Peter Cock, Christopher J. Fields, N. Goto, Michael Heuer, Peter M. Rice,
... MAQ documentation and conventions recently agreed by the Open Bioinformatics Foundation projects Biopython, BioPerl, BioRuby, BioJava and EMBOSS. Being an open access publication, it is hoped that this description, ...
Tópico(s): Gene expression and cancer classification
2009 - Oxford University Press | Nucleic Acids Research
... using the hackathon concept fairly early on. The Open Bioinformatics Foundation, a nonprofit organization devoted to developing open-source software for the biological research community, held ...
Tópico(s): Biomedical and Engineering Education
2017 - Elsevier BV | Annals of Emergency Medicine
Chapter 1 starts with the historical development of the amount of biological data and introduces connections and dependencies between statistics, biology, and computer science.Chapter 2 covers a brief review of the essential concepts in cellular and molecular biology to motivate the biological problems.It starts with the basic unit of living organisms (cells), ConclusionActually, there is one other book which has a very similar content and structure: Baldi and Brunak (2001).Based on the clear structure, ...
Tópico(s): Genetics,
2008 - Foundation for Open Access Statistics | Journal of Statistical Software
Nomi L. Harris, Peter Cock, Hilmar Lapp, Brad Chapman, Robert Davey, Christopher J. Fields, Karsten Hokamp, Monica Muñoz‐Torres,
... Open Source Conference (BOSC) is organized by the Open Bioinformatics Foundation (OBF), a nonprofit group dedicated to promoting the practice and philosophy of open source software development and open science within the biological research community. Since its inception in 2000, BOSC has provided bioinformatics developers with a forum for communicating the results ...
Tópico(s): Research Data Management Practices
2016 - Public Library of Science | PLoS Computational Biology
... is given of the current usage within the bioinformatics community of Hadoop, a top-level Apache Software Foundation project, and of associated open source software projects. The concepts behind Hadoop and the associated HBase project are defined, and current bioinformatics software that employ Hadoop is described. The focus ...
Tópico(s): Advanced Proteomics Techniques and Applications
2010 - BioMed Central | BMC Bioinformatics
Nomi L. Harris, Peter Cock, Brad Chapman, Christopher J. Fields, Karsten Hokamp, Hilmar Lapp, Monica Muñoz‐Torres, Bastian Greshake Tzovaras, Heather L. Wiencko,
... Conference (BOSC) is a meeting organized by the Open Bioinformatics Foundation (OBF), a non-profit group dedicated to promoting the practice and philosophy of Open Source software development and Open Science within the biological research community. The 18th annual BOSC ( http://www.open-bio.org/wiki/BOSC_2017 ) took place in Prague, Czech Republic in July 2017. The conference brought together nearly 250 bioinformatics researchers, developers and users of open source software ...
Tópico(s): Cell Image Analysis Techniques
2017 - Faculty of 1000 | F1000Research
Nomi L. Harris, Peter Cock, Brad Chapman, Christopher J. Fields, Karsten Hokamp, Hilmar Lapp, Monica Muñoz‐Torres, Heather L. Wiencko,
... BOSC) is a yearly meeting organized by the Open Bioinformatics Foundation (OBF), a non-profit group dedicated to promoting the practice and philosophy of Open Source software development and Open Science within the ...
Tópico(s): Biomedical and Engineering Education
2016 - Faculty of 1000 | F1000Research
Tópico(s): Evolutionary Algorithms and Applications
2009 - Foundation for Open Access Statistics | Journal of Statistical Software
Tópico(s): Genetics,
2005 - Foundation for Open Access Statistics | Journal of Statistical Software
Nomi L. Harris, Peter Cock, Christopher J. Fields, Karsten Hokamp, Jessica M. Maia, Monica Muñoz‐Torres, Morgan L. Taschuk, Yo Yehudi,
... is a volunteer-run meeting coordinated by the Open Bioinformatics Foundation (OBF) that covers open source software development and open science in bioinformatics. Most years, BOSC has been part of the ...
Tópico(s): Genetics,
2020 - Faculty of 1000 | F1000Research
... for providing diverse software sources for everyone. The Open Bioinformatic Foundation is a volunteer, nonprofit organization supporting open source bioinformatics programming. It organizes numerous integrative initiatives specific to ...
Tópico(s): Microbial Community Ecology and Physiology
2005 - Future Science Ltd | BioTechniques
Andra Waagmeester, Lynn M. Schriml, Andrew I. Su,
Wikidata (http://www.wikidata.org) is the linked database of the Wikimedia Foundation. Like its sister project Wikipedia it is open to humans and machines. Initially primarily intended as a central repository of structured data for the approximately 200 language versions of Wikipedia, Wikidata currently also serves many other use cases. It is an open, Semantic Web-compatible database that anyone can edit. Here, we present the Gene Wiki initiative. In 2008, this project started by creating Wikipedia ...
Tópico(s): Genomics and Phylogenetic Studies
2019 - Pensoft Publishers | Biodiversity Information Science and Standards
Shifeng Cheng, Michael Melkonian, Stephen A. Smith, Samuel F. Brockington, John M Archibald, Pierre‐Marc Delaux, Fay‐Wei Li, Barbara Melkonian, Evgeny V. Mavrodiev, Wenjing Sun, Yuan Fu, Huanming Yang, Pamela S. Soltis, Sean W. Graham, Pamela S. Soltis, Xin Liu, Xun Xu, Gane Ka‐Shu Wong,
... and continuously improving leading-edge sequencing technologies and bioinformatics tools, 10KP will catalogue the genome content of plant and protist diversity and make these data freely available as an enduring foundation for future scientific discoveries and applications. 10KP is structured as an international consortium, open to the global community, including botanical gardens, plant ...
Tópico(s): Marine and coastal plant biology
2018 - University of Oxford | GigaScience
Yves Moreau, Péter Antal, Geert Fannes, Bart De Moor,
... of students in these fields. From such a foundation, students could then build towards specific computational methods in medical informatics, medical image analysis, statistical genetics, or bioinformatics while keeping the communication open between these areas.
Tópico(s):
2003 - Thieme Medical Publishers (Germany) | Methods of Information in Medicine
Mathias Uhlén, Fredrik Pontén, Cecilia Lindskog,
A decade on from the completion of the Human Genome, the Human Protein Atlas, a multinational research project supported by the non-profit Knut and Alice Wallenberg Foundation, recently launched (November 6, 2014) an open source tissue-based interactive map of the human proteome. A team of multidisciplinary researchers with expertise spanning biotechnology, information technology, and medicine have used a combination of several 'omics technologies to map proteins down to the single cell level, showing ...
Tópico(s): Genetics,
2015 - American Association for the Advancement of Science | Science
... Implementation of new technologies for precision medicineg. Novel bioinformatics approaches to decipher cancer evolution and tools for precision medicineh. Biomarker validation/clinical qualification Open table in a new tab Charles Swanton is funded by Cancer Research UK, the Breast Cancer Research Foundation, the Prostate Cancer Foundation, the Rosetrees trust, the ...
Tópico(s): Genetic factors in colorectal cancer
2014 - Elsevier BV | Annals of Oncology
Stephanie N. Zimmer, Madeleine E. Lemieux, Bijal Karia, Claudia Day, Ting Zhou, Qing Zhou, Andrew L. Kung, Uthra Suresh, Yidong Chen, Marsha C. Kinney, Alexander J. R. Bishop, Vivienne I. Rebel,
... A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria2009Google Scholar, 33Gentleman R.C. Carey V.J. Bates D.M. et al.Bioconductor: open software development for computational biology and bioinformatics.Genome Biol. 2004; 5: R80Crossref PubMed Google Scholar]. ...
Tópico(s): Acute Lymphoblastic Leukemia research
2011 - Elsevier BV | Experimental Hematology
Florian Haller, Lea D. Schlieben, Fulvia Ferrazzi, Michael Michal, Robert Stöhr, Evgeny A. Moskalev, Matthias Bieg, Judith V.M.G. Bovée, Philip Ströbel, Naveed Ishaque, Robert Grützmann, Norbert Meidenbauer, Roland Eils, Stefan Wiemann, Arndt Hartmann, Michal Michal, Abbas Agaimy,
... L. Yang J.Y.H. Zhang J. Bioconductor: open software development for computational biology and bioinformatics.Genome Biol. 2004; 5: R80Crossref PubMed Google Scholar,32R Core Team. RA Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria2020Google Scholar relying on ...
Tópico(s): Sarcoma Diagnosis and Treatment
2021 - Elsevier BV | American Journal Of Pathology
... the emergence of bio-ontologies: or, why researching bioinformatics requires HPSSB’, Hist. Phil. Life Sci.32, 105–126 (2010); J. Kallinikos and N. Tempini, ‘Patient data as medical facts: social media practices as a foundation for medical knowledge creation’, Inform. Syst. Res.25, 817–833 (2014).5 Royal Society, Science as an open enterprise (Royal Society, London, 2012).6 R. A. ...
Tópico(s): Philosophy and History of Science
2016 - Royal Society | Notes and Records the Royal Society Journal of the History of Science
Gilbert S. Omenn, Ruedi Aebersold, Young‐Ki Paik,
... technologies from vendor partners, generating extensive submissions to open source databases (www.peptideatlas.org/hupo/hppp (ISB); www.ebi.ac.uk/pride (EBI)) and bioinformatics insights, and laying a foundation for integration of plasma studies with organ proteome ...
Tópico(s): Mass Spectrometry Techniques and Applications
2007 - Elsevier BV | Molecular & Cellular Proteomics
John W. Nicol, Gregg Helt, Steven G. Blanchard, Archana Raja, Ann E. Loraine,
Abstract Summary: Experimental techniques that survey an entire genome demand flexible, highly interactive visualization tools that can display new data alongside foundation datasets, such as reference gene annotations. The Integrated Genome Browser (IGB) aims to meet this need. IGB is an open source, desktop graphical display tool implemented in Java that supports real-time zooming and panning through a genome; layout of genomic features and datasets in moveable, adjustable tiers; incremental or ...
Tópico(s): Genetics,
2009 - Oxford University Press | Bioinformatics
Yunyu Zhang, Joseph D. Szustakowski, Martina Schinke,
... regulation, for example, in diseases or developmental processes. Bioinformatics analysis plays an important part of processing the information embedded in large-scale expression profiling studies and for laying the foundation for biological interpretation. Over the past years, numerous tools have emerged for microarray data analysis. One of the most popular platforms is Bioconductor, an open source and open development software project for the ...
Tópico(s): Gene Regulatory Network Analysis
2009 - Springer Science+Business Media | Methods in molecular biology
Víctor Maojo, M. J. Fritts, Fernando Martín-Sánchez, Diana De la Iglesia, Raúl E. Cachau, Miguel García-Remesal, José Crespo, Joyce A. Mitchell, Alberto Anguita, Nathan Baker, José M. Barreiro, Sonia Benítez, Guillermo de la Calle, Julio C. Facelli, Peter Ghazal, Antoine Geissbühler, Fernando D. González‐Nilo, Norbert Graf, Pierre Grangeat, Isabel Hermosilla, Rada Hussein, Josipa Kern, Sabine Koch, Yannick Legré, Victoria López-Alonso, Guillermo López–Campos, Luciano Milanesi, Vassilis Moustakis, Cristian R. Munteanu, Paula Otero, Alejandro Pazos, David Pérez-Rey, George Potamias, Ferrán Sanz, Casimir A. Kulikowski,
Nanoinformatics has recently emerged to address the need of computing applications at the nano level. In this regard, the authors have participated in various initiatives to identify its concepts, foundations and challenges. While nanomaterials open up the possibility for developing new devices in many industrial and scientific areas, they also offer breakthrough perspectives for the prevention, diagnosis and treatment of diseases. In this paper, we analyze the different aspects of nanoinformatics ...
Tópico(s): Computational Drug Discovery Methods
2012 - Springer Science+Business Media | Computing
Naseer Ahmed Sajid, Muhammad Tanvir Afzal, Muhammad Abdul Qadir,
The Journal of the National Science Foundation of Sri Lanka publishes the results of research in all aspects of Science and Technology. The journal also has a website at http://www.nsf.gov.lk/. 2021 Impact Factor: 0.682The JNSF provides immediate open access to its content on the principle that making research freely available to the public supports a greater global exchange of knowledge.Cover :Leatherback (a), green (b - adult & f - hatchling), hawksbill (c) and olive ridley (d) turtles who nest in Sri Lankan ...
Tópico(s): Machine Learning in
2016 - National Science Foundation | Journal of the National Science Foundation of Sri Lanka
J. Zhang, xiaojian liu, X.-J. Li,
... to sequence Acinetobacter baumannii phage AB3 and conduct bioinformatic analysis to lay a foundation for genome remodeling and phage therapy.We isolated and sequenced A. baumannii phage AB3 and attempted to annotate and analyze its genome.The results showed that the genome is a double-stranded DNA with a total length of 31,185 base pairs (bp) and 97 open reading frames greater than 100 bp.The genome ...
Tópico(s): vaccines and immunoinformatics approaches
2015 - Research Foundation of Ribeirão Preto | Genetics and Molecular Research
Charles Auffray, Chen Zhu, Leroy Hood,
High-throughput technologies for DNA sequencing and for analyses of transcriptomes, proteomes and metabolomes have provided the foundations for deciphering the structure, variation and function of the human genome and relating them to health and disease states. The increased efficiency of DNA sequencing opens up the possibility of analyzing a large number of individual genomes and transcriptomes, and complete reference proteomes and metabolomes are within reach using powerful analytical techniques ...
Tópico(s): Nutrition, Genetics, and Disease
2009 - BioMed Central | Genome Medicine
Ruth Nanjala, Festus M. Nyasimi, Daniel Masiga, Caleb K. Kibet,
... seeks to bridge the gap by laying the foundation for a bioinformatics training pipeline using project-based learning. The program selects six participants through an intensive open recruitment exercise for highly competitive students to join ...
Tópico(s): vaccines and immunoinformatics approaches
2023 - Public Library of Science | PLoS Computational Biology
Domenica D’Elia, Andreas Gisel, Nils-Einar Eriksson, Σοφία Κοσσίδα, Kimmo Mattila, Ľuboš Kľúčár, Erik Bongcam‐Rudloff,
... to celebrate its 20 th anniversary. Since its foundation in 1988, EMBnet has been working to promote collaborative development of bioinformatics services and tools to serve the European community of molecular biology laboratories. This conference was the first meeting organized by the network that was open to the international scientific community outside EMBnet. The ...
Tópico(s): Genomics and Phylogenetic Studies
2009 - BioMed Central | BMC Bioinformatics
Mark D. Wilkinson, David E. Block, William L. Crosby,
... sequence analysis software. Availability: Genquire v3.03 is open-source software. The code is available for download and/or contribution at http://www.bioinformatics.org/Genquire Contact: mwilkinson@gene.pbi.nrc.ca * To whom correspondence should be addressed. Present address: Genomics Institute of the Novartis Research Foundation, 10675 John Jay Hopkins Drive, San Diego, CA ...
Tópico(s): RNA modifications and cancer
2002 - Oxford University Press | Bioinformatics
S.K. Burley, Charmi Bhikadiya, Chunxiao Bi, Sebastian Bittrich, Henry Chao, Li Chen, P. Craig, G.V. Crichlow, Kenneth Dalenberg, José M. Duarte, Shuchismita Dutta, Maryam Fayazi, Zukang Feng, Justin W. Flatt, Sai J. Ganesan, Sutapa Ghosh, David S. Goodsell, Rachel Kramer Green, Vladimir Guranović, Jeremy Henry, Brian P. Hudson, Igor Khokhriakov, Catherine L. Lawson, Yu‐He Liang, Robert Lowe, Ezra Peisach, Irina Persikova, Dennis W. Piehl, Yana Rose, Andrej Šali, Joan Segura, Monica Sekharan, Chenghua Shao, Brinda Vallat, Maria Voigt, Benjamin Webb, John D. Westbrook, Shamara Whetstone, Jasmine Y. Young, Arthur O. Zalevsky, Christine Zardecki,
... the Protein Data Bank (PDB) is the premiere open‐access global archive housing three‐dimensional (3D) biomolecular structure data. It is jointly managed by the Worldwide Protein Data Bank (wwPDB) partnership. The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) is funded by the National Science Foundation, National Institutes of Health, and US Department of ...
Tópico(s):
2022 - Wiley | Protein Science