Biocomputing may refer to Biocomputers , systems of biologically derived molecules that perform computational processes DNA computing , a form of biological computing that uses DNA Bioinformatics , the application of statistics and computer science to the field of molecular biology disambig de Biocomputing es Biocomputaci n ... more details
The Pacific Symposium on Biocomputing PSB is an international, multidisciplinary scientific meeting held annually since 1996. The purpose of this conference is for the presentation and discussion of current research in the theory and application of computational methods in problems of biological significance. Papers and presentations are rigorously peer review ed and are published in an archival proceedings volume http psb.stanford.edu psb online . PSB brings together top researchers from the United States US , the Asia Pacific Asian Pacific nations, and around the world to exchange research results and address open issues in all aspects of computational biology . PSB is a forum for the presentation of work in databases, algorithms, interfaces, visualization, modeling, and other computational methods, as applied to biological problems, with emphasis on applications in data rich areas of molecular biology . The PSB has been designed to be responsive to the need for critical mass in sub disciplines within biocomputing . For that reason, it is the only meeting whose sessions are defined dynamically each year in response to specific proposals. PSB sessions are organized by leaders in the emerging areas and targeted to provide a forum for publication and discussion of research in biocomputing s hot topics . In this way, PSB provides an early forum for serious examination of emerging methods and approaches in this rapidly changing field. Conference information http psb.stanford.edu cfp.html Call for Papers, Abstracts and Demonstrations http psb.stanford.edu workshop.html Workshops http psb.stanford.edu registration.html Registration http psb.stanford.edu accommodations.html Travel and Accommodations Key dates Call for session proposals deadlines Proposals due February 15, 2011 Notification of proposal acceptance March 15, 2011 Call for papers deadlines Paper submissions due July 11, 2011 Notification of paper acceptance September 9, 2011 Final paper deadline September 23, 2011 ... more details
Multiple issues orphan March 2012 notability May 2011 unreferenced May 2011 The Center for Genome Research and Biocomputing CGRB is located at the Oregon State University OSU in Corvallis, Oregon Corvallis , Oregon . Established in 1983 as a university resource to develop cell and molecular biology research, today CGRB hosts over 100 OSU faculty as affiliate members of the Center. CGRB participates in fuel crops research, bioconservation and biomonitoring efforts, among others. External links http www.cgrb.oregonstate.edu CGRB web site http www.oregonstate.edu Oregon State University web site Category 1983 establishments in the United States Category Oregon State University Category Genome projects ... more details
The High Performance Computing Collaboratory HPC at Mississippi State University , an evolution of the MSU National Science Foundation Engineering Research Center for Computational Field Simulation, is a coalition of member centers and groups that share a common core objective of advancing the state of the art in computational science and engineering using high performance computing a common approach to research that embraces a multi disciplinary, team oriented concept and a commitment to a full partnership between education, research, and service. The mission of the HPC is to serve the University, State, and Nation through excellence in computational science and engineering. The HPC comprises five independent research centers institutes with the common characteristics of a multi disciplinary, team oriented effort that is strategically involved in the application and advancement of computational science and engineering using high performance computing. http www.cavs.msstate.edu Center for Advanced Vehicular Systems CAVS CAVS SimCenter http www.ccs.msstate.edu Center for Computational Sciences CCS http www.gri.msstate.edu Geosystems Research Institute GRI Institute for Genomics, Biocomputing and Biotechnology IGBB Northern Gulf Institute NGI External links http www.hpc.msstate.edu High Performance Computing Collaboratory HPC sup 2 sup website http www.msstate.edu Mississippi State University website Categories Category Mississippi State University Category Supercomputer sites ... more details
Orphan date January 2011 infobox biodatabase title TRDB logo File Database.png description Tandem repeat Tandem Repeats . scope organism center Boston University laboratory Lab for Biocomputing and Informatics author Yevgeniy Gelfand pmid Gelfand & al. 2007 ref name pmid17175540 released 2006 standard format url https tandem.bu.edu cgi bin trdb trdb.exe download webservice sql sparql webapp standalone license versioning frequency curation bookmark version The Tandem Repeats Database TRDB is a database of tandem repeat s in genomic DNA. ref name pmid17175540 cite journal quotes yes last Gelfand first Yevgeniy authorlink coauthors Rodriguez Alfredo, Benson Gary year 2007 month Jan title TRDB the Tandem Repeats Database journal Nucleic Acids Res. volume 35 issue Database issue pages D80 7 publisher location England issn pmid 17175540 doi 10.1093 nar gkl1013 bibcode oclc id url pmc 1781109 language eng format accessdate laysummary laysource laydate quote ref See also tandem repeat s References references External links https tandem.bu.edu cgi bin trdb trdb.exe Category Biological databases Category Repetitive DNA sequences Biodatabase stub ... more details
A relationship extraction task requires the detection and classification of semantic relatedness semantic relationship mentions within a set of document artifacts , typically from plain text text or XML documents. The task is very similar to that of information extraction IE , but IE additionally requires the removal of repeated relations disambiguation and generally refers to the extraction of many different relationships. Applications Application domains where relationship extraction is useful include gene disease relationships, ref name Chun06 cite conference author Hong Woo Chun, Yoshimasa Tsuruoka, Jin Dong Kim, Rie Shiba, Naoki Nagata, Teruyoshi Hishiki, Jun ichi Tsujii title Extraction of Gene Disease Relations from Medline Using Domain Dictionaries and Machine Learning booktitle Pacific Symposium on Biocomputing year 2006 ref protein protein interaction ref name huang04 cite journal author Minlie Huang and Xiaoyan Zhu and Yu Hao and Donald G. Payan and Kunbin Qu and Ming Li title Discovering patterns to extract protein protein interactions from full texts booktitle Bioinformatics volume 20 pages 3604 3612 year 2004 issue 18 ref etc. Approaches One approach to this problem involves the use of domain ontology computer science ontologies ref name rindflesch00 cite conference author T.C.Rindflesch and L.Tanabe and J.N.Weinstein and L.Hunter title EDGAR Extraction of drugs, genes, and relations from the biomedical literature booktitle Proc. Pacific Symposium on Biocomputing pages 514 525 year 2000 ref ref name ramakrishnan06 cite conference author C. Ramakrishnan and K. J. Kochut and A. P. Sheth title A Framework for Schema Driven Relationship Discovery from Unstructured Text booktitle Proc. International Semantic Web Conference pages 583 596 year 2006 ref . Another approach involves visual detection of meaningful relationships in parametric values of objects listed on a data table that shift positions as the table is permuted automatically as controlled by the s ... more details
Wiktionary PSB can stand for Please see below Organisations Brazilian Socialist Party Brazilian Partido Socialista Brasileiro Pacific Symposium on Biocomputing , an annual scientific meeting Penn, Schoen & Berland , a market research firm Phosphate Solublising Bacteria Tomicus piniperda Pine shoot beetle , a bark beetle native to Afro Eurasia Presidential Service Badge , a badge of the US military issued to those who serve the President Proton Synchrotron Booster , a synchrotron at CERN PSB Academy , a private school mainly located in Singapore PSB Speakers , a Canadian loudspeaker company Public Security Bureau , the name for police station in Mainland China Public Service Broadcasting , media outlets funded mostly by the public Punjab & Sind Bank ,a major bank in Northern India Science and nature Medicine Protected specimen brush Peak serum bilirubin Prostate saturation biopsy Proximal small bowel Technology PhotoShop Big .PSB , a file format used by Adobe Systems Photoshop Software PlayStation.Blog , the official PlayStation blog Area Signalling Centre Power Signal Box , a British type of railway signalling centre Program Specification Block, used in the IBM database IBM Information Management System Literate and music Pet Shop Boys , a British pop duo Plus Tech Squeeze Box , a Japanese electronic music band Polski S ownik Biograficzny , a Polish encyclopedia Other Pearl S. Buck , an American Nobel Laureate Perpetual subordinated bond , a financial term Poplar Street Bridge , a bridge across the Mississippi River Prawn sandwich brigade , emotionally detached football fans disambig de PSB es PSB fa PSB fr PSB ja PSB pl PSB ujednoznacznienie zh PSB ... more details
Martyn Amos is a Reader in the School of Computing, Mathematics and Digital Technology at Manchester Metropolitan University ref http www.martynamos.com Official homepage ref , and an expert on natural computation and DNA computing . ref http www.rigb.org contentControl?action displayContent&id 00000001534 Biography page, Royal Institution. ref He was born in Hexham , Northumberland in 1971. He graduated with a degree in Computer Science from Coventry University in 1993, before earning a Ph.D. in DNA computing in 1997, from the University of Warwick . He then held a Leverhulme Trust Special Research Fellowship at the University of Liverpool , before taking up permanent academic appointments, first at the University of Liverpool 2000 2002 and then the University of Exeter 2002 2006 . Bibliography cite book author Martyn Amos, Ed. year 2004 month July title Cellular Computing publisher Oxford University Press USA id ISBN 0 195 15539 4 url http www2.docm.mmu.ac.uk STAFF M.Amos cellcomp.html cite book author Martyn Amos year 2005 month June title Theoretical and Experimental DNA Computation publisher Springer id ISBN 3 540 65773 8 url http www2.docm.mmu.ac.uk STAFF M.Amos dnacomp.html &mdash The first general text to cover the whole field. cite book author Martyn Amos year 2006 month November title Genesis Machines The New Science of Biocomputing publisher Atlantic Books id ISBN 1 843 54224 2 url http www2.docm.mmu.ac.uk STAFF M.Amos gm.html &mdash A popular science style introduction to the topic. References reflist Persondata NAME Amos, Martyn ALTERNATIVE NAMES SHORT DESCRIPTION British computer scientist DATE OF BIRTH 1971 PLACE OF BIRTH Hexham , Northumberland DATE OF DEATH PLACE OF DEATH DEFAULTSORT Amos, Martyn Category Living people Category British computer scientists Category Alumni of Coventry University Category Academics of Manchester Metropolitan University Category People from Hexham Category 1971 births UK compu bio stub Compu scientist stub ... more details
Infobox institute name Institute of Microbial Technology image image name image size image alt caption latin name motto founder established 1984 mission focus president chairman head label Director head Dr. Girish Sahni faculty adjunct faculty staff key people budget endowment debt num members subsidiaries owner non profit slogan former name location Sector 39A, Chandigarh , India city Chandigarh state province Chandigarh country India coor address http www.imtech.res.in website dissolved footnotes The Institute of Microbial Technology IMTECH , based in Chandigarh , India , is one of the constituent establishments of the CSIR India Council of Scientific & Industrial Research CSIR . It was established in 1984. The Institute is engaged in research in many different areas of modern biology biological sciences and microbe related biotechnology , with special emphasis on research that is interdisciplinary and of a collaborative nature, such as Immunity medical immunity and infectious disease s, protein design and engineering, Fermentation biochemistry fermentation science , microbial physiology & genetics , yeast biology, bioinformatics , microbial systematics , exploitation of microbial diversity for bioactive s and enzyme s for biotransformation s. Facilities The institute is equipped with various facilities for research. They include Lab to pilot scale fermenter of various capacities, Tissue & Cell Culture facility, facility for maintenance, preservation and identification of Micro organisms, an animal house, workstations for Bioinformatics & Biocomputing, equipment for Protein and DNA Analysis, a library with around 64,000 references books, microscopy equipment, Databases for Intellectual property management, et cetera. The Institute is well equipped with Bio safety level 3 BSL3 Laboratory facility to work with pathogenic microorganisms Achievements Patented Natural , recombinant and Clot specific Streptokinase as a vital life saving Drug. Academics The institute off ... more details
Johnson. Dr. Dobb s Journal , Apr 1991. Issue theme Biocomputing Turtles, Termites and Traffic ... Roots Second Generation Biocomputing , J. Timmis, M. Amos, W. Banzhaf, and A. Tyrrell, Journal of Unconventional ... more details
Context date September 2010 A string Kernel trick kernel is a mathematical tool used in large scale data analysis and data mining mining , where sequence data are to be Cluster Analysis clustered or statistical classification classified concerning especially the popular research fields of text mining text and bioinformatics gene analysis ref Citation title The spectrum kernel A string kernel for SVM protein classification last Leslie first C. last2 Eskin first2 E. last3 Noble first3 W.S. booktitle Proceedings of the Pacific Symposium on Biocomputing volume 7 pages 566 575 year 2002 ref . Kernels are often used in with support vector machines to transform data from its original Vector space space to one where it can be more easily separated and grouped. This may enable Support vector machine Nonlinear classification non linear classification . Informal Introduction Suppose one wants to compare some text passages automatically and indicate their relative similarity. For many applications, it might be sufficient to find some keywords which match exactly. One example where exact matching is not always enough is found in Spam electronic spam detection ref Citation title Improved Online Support Vector Machines Spam Filtering Using String Kernels last Amayri first O. ref another would be in computational gene analysis, where homologous genes have mutated , resulting in common subsequences along with deleted, inserted or replaced symbols. TODO insert a picture here Motivation Since several well proven data clustering, classification and information retrieval and other ... see manifold learning methods for example support vector machines are designed to work on vectors i.e. data are elements of a vector space , using a string kernel allows the extension of these methods to handle sequence data. The string kernel method is to be contrasted with earlier approaches for text classification where feature vectors only indicated the presence or absence of a word. Not only does it i ... more details
Infobox company company name TimeLogic company logo company type Privately held company foundation 1981 founders location Carlsbad, California Carlsbad, CA, USA area served Worldwide industry Bioinformatics Hardware and Software products DeCypher, Tera BLAST, DeCypherSW, DeCypherHMM, GeneDetective, PipeWorks homepage http www.timelogic.com TimeLogic parent Active Motif, Inc. product homepage TimeLogic is the bioinformatics division of Active Motif, Inc. The company is headquartered in Carlsbad, California Carlsbad , California . TimeLogic develops FPGA accelerated tools for biological Sequence alignment sequence comparison in the field of high performance bioinformatics and biocomputing . History TimeLogic was founded in 1981 by James W. Jim Lindelien and developed one of the first commercial Hardware acceleration hardware accelerated tools for bioinformatics, an FPGA accelerated version of the Smith Waterman algorithm. TimeLogic s DeCypher systems have expanded to provide accelerated implementations of the ubiquitous bioinformatics algorithms BLAST , Smith Waterman , and HMMER using field programmable gate array FPGA technology. In 2003, TimeLogic was acquired by Active Motif , ref name GenomeWeb cite web url http www.genomeweb.com reagent firm active motif acquires timelogic title Reagent Firm Active Motif Acquires TimeLogic author GenomeWeb staff reporter date 26 August 2003 work GenomeWeb accessdate 20 September 2011 ref a biotechnology reagent company started by Invitrogen co founder Joseph Fernandez. In 2008, TimeLogic formed a partnership with Biomatters to integrate Geneious Geneious Pro with the accelerated algorithms on DeCypher systems. ref cite web title TimeLogic s latest FPGA technology to be coupled with Geneious Server date January 18, 2011 url http www.geneious.com default,1341,timelogics latest fpga technology to be coupled with geneious server.sm?section geneious&pageid 1118 accessdate 20 November 2011 ref In 2011, TimeLogic formed a partnership w ... more details
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