York 12814, USA., Funk CS; U.S. Environmental Protection Agency, Clean Air Markets Division, Washington, DC 20460, USA., Goodrich CA; Darrin Fresh Water Institute, Bolton Landing, New York 12814, USA., Michelena TM; Wenzhou-Kean University, Department of Biology, Wenzhou, Zhejiang Province 325060, China., Nierzwicki-Bauer SA; Rensselaer Polytechnic Institute, Department of Biological Sciences, Troy, New York 12180, USA.; Darrin Fresh Water Institute, Bolton Landing, New York 12814, USA., Roy KM; New York State Department of Environmental Conservation, Division of Air Resources, Adirondack Long Term Monitoring Project, Ray Brook, New York 12944, USA., Shaw WH; Sullivan County Community College, Science Division, Loch Sheldrake, New York 12759, USA.; Marist College, Poughkeepsie, New York 12601, USA.; Cary Institute of Ecosystem Studies, Millbrook, New York 12545, USA., Sutherland JW; New York State Department of Environmental Conservation, Albany, New York 12233, USA., Swinton MW; Darrin Fresh Water Institute, Bolton Landing, New York 12814, USA., Winkler DA; Darrin Fresh Water Institute, Bolton Landing, New York 12814, USA., Rose KC; Rensselaer Polytechnic Institute, Department of Biological Sciences, Troy, New York 12180, USA.

Publikováno v: Scientific data [Sci Data] 2018 Apr 10; Vol. 5, pp. 180059. Date of Electronic Publication: 2018 Apr 10.

An expanded evaluation of protein function prediction methods shows an improvement in accuracy.

Autor: Jiang Y; Department of Computer Science and Informatics, Indiana University, Bloomington, IN, USA., Oron TR; Buck Institute for Research on Aging, Novato, CA, USA., Clark WT; Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, USA., Bankapur AR; Department of Microbiology, Miami University, Oxford, OH, USA., D'Andrea D; University of Rome, La Sapienza, Rome, Italy., Lepore R; University of Rome, La Sapienza, Rome, Italy., Funk CS; Computational Bioscience Program, University of Colorado School of Medicine, Aurora, CO, USA., Kahanda I; Department of Computer Science, Colorado State University, Fort Collins, CO, USA., Verspoor KM; Department of Computing and Information Systems, University of Melbourne, Parkville, Victoria, Australia.; Health and Biomedical Informatics Centre, University of Melbourne, Parkville, Victoria, Australia., Ben-Hur A; Department of Computer Science, Colorado State University, Fort Collins, CO, USA., Koo da CE; Department of Biology, New York University, New York, NY, USA., Penfold-Brown D; Social Media and Political Participation Lab, New York University, New York, NY, USA.; CY Data Science, New York, NY, USA., Shasha D; Department of Computer Science, New York University, New York, NY, USA., Youngs N; CY Data Science, New York, NY, USA.; Department of Computer Science, New York University, New York, NY, USA.; Simons Center for Data Analysis, New York, NY, USA., Bonneau R; Department of Computer Science, New York University, New York, NY, USA.; Simons Center for Data Analysis, New York, NY, USA.; Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY, USA., Lin A; Department of Electrical Engineering and Computer Sciences, University of California Berkeley, Berkeley, CA, USA., Sahraeian SM; Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, CA, USA., Martelli PL; Biocomputing Group, BiGeA, University of Bologna, Bologna, Italy., Profiti G; Biocomputing Group, BiGeA, University of Bologna, Bologna, Italy., Casadio R; Biocomputing Group, BiGeA, University of Bologna, Bologna, Italy., Cao R; Computer Science Department, University of Missouri, Columbia, MO, USA., Zhong Z; Computer Science Department, University of Missouri, Columbia, MO, USA., Cheng J; Computer Science Department, University of Missouri, Columbia, MO, USA., Altenhoff A; ETH Zurich, Zurich, Switzerland.; Swiss Institute of Bioinformatics, Zurich, Switzerland., Skunca N; ETH Zurich, Zurich, Switzerland.; Swiss Institute of Bioinformatics, Zurich, Switzerland., Dessimoz C; Bioinformatics Group, Department of Computer Science, University College London, London, UK.; University of Lausanne, Lausanne, Switzerland.; Swiss Institute of Bioinformatics, Lausanne, Switzerland., Dogan T; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Hakala K; Department of Information Technology, University of Turku, Turku, Finland.; University of Turku Graduate School, University of Turku, Turku, Finland., Kaewphan S; Department of Information Technology, University of Turku, Turku, Finland.; University of Turku Graduate School, University of Turku, Turku, Finland.; Turku Centre for Computer Science, Turku, Finland., Mehryary F; Department of Information Technology, University of Turku, Turku, Finland.; University of Turku Graduate School, University of Turku, Turku, Finland., Salakoski T; Department of Information Technology, University of Turku, Turku, Finland.; Turku Centre for Computer Science, Turku, Finland., Ginter F; Department of Information Technology, University of Turku, Turku, Finland., Fang H; University of Bristol, Bristol, UK., Smithers B; University of Bristol, Bristol, UK., Oates M; University of Bristol, Bristol, UK., Gough J; University of Bristol, Bristol, UK., Törönen P; Institute of Biotechnology, University of Helsinki, Helsinki, Finland., Koskinen P; Institute of Biotechnology, University of Helsinki, Helsinki, Finland., Holm L; Institute of Biotechnology, University of Helsinki, Helsinki, Finland.; Department of Biological and Environmental Sciences, Universitity of Helsinki, Helsinki, Finland., Chen CT; Institute of Information Science, Academia Sinica, Taipei, Taiwan., Hsu WL; Institute of Information Science, Academia Sinica, Taipei, Taiwan., Bryson K; Bioinformatics Group, Department of Computer Science, University College London, London, UK., Cozzetto D; Bioinformatics Group, Department of Computer Science, University College London, London, UK., Minneci F; Bioinformatics Group, Department of Computer Science, University College London, London, UK., Jones DT; Bioinformatics Group, Department of Computer Science, University College London, London, UK., Chapman S; Department of Computational Science and Engineering, North Carolina A&T State University, Greensboro, NC, USA., Bkc D; Department of Computational Science and Engineering, North Carolina A&T State University, Greensboro, NC, USA., Khan IK; Department of Computer Science, Purdue University, West Lafayette, IN, USA., Kihara D; Department of Computer Science, Purdue University, West Lafayette, IN, USA.; Department of Biological Sciences, Purdue University, West Lafayette, IN, USA., Ofer D; Department of Biological Chemistry, Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem, Israel., Rappoport N; Department of Biological Chemistry, Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem, Israel.; School of Computer Science and Engineering, The Hebrew University of Jerusalem, Jerusalem, Israel., Stern A; Department of Biological Chemistry, Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem, Israel.; School of Computer Science and Engineering, The Hebrew University of Jerusalem, Jerusalem, Israel., Cibrian-Uhalte E; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Denny P; Centre for Cardiovascular Genetics, Institute of Cardiovascular Science, University College London, London, UK., Foulger RE; Centre for Cardiovascular Genetics, Institute of Cardiovascular Science, University College London, London, UK., Hieta R; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Legge D; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Lovering RC; Centre for Cardiovascular Genetics, Institute of Cardiovascular Science, University College London, London, UK., Magrane M; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Melidoni AN; Centre for Cardiovascular Genetics, Institute of Cardiovascular Science, University College London, London, UK., Mutowo-Meullenet P; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Pichler K; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Shypitsyna A; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Li B; Buck Institute for Research on Aging, Novato, CA, USA., Zakeri P; Department of Electrical Engineering, STADIUS Center for Dynamical Systems, Signal Processing and Data Analytics, KU Leuven, Leuven, Belgium.; iMinds Department Medical Information Technologies, Leuven, Belgium., ElShal S; Department of Electrical Engineering, STADIUS Center for Dynamical Systems, Signal Processing and Data Analytics, KU Leuven, Leuven, Belgium.; iMinds Department Medical Information Technologies, Leuven, Belgium., Tranchevent LC; Inserm UMR-S1052, CNRS UMR5286, Cancer Research Centre of Lyon, Lyon, France.; Université de Lyon 1, Villeurbanne, France.; Centre Léon Bérard, Lyon, France., Das S; Institute of Structural and Molecular Biology, University College London, London, UK., Dawson NL; Institute of Structural and Molecular Biology, University College London, London, UK., Lee D; Institute of Structural and Molecular Biology, University College London, London, UK., Lees JG; Institute of Structural and Molecular Biology, University College London, London, UK., Sillitoe I; Institute of Structural and Molecular Biology, University College London, London, UK., Bhat P; Cerenode Inc., Boston, MA, USA., Nepusz T; Molde University College, Molde, Norway., Romero AE; Department of Computer Science, Centre for Systems and Synthetic Biology, Royal Holloway University of London, Egham, UK., Sasidharan R; Department of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA., Yang H; School of Mathematics, Statistics and Applied Mathematics, National University of Ireland, Galway, Ireland., Paccanaro A; Department of Computer Science, Centre for Systems and Synthetic Biology, Royal Holloway University of London, Egham, UK., Gillis J; Stanley Institute for Cognitive Genomics Cold Spring Harbor Laboratory, New York, NY, USA., Sedeño-Cortés AE; Graduate Program in Bioinformatics, University of British Columbia, Vancouver, Canada., Pavlidis P; Department of Psychiatry and Michael Smith Laboratories, University of British Columbia, Vancouver, Canada., Feng S; Department of Computer Science and Informatics, Indiana University, Bloomington, IN, USA., Cejuela JM; Department for Bioinformatics and Computational Biology-I12, Technische Universität München, Garching, Germany., Goldberg T; Department for Bioinformatics and Computational Biology-I12, Technische Universität München, Garching, Germany., Hamp T; Department for Bioinformatics and Computational Biology-I12, Technische Universität München, Garching, Germany., Richter L; Department for Bioinformatics and Computational Biology-I12, Technische Universität München, Garching, Germany., Salamov A; DOE Joint Genome Institute, Walnut Creek, CA, USA., Gabaldon T; Bioinformatics and Genomics, Centre for Genomic Regulation, Barcelona, Spain.; Universitat Pompeu Fabra, Barcelona, Spain.; Institució Catalana de Recerca i Estudis Avançats, Barcelona, Spain., Marcet-Houben M; Bioinformatics and Genomics, Centre for Genomic Regulation, Barcelona, Spain.; Universitat Pompeu Fabra, Barcelona, Spain., Supek F; Universitat Pompeu Fabra, Barcelona, Spain.; Division of Electronics, Rudjer Boskovic Institute, Zagreb, Croatia.; EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation, Barcelona, Spain., Gong Q; State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, Department of Biostatistics and Computational Biology, School of Life Science, Fudan University, Shanghai, China.; Children's Hospital of Fudan University, Shanghai, China., Ning W; State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, Department of Biostatistics and Computational Biology, School of Life Science, Fudan University, Shanghai, China.; Children's Hospital of Fudan University, Shanghai, China., Zhou Y; State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, Department of Biostatistics and Computational Biology, School of Life Science, Fudan University, Shanghai, China.; Children's Hospital of Fudan University, Shanghai, China., Tian W; State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, Department of Biostatistics and Computational Biology, School of Life Science, Fudan University, Shanghai, China.; Children's Hospital of Fudan University, Shanghai, China., Falda M; Department of Molecular Medicine, University of Padua, Padua, Italy., Fontana P; Research and Innovation Center, Edmund Mach Foundation, San Michele all'Adige, Italy., Lavezzo E; Department of Molecular Medicine, University of Padua, Padua, Italy., Toppo S; Department of Molecular Medicine, University of Padua, Padua, Italy., Ferrari C; Department of Information Engineering, University of Padua, Padova, Italy., Giollo M; Department of Information Engineering, University of Padua, Padova, Italy.; Department of Biomedical Sciences, University of Padua, Padova, Italy., Piovesan D; Department of Information Engineering, University of Padua, Padova, Italy., Tosatto SC; Department of Information Engineering, University of Padua, Padova, Italy., Del Pozo A; Instituto De Genetica Medica y Molecular, Hospital Universitario de La Paz, Madrid, Spain., Fernández JM; Spanish National Bioinformatics Institute, Spanish National Cancer Research Institute, Madrid, Spain., Maietta P; Structural and Computational Biology Programme, Spanish National Cancer Research Institute, Madrid, Spain., Valencia A; Structural and Computational Biology Programme, Spanish National Cancer Research Institute, Madrid, Spain., Tress ML; Structural and Computational Biology Programme, Spanish National Cancer Research Institute, Madrid, Spain., Benso A; Control and Computer Engineering Department, Politecnico di Torino, Torino, Italy., Di Carlo S; Control and Computer Engineering Department, Politecnico di Torino, Torino, Italy., Politano G; Control and Computer Engineering Department, Politecnico di Torino, Torino, Italy., Savino A; Control and Computer Engineering Department, Politecnico di Torino, Torino, Italy., Rehman HU; National University of Computer & Emerging Sciences, Islamabad, Pakistan., Re M; Anacleto Lab, Dipartimento di informatica, Università degli Studi di Milano, Milan, Italy., Mesiti M; Anacleto Lab, Dipartimento di informatica, Università degli Studi di Milano, Milan, Italy., Valentini G; Anacleto Lab, Dipartimento di informatica, Università degli Studi di Milano, Milan, Italy., Bargsten JW; Applied Bioinformatics, Bioscience, Wageningen University and Research Centre, Wageningen, Netherlands., van Dijk AD; Applied Bioinformatics, Bioscience, Wageningen University and Research Centre, Wageningen, Netherlands.; Biometris, Wageningen University, Wageningen, Netherlands., Gemovic B; Center for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia., Glisic S; Center for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia., Perovic V; Center for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia., Veljkovic V; Center for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia., Veljkovic N; Center for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia., Almeida-E-Silva DC; Department of Computing and Mathematics FFCLRP-USP, University of Sao Paulo, Ribeirao Preto, Brazil., Vencio RZ; Department of Computing and Mathematics FFCLRP-USP, University of Sao Paulo, Ribeirao Preto, Brazil., Sharan M; Institute for Molecular Infection Biology, University of Würzburg, Würzburg, Germany., Vogel J; Institute for Molecular Infection Biology, University of Würzburg, Würzburg, Germany., Kansakar L; Department of Computer and Information Sciences, Temple University, Philadelphia, PA, USA., Zhang S; Department of Computer and Information Sciences, Temple University, Philadelphia, PA, USA., Vucetic S; Department of Computer and Information Sciences, Temple University, Philadelphia, PA, USA., Wang Z; University of Southern Mississippi, Hattiesburg, MS, USA., Sternberg MJ; Centre for Integrative Systems Biology and Bioinformatics, Department of Life Sciences, Imperial College London, London, UK., Wass MN; School of Biosciences, University of Kent, Canterbury, Kent, UK., Huntley RP; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Martin MJ; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., O'Donovan C; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Robinson PN; Institut für Medizinische Genetik und Humangenetik, Charité - Universitätsmedizin Berlin, Berlin, Germany., Moreau Y; Department of Electrical Engineering ESAT-SCD and IBBT-KU Leuven Future Health Department, Katholieke Universiteit Leuven, Leuven, Belgium., Tramontano A; University of Rome, La Sapienza, Rome, Italy., Babbitt PC; California Institute for Quantitative Biosciences, University of California San Francisco, San Francisco, CA, USA., Brenner SE; Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, CA, USA., Linial M; Department of Chemical Biology, The Hebrew University of Jerusalem, Jerusalem, Israel., Orengo CA; Institute of Structural and Molecular Biology, University College London, London, UK., Rost B; Department for Bioinformatics and Computational Biology-I12, Technische Universität München, Garching, Germany., Greene CS; Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, PA, USA., Mooney SD; Department of Biomedical Informatics and Medical Education, University of Washington, Seattle, WA, USA., Friedberg I; Department of Microbiology, Miami University, Oxford, OH, USA. idoerg@iastate.edu.; Department of Computer Science, Miami University, Oxford, OH, USA. idoerg@iastate.edu., Radivojac P; Department of Computer Science and Informatics, Indiana University, Bloomington, IN, USA. predrag@indiana.edu.

Publikováno v: Genome biology [Genome Biol] 2016 Sep 07; Vol. 17 (1), pp. 184. Date of Electronic Publication: 2016 Sep 07.

Evaluating a variety of text-mined features for automatic protein function prediction with GOstruct.

Autor: Funk CS; Computational Bioscience Program, University of Colorado School of Medicine, Aurora, 80045 CO USA., Kahanda I; Department of Computer Science, Colorado State University, Fort Collins, 80523 CO USA., Ben-Hur A; Department of Computer Science, Colorado State University, Fort Collins, 80523 CO USA., Verspoor KM; Department of Computing and Information Systems, University of Melbourne, Parkville, 3010 Victoria Australia ; Health and Biomedical Informatics Centre, University of Melbourne, Parkville, 3010 Victoria Australia.

Publikováno v: Journal of biomedical semantics [J Biomed Semantics] 2015 Mar 18; Vol. 6, pp. 9. Date of Electronic Publication: 2015 Mar 18 (Print Publication: 2015).

Correlation between shape, evaporation mode and mobility of small water droplets on nanorough fibres.

Autor: Funk CS; Institute of Particle Technology (LFG), University of Erlangen-Nuremberg, Cauerstr. 4, D-91058 Erlangen, Germany., Winzer B; Institute of Particle Technology (LFG), University of Erlangen-Nuremberg, Cauerstr. 4, D-91058 Erlangen, Germany., Peukert W; Institute of Particle Technology (LFG), University of Erlangen-Nuremberg, Cauerstr. 4, D-91058 Erlangen, Germany. Electronic address: wolfgang.peukert@fau.de.

Publikováno v: Journal of colloid and interface science [J Colloid Interface Sci] 2014 Mar 01; Vol. 417, pp. 171-9. Date of Electronic Publication: 2013 Nov 18.