September 2013 - BBClist - maillist.psb.ugent.be

BBC 2013 abstract submission through EasyChair
by BBC2013 01 Apr '14

01 Apr '14

BBC2013 – BeNeLux Bioinformatics Conference 2013 Date: December 9 & 10, 2013 Venue: Salle Dupréel (Université Libre de Bruxelles), Brussels, Belgium Website: http://bbc2013.ibsquare.be Abstract submission deadline: October 1, 2013 Early registration deadline: November 1, 2013 Dear Colleagues, The 8th edition of the BeNeLux Bioinformatics Conference will take place in Brussels on the 9th and 10th of December 2013. The theme of this year's conference is: "Bioinformatics at all scales of life". Since 2005, the BeNeLux Bioinformatics Conference gives bioinformaticians, from the BeNeLux and beyond, the opportunity to discuss their results and build new collaborations, in a relaxed and friendly atmosphere. This year's edition will be enhanced by the presence of three distinguished keynote speakers: Alfonso Valencia (Spanish National Cancer Research Center, http://bit.ly/14SAITQ) Anna Tramontano (University of Rome "La Sapienza", http://www.biocomputing.it) and Jim Haseloff (Plant Synthetic Biology, University of Cambridge, http://www.haseloff-lab.org) Call for abstracts We invite you to submit an abstract for an oral presentation (20 available slots: 6 long, 14 short) and/or a poster presentation. Contributions from all fields of bioinformatics are welcome and encouraged. We have provided a template to use for submission through the EasyChair system: https://www.easychair.org/conferences/?conf=bbc2013 . Details on the submission procedure can be found at http://bbc2013.ibsquare.be/content/call-abstracts . We hope to see you all in Brussels! -- The BBC 2013 organising committee BeNeLux Bioinformatics Conference 2013 December 9-10, 2013 (Brussels)

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BBC 2013 abstract submission deadline is approaching
by BBC2013 24 Sep '13

24 Sep '13

BBC2013 – BeNeLux Bioinformatics Conference 2013 Date: December 9 & 10, 2013 Venue: Salle Dupréel (Université Libre de Bruxelles), Brussels, Belgium Website: http://bbc2013.ibsquare.be Abstract submission deadline: October 1, 2013 Early registration deadline: November 8, 2013 Dear Colleagues, The deadline for submitting your abstract to the 8th edition of the BeNeLux Bioinformatics Conference is approaching! The theme of this year's conference is: "Bioinformatics at all scales of life". Since 2005, the BeNeLux Bioinformatics Conference gives bioinformaticians, from the BeNeLux and beyond, the opportunity to discuss their results and build new collaborations, in a relaxed and friendly atmosphere. This year's edition will be enhanced by the presence of three distinguished keynote speakers: Alfonso Valencia (Spanish National Cancer Research Center, http://bit.ly/14SAITQ) Anna Tramontano (University of Rome "La Sapienza", http://www.biocomputing.it) and Jim Haseloff (Plant Synthetic Biology, University of Cambridge, http://www.haseloff-lab.org) Call for abstracts We invite you to submit an abstract for an oral presentation (20 available slots: 6 long, 14 short) and/or a poster presentation. Contributions from all fields of bioinformatics are welcome and encouraged. We have provided a template to use for submission through the EasyChair system: https://www.easychair.org/conferences/?conf=bbc2013 . Details on the submission procedure can be found at http://bbc2013.ibsquare.be/content/call-abstracts . We hope to see you all in Brussels! -- The BBC 2013 organising committee BeNeLux Bioinformatics Conference 2013 December 9-10, 2013 (Brussels)

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positions available to study genetic links between brain development and evolution
by pierre vanderhaeghen 23 Sep '13

23 Sep '13

Dear Colleagues, Thanks a lot for relaying the info for this job offer by transmitting to potentially interested colleagues and posting the flyer in your Dept. Best regards, Pierre Vanderhaeghen What Makes us Humans? Positions (Bioinformatics) Available to Study the Genetic Links between Brain Development and Evolution. Postdoctoral positions are available in our group (Pierre Vanderhaeghen Lab http://dev.ulb.ac.be/pvdhlab) to study the molecular mechanisms underlying the development and evolution of the human cerebral cortex. This novel and exciting project, which just received funding by the European Research Council (ERC), will use a unique integrated approach combining molecular/bioinformatic tools, human pluripotent stem cell technology, and mouse developmental neurobiology (Nature 455 (2008), 351-357; Nature Neurosci. (2012), 15, 1627-1635; Neuron (2013), 77, 440-456). We are seeking highly motivated individuals with strong experience in bioinformatics/computational biology, as well as interest in developmental neurobiology and/or evolution. Positions are available immediately, but may be filled later in 2014 if necessary. Our lab is part of the Institute of Interdisciplinary Research (IRIBHM) (http://www.ulb.ac.be/medecine/iribhm/) the largest biomedical Department of University of Brussels (ULB) Medical School, and the newly created ULB Neuroscience Institute (http://uni.ulb.ac.be/) We are located in Brussels, a cosmopolitan city in the heart of Europe. Applications: Please send a cover letter explaining your motivations and previous work, a CV with a list of publications, and the name and coordinates of three references to: Pierre Vanderhaeghen, pierre.vanderhaeghen(a)ulb.ac.be Institute of Interdisciplinary Research (IRIBHM) ULB Neuroscience Institute (UNI) Universite Libre de Bruxelles ULB, Campus Erasme CP 602 Bldg. C Room 6.113/6.111 808, Route de Lennik B-1070 Brussels Belgium Pho: 32-2-555-4186 // 32-2-555-4185 Fax: 32-2-5554655 email: pvdhaegh(a)ulb.ac.be http://dev.ulb.ac.be/pvdhlab http://uni.ulb.ac.be/

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AlCoB 2014: 1st call for papers
by GRLMC 22 Sep '13

22 Sep '13

*To be removed from our mailing list, please respond to this message with UNSUBSCRIBE in the subject line* ********************************************************************* 1st INTERNATIONAL CONFERENCE ON ALGORITHMS FOR COMPUTATIONAL BIOLOGY AlCoB 2014 Tarragona, Spain July 1-3, 2014 Organized by: Research Group on Mathematical Linguistics (GRLMC) Rovira i Virgili University http://grammars.grlmc.com/alcob2014/ ********************************************************************* AIMS: AlCoB aims at promoting and displaying excellent research using string and graph algorithms and combinatorial optimization to deal with problems in biological sequence analysis, genome rearrangement, evolutionary trees, and structure prediction. The conference will address several of the current challenges in computational biology by investigating algorithms aimed at: 1) assembling sequence reads into a complete genome, 2) identifying gene structures in the genome, 3) recognizing regulatory motifs, 4) aligning nucleotides and comparing genomes, 5) reconstructing regulatory networks of genes, and 6) inferring the evolutionary phylogeny of species. Particular focus will be put on methodology and significant room will be reserved to young scholars at the beginning of their career. VENUE: AlCoB 2014 will take place in Tarragona, located 90 kms. to the south of Barcelona. The venue will be the Catalunya Campus. SCOPE: Topics of either theoretical or applied interest include, but are not limited to: Exact sequence analysis Approximate sequence analysis Pairwise sequence alignment Multiple sequence alignment Sequence assembly Genome rearrangement Regulatory motif finding Phylogeny reconstruction Phylogeny comparison Structure prediction Compressive genomics Proteomics: molecular pathways, interaction networks ... Transcriptomics: splicing variants, isoform inference and quantification, differential analysis Next-generation sequencing: population genomics, metagenomics, metatranscriptomics ... Microbiome analysis Systems biology STRUCTURE: AlCoB 2014 will consist of: invited talks invited tutorials peer-reviewed contributions INVITED SPEAKERS: to be announced PROGRAMME COMMITTEE: Tatsuya Akutsu (Kyoto, JP) Amihood Amir (Ramat-Gan, IL) Alberto Apostolico (Atlanta, US) Joel Bader (Baltimore, US) Pierre Baldi (Irvine, US) Serafim Batzoglou (Stanford, US) Bonnie Berger (Cambridge, US) Francis Y.L. Chin (Hong Kong, HK) Benny Chor (Tel Aviv, IL) Keith A. Crandall (Washington, US) Bhaskar DasGupta (Chicago, US) Joaquín Dopazo (Valencia, ES) Liliana Florea (Baltimore, US) Olivier Gascuel (Montpellier, FR) David Gilbert (Uxbridge, UK) Gaston H. Gonnet (Zurich, CH) Roderic Guigó (Barcelona, ES) Dan Gusfield (Davis, US) Vasant Honavar (University College, US) Sorin Istrail (Providence, US) Tao Jiang (Riverside, US) Inge Jonassen (Bergen, NO) Anders Krogh (Copenhagen, DK) Giovanni Manzini (Alessandria, IT) Carlos Martín-Vide (Tarragona, ES, chair) Satoru Miyano (Tokyo, JP) Burkhard Morgenstern (Göttingen, DE) Shinichi Morishita (Tokyo, JP) Cédric Notredame (Barcelona, ES) Graziano Pesole (Bari, IT) Mark Ragan (Brisbane, AU) Timothy Ravasi (Thuwal, SA) Allen G. Rodrigo (Durham, US) Steven Salzberg (Baltimore, US) David Sankoff (Ottawa, CA) Thomas Schiex (Toulouse, FR) João C. Setubal (São Paulo, BR) Steven Skiena (Stony Brook, US) Peter F. Stadler (Leipzig, DE) Wing-Kin Sung (Singapore, SG) Alfonso Valencia (Madrid, ES) Jacques van Helden (Marseille, FR) Arndt von Haeseler (Vienna, AT) Lusheng Wang (Hong Kong, HK) Limsoon Wong (Singapore, SG) Xiaohui Xie (Irvine, US) Dong Xu (Columbia, US) Zohar Yakhini (Santa Clara, US) Alex Zelikovsky (Atlanta, US) Michael Q. Zhang (Dallas, US) ORGANIZING COMMITTEE: Adrian Horia Dediu (Tarragona) Carlos Martín-Vide (Tarragona, chair) Bianca Truthe (Magdeburg) Florentina Lilica Voicu (Tarragona) SUBMISSIONS: Authors are invited to submit non-anonymized papers in English presenting original and unpublished research. Papers should not exceed 12 single-spaced pages (including eventual appendices) and should be formatted according to the standard format for Springer Verlag's LNCS series (see http://www.springer.com/computer/lncs?SGWID=0-164-6-793341-0) Submissions have to be uploaded to: https://www.easychair.org/conferences/?conf=alcob2014 PUBLICATIONS: A volume of proceedings expectedly published by Springer in the LNBI series will be available by the time of the conference. A special issue of a major journal will be later published containing peer-reviewed extended versions of some of the papers contributed to the conference. Submissions to it will be by invitation. REGISTRATION: The period for registration is open from September 21, 2013 to July 1, 2014. The registration form can be found at: http://grammars.grlmc.com/alcob2014/Registration.php DEADLINES: Paper submission: February 4, 2014 (23:59 CET) Notification of paper acceptance or rejection: March 15, 2014 Final version of the paper for the proceedings: March 22, 2014 Early registration: March 29, 2014 Late registration: June 17, 2014 Starting of the conference: July 1, 2014 End of the conference: July 3, 2014 Submission to the post-conference journal special issue: October 3, 2014 QUESTIONS AND FURTHER INFORMATION: florentinalilica.voicu(a)urv.cat POSTAL ADDRESS: AlCoB 2014 Research Group on Mathematical Linguistics (GRLMC) Rovira i Virgili University Av. Catalunya, 35 43002 Tarragona, Spain Phone: +34 977 559543 Fax: +34 977 558386 ACKNOWLEDGEMENTS: Departament dEconomia i Coneixement, Generalitat de Catalunya Universitat Rovira i Virgili

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PhD: Statistical learning to improve gene knockout predictions for metabolic networks
by Cristian Versari 17 Sep '13

17 Sep '13

The following position is again available for a very *short* period. If you are interested, please answer as *soon* as possible at bio-computing-apply(a)lists.gforge.inria.fr PhD: Statistical learning to improve gene knockout predictions for metabolic networks based on abstract interpretation Lille University, France (BioComputing team) Prediction algorithms from computer science will become increasingly relevant to guide the engineering of synthetic biological systems. An important instance is the prediction of gene knockouts from metabolic gene networks [2,6]. This problem is starting to gain industrial relevance for the production of bio-active products by bacteria. An important limitation of existing approaches, which are based on abstract interpretation (a formal approach steming from program analysis) or constraint based optimization, is the absence of quantitative information on the strength of metabolic fluxes in such networks. We propose to remedy the situation by inferring such quantitative information from experimental data by applying statistical machine learning techniques [5,7], and improving the previous prediction algorithms based on abstract interpretation such that they can benefit from the additional quantitative information. The supervisory team: J. Niehren (INRIA) and C. Versari (Lille 1 University), both from the LIFL's BioComputing team. Local collaborators will be, for statistical learning, M. Tommasi (Lille 3 University), and for the biological aspects P. Jacques and F. Coutte (ProBioGem, Polytech Lille). BioComputing and ProBioGem have already cooperated on related topics for two years [1,3,4]. ProBioGem will recruit a PhD student in biology, who will be cooperating with BioComputing's PhD student, on the wet lab side. background : A Master's level with first-class academic credentials is required, preferably in Computer Science, with knowledge on formal methods. We might also consider candidates from biostatistics or maths. duration : 3 years, starting from Sept/Oct 2013. the project is fully funded, an open to students of any citizenship. mail contact bio-computing-apply(a)lists.gforge.inria.fr Please contact us AS SOON AS POSSIBLE ! Publications [1] F. Coutte, M. John, M. Bechet, M. Nebut, J. Niehren, V. Leclère, and P. Jacques. Synthetic Engineering of Bacillus subtilis to Overproduce Lipopeptide Biosurfactants. In 9th European Symposium on Biochemical Engineering Science, Istanbul, Turkey, 2012. [2] A. Goelzer, F. B. Brikci, I. M. Verstraete, P. Noirot, P. Bessieres, S. Aymerich, and V. Fromion. Re- construction and analysis of the genetic and metabolic regulatory networks of the central metabolism of Bacillus subtilis. BMC Systems Biology, 2(1):20+, 2008. [3] M. John, F. Coutte, M. Nebut, P. Jacques, and J. Niehren. Knockout Prediction for Reaction Networks with Partial Kinetic Information: Application to Surfactin Overproduction in Bacillus subtilis. In 3rd International Symposium on Antimicrobial Peptides, Lille, France, June 2012. [4] M. John, M. Nebut, and J. Niehren. Knockout Prediction for Reaction Networks with Partial Kinetic Information. In 14th International Conference on Verification, Model Checking, and Abstract Inter- pretation, volume 7737 of Lecture Notes in Computer Science, pages 355–374, Rome, Italy, Jan. 2013. Springer. [5] K. Murphy and S. Mian. Modelling gene expression data using dynamic Bayesian networks. Technical report, UC Berkeley, 1999. [6] N. D. Price, J. L. Reed, and B. Ø. Palsson. Genome-scale models of microbial cells: evaluating the consequences of constraints. Nature reviews. Microbiology, 2(11):886–897, Nov. 2004. [7] K. Y. Yeung, K. M. Dombek, K. Lo, J. E. Mittler, J. Zhu, E. E. Schadt, R. E. Bumgarner, and A. E. Raftery. Construction of regulatory networks using expression time-series data of a genotyped population. Proceedings of the National Academy of Sciences, 108(48):19436–19441, 2011.

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[Gtpb] GTPB Bioinformatics Training Course Announcement: PNaS13 - Pathways, Networks and Systems
by Pedro Fernandes 16 Sep '13

16 Sep '13

Dear All, We are pleased to announce that the Bioinformatics Training Course PNaS13 - Pathways, Networks and Systems is now OPEN for applications IMPORTANT DATES for this Course Deadline for applications: October 7th 2013 Notification of acceptance within 72 hours of application (working days count) Course date: October 15th to October 17th 2013 Duration: 3 days (21 hours) Registration Fee: Eur 240.00 Short description Recent technological advances in high-throughput methods (such as NGS) and quantitative proteomics, allow us to analyse each individual all the way down to his/her proteins and chemicals and his/her own DNA sequences in just a few hours. In near future we may expect that a specifically trained physician will be able to use this type of data and quickly find support for deciding on individualised therapy, on the basis of analyses made on these data: which drugs, what health risks, what consequences of lifestyle changes, which diets or rehabilitation measures are appropriate for a patient with such an individualised profile. More information, including instructions on how to apply at: http://gtpb.igc.gulbenkian.pt/bicourses/PNaS13/ Thank you for your Interest P. Fernandes GTPB Coordinator -- Pedro Fernandes Instituto Gulbenkian de Ciência Apartado 14 2781-901 OEIRAS PORTUGAL Tel +351 21 4407912 http://gtpb.igc.gulbenkian.pt _______________________________________________ Gtpb mailing list Gtpb(a)igc.gulbenkian.pt https://lists.igc.gulbenkian.pt/mailman/listinfo/gtpb

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PhD position in bioinformatics at University of Antwerp (BE)
by Kris Laukens 16 Sep '13

16 Sep '13

Dear colleagues, please feel free to forward this vacancy to potential candidates. Thank you, kind regards, Kris Laukens VACANCY: The Faculty of Sciences of the University of Antwerp is seeking to fill the following full-time vacancy in the Department of Mathematics and Computer Science: Doctoral researcher in the field of bioinformatics / data mining Job description You will perform research on the development and application of novel data mining and machine learning techniques for the interpretation of proteome data. You will work closely with domain experts to understand the data and its particular problems. You collaborate with researchers in different disciplines (from computational sciences to life sciences) within a large consortium in Flanders. Profile and requirements - You have a master degree in Computer Sciences, Bioinformatics, Mathematics, Physics, (software) engineering or equivalent, with outstanding study results. - Profound programming skills (C++, Java, Python) and familiarity with relational databases (MySQL) are required. Experience with statistical / mathematical software (R, Matlab) is a plus. - You are strong in interdisciplinary English communication, quality-oriented and creative, and eager to emerge in new scientific disciplines. - Previous experience in protein bioinformatics, mass spectrometry or other ‘omics techniques is an advantage. We offer - A doctoral research position for a period of two years, with the possibility of renewal after positive evaluation. The position can start immediately; - An exciting research opportunity to complete a PhD; - A salary commensurate with your experience and academic qualifications; - A dynamic, stimulating and multinational work environment. About the research group The Advanced Database Research and Modelling (ADReM) research group of the Department of Mathematics and Computer Science is a leading group in both Belgian and European data mining. It is one of the founding members of Biomina (biomedical informatics research center Antwerp), a new interdisciplinary research unit for biomedical informatics established by the University of Antwerp and the Antwerp University Hospital that aims to address the growing needs of biomedical data processing and to enable new interdisciplinary cross-fertilization. Interested? Applicants are invited to send a motivation letter, a detailed CV (including courses, grades, previous work, publications) and contact info of at least two references (including email addresses and phone numbers) to Kris Laukens (kris.laukens(a)uantwerpen.be) Don’t hesitate to contact us in advance for more information. -- Advanced Database Research and Modelling (ADReM - www.uantwerp.be/en/rg/adrem/) Biomedical Informatics research center Antwerpen (biomina - www.biomina.be) University of Antwerp, Belgium

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NBIC advanced NGS course: RNA-seq data analysis course (3rd edition), October 30 - Nov 1 2013, Leiden, the Netherlands
by C.vanGelder＠umcn.nl 14 Sep '13

14 Sep '13

RNA-seq data analysis course (3th edition) Date: October 30- Nov 1, 2013 Course coordinators: Peter-Bram 't Hoen, Marieke Simonis Location: Leiden, the Netherlands Website: http://www.nbic.nl/education/course-overview/pages3/1/coursedetails/advance… Registration: http://www.nbic.nl/education/nbic-phd-school/enrolment/ Course Description This is an expert course for people with experience in NGS. The course will consist of seminars and hands-on command line, Galaxy and R practicals and will focus on data preprocessing, quality control, alignment, visualization and statistics for differential transcript expression. Examples will be taken from human and mouse studies. The course does not cover prokaryotic RNA profiling nor plant- and metagenomics aspects. Course topics: * RNA-seq experimental approaches * Alignment and de novo assembly * Statistics for differential gene expression * eQTL analysis and allele specific expression * Variant calling and RNA editing * Small RNA profiling * Software for RNA-seq data analysis Target audience Participants for the RNA-seq course should preferably have participated in the general NGS course or otherwise have demonstrated hands-on experience with NGS data analysis. The course is aimed at PhD students and post-docs, but scientific programmers and data analysts with a background in biology and bioinformatics may also attend. Registrations will be handled on a first-come-first-served basis but experience and motivation will be reviewed. Seats have been reserved for participants in the FP7-funded project RD-Connect<http://www.rd-connect.eu/> and Marie Curie European Training Network TranCYST<http://www.trancyst.eu/>. NBIC PhD School The Life Sciences Track of the NBIC PhD School (http://www.nbic.nl/education/nbic-phd-school/nbic-phd-school-course-portfol…) currently offers six bioinformatics courses focussing on application and data-analysis of Next-generation sequencing (NGS). All NBIC NGS courses are co-developed and co-organised by experts in the field and in close collaboration with leading research groups throughout the Netherlands. All NBIC courses are taught in English and are open to PhD students and researchers worldwide. More information For more information about the course you can contact Celia van Gelder (NBIC Education) at celia.van.gelder(a)nbic.nl<mailto:celia.van.gelder@nbic.nl>. -- Dr. Celia W.G. van Gelder Coordinator Education CMBI Projectleader Education NBIC tel. +31-(0)24-3666120 e-mail: C.vanGelder(a)umcn.nl<mailto:C.vanGelder@umcn.nl> websites: www.cmbi.ru.nl<http://www.cmbi.ru.nl>, www.nbic.nl<http://www.nbic.nl> Postal address: CMBI 260 Radboud University Nijmegen-Medical Centre /NCMLS PO Box 9101, 6500 HB Nijmegen The Netherlands Het UMC St Radboud staat geregistreerd bij de Kamer van Koophandel in het handelsregister onder nummer 41055629. The Radboud University Nijmegen Medical Centre is listed in the Commercial Register of the Chamber of Commerce under file number 41055629.

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NBIC PhD course Protein Structures: production, prowess, power, promises, and problems
by C.vanGelder＠umcn.nl 14 Sep '13

14 Sep '13

NBIC PhD course Protein Structures: production, prowess, power, promises, and problems Date: 4 – 8 Nov 2013 Course coordinator: Gert Vriend Location: Center for Molecular and Biomolecular Informatics (CMBI), UMC Radboud, Nijmegen, the Netherlands Website: http://www.nbic.nl/education/nbic-phd-school/course-schedule/protein-struct… Registration: http://www.nbic.nl/education/nbic-phd-school/enrolment/ Target audience The course is suitable for both PhD students working in structural bioinformatics as well as for PhD students in the life sciences who want to learn more about using structural informatioin in their research. The course schedule accommodates both groups, parallel sessions for both groups will be scheduled when necessary. Course Description In the right hands, protein structures are a 'power'ful tool to answer bio-molecular questions. Knowledge of the structure is a pre-requisite for rational drug design, for biotechnology, for chemical biology, and for answering a whole series of biomedical questions. In this course we will discuss the 'production' of protein structures by NMR, X-ray, and homology modelling. These methods all have their pro's and cons so a certain 'prowess' is needed to follow all 'promises' and start attacking bio-medical 'problems' using protein structures. The course will be split in three parts. Part 1) Looking and seeing things in protein structures, learning to operate the software, understanding some of the algorithms. Part 2) Protein structure determination (prediction) with NMR, X-ray, and homology modelling, and the possibilities and problems that come with each of these three techniques. Part 3) Applying all that was learned in real-life example studies. Course topics Day 1: Homology modelling Day 2: Protein structure determination and validation Day 3: Electrostatics and molecular dynamics Day 4: Protein structure comparison Day 5: Own project executed with help from CMBI staff. Examples of questions you will be able to answer after following the course: · Why is a person with this mutation sick? Or in other words, how does the molecular phenotype cause a disease state? · This enzyme converts mannose. Can I make is specificity broader? · This enzyme doesn't function in my in vitro assay. Should I add some ions? · I want to add a tag to my enzyme, should I put it on the N-terminus, the C-terminus, or is something different needed? · This receptor binds a ligand, but if I look at the structure, that ligand doesn't fit at all. Can I predict motions that take place upon ligand binding? NBIC PhD School This course is part of the Education Programme of the NBIC PhD School. The NBIC PhD School offers training and education for PhD students in bioinformatics. More information about the NBIC PhD School can also be found on http://www.nbic.nl => Education => NBIC PhD School. More information For more information about the course you can contact Celia van Gelder (NBIC Education) at celia.van.gelder(a)nbic.nl<mailto:celia.van.gelder@nbic.nl>. -- Dr. Celia W.G. van Gelder Coordinator Education CMBI Projectleader Education NBIC tel. +31-(0)24-3666120 e-mail: C.vanGelder(a)umcn.nl<mailto:C.vanGelder@umcn.nl> websites: www.cmbi.ru.nl<http://www.cmbi.ru.nl>, www.nbic.nl<http://www.nbic.nl> Postal address: CMBI 260 Radboud University Nijmegen-Medical Centre /NCMLS PO Box 9101, 6500 HB Nijmegen The Netherlands Het UMC St Radboud staat geregistreerd bij de Kamer van Koophandel in het handelsregister onder nummer 41055629. The Radboud University Nijmegen Medical Centre is listed in the Commercial Register of the Chamber of Commerce under file number 41055629.

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LATA 2014: 3rd call for papers
by GRLMC 14 Sep '13

14 Sep '13

*To be removed from our mailing list, please respond to this message with UNSUBSCRIBE in the subject line* ************************************************************************* 8th INTERNATIONAL CONFERENCE ON LANGUAGE AND AUTOMATA THEORY AND APPLICATIONS LATA 2014 Madrid, Spain March 10-14, 2014 Organized by: Research Group on Implementation of Language-Driven Software and Applications (ILSA) Complutense University of Madrid Research Group on Mathematical Linguistics (GRLMC) Rovira i Virgili University http://grammars.grlmc.com/lata2014/ ********************************************************************* AIMS: LATA is a yearly conference on theoretical computer science and its applications. Following the tradition of the diverse PhD training events in the field developed at Rovira i Virgili University in Tarragona since 2002, LATA 2014 will reserve significant room for young scholars at the beginning of their career. It will aim at attracting contributions from both classical theory fields and application areas (bioinformatics, language technology, artificial intelligence, etc.). VENUE: LATA 2014 will take place in Madrid, the capital of Spain. The venue will be the School of Informatics of Complutense University. SCOPE: Topics of either theoretical or applied interest include, but are not limited to: algebraic language theory algorithms for semi-structured data mining algorithms on automata and words automata and logic automata for system analysis and programme verification automata, concurrency and Petri nets automatic structures cellular automata codes combinatorics on words compilers computability computational complexity data and image compression decidability issues on words and languages descriptional complexity DNA and other models of bio-inspired computing digital libraries and document engineering foundations of finite state technology foundations of XML fuzzy and rough languages grammars (Chomsky hierarchy, contextual, unification, categorial, etc.) grammatical inference and algorithmic learning graphs and graph transformation language varieties and semigroups language-based cryptography language-theoretic foundations of artificial intelligence and artificial life natural language and speech automatic processing parallel and regulated rewriting parsing patterns power series quantum, chemical and optical computing semantics string and combinatorial issues in computational biology and bioinformatics string processing algorithms symbolic dynamics symbolic neural networks term rewriting transducers trees, tree languages and tree automata weighted automata STRUCTURE: LATA 2014 will consist of: invited talks invited tutorials peer-reviewed contributions INVITED SPEAKERS: Javier Esparza (Munich Tech, DE), On Trees and Fixed Point Equations (tutorial) Leslie A. Goldberg (Oxford, UK), The Complexity of Approximate Counting Oscar H. Ibarra (Santa Barbara, US), tba Sanjeev Khanna (Philadelphia, US), tba Helmut Seidl (Munich Tech, DE), tba PROGRAMME COMMITTEE: Dana Angluin (Yale, US) Eugene Asarin (Paris Diderot, FR) Jos Baeten (Amsterdam, NL) Christel Baier (Dresden, DE) Jan Bergstra (Amsterdam, NL) Jin-Yi Cai (Madison, US) Marek Chrobak (Riverside, US) Andrea Corradini (Pisa, IT) Mariangiola Dezani (Turin, IT) Ding-Zhu Du (Dallas, US) Michael R. Fellows (Darwin, AU) Jörg Flum (Freiburg, DE) Nissim Francez (Technion, IL) Jürgen Giesl (Aachen, DE) Annegret Habel (Oldenburg, DE) Kazuo Iwama (Kyoto, JP) Sampath Kannan (Philadelphia, US) Ming-Yang Kao (Northwestern, US) Deepak Kapur (Albuquerque, US) Joost-Pieter Katoen (Aachen, DE) S. Rao Kosaraju (Johns Hopkins, US) Evangelos Kranakis (Carleton, CA) Gad M. Landau (Haifa, IL) Andrzej Lingas (Lund, SE) Jack Lutz (Iowa State, US) Ian Mackie (École Polytechnique, FR) Carlos Martín-Vide (Tarragona, ES, chair) Giancarlo Mauri (Milan, IT) Faron G. Moller (Swansea, UK) Paliath Narendran (Albany, US) Enno Ohlebusch (Ulm, DE) Helmut Prodinger (Stellenbosch, ZA) Jean-François Raskin (Brussels, BE) Wolfgang Reisig (Humboldt Berlin, DE) Marco Roveri (Bruno Kessler, Trento, IT) Michaël Rusinowitch (LORIA, Nancy, FR) Yasubumi Sakakibara (Keio, JP) Davide Sangiorgi (Bologna, IT) Colin Stirling (Edinburgh, UK) Jianwen Su (Santa Barbara, US) Jean-Pierre Talpin (IRISA, Rennes, FR) Andrzej Tarlecki (Warsaw, PL) Rick Thomas (Leicester, UK) Sophie Tison (Lille, FR) Rob van Glabbeek (NICTA, Sydney, AU) Helmut Veith (Vienna Tech, AT) ORGANIZING COMMITTEE: Adrian Horia Dediu (Tarragona) Ana Fernández-Pampillón (Madrid) Carlos Martín-Vide (Tarragona, co-chair) Antonio Sarasa (Madrid) José-Luis Sierra (Madrid, co-chair) Bianca Truthe (Magdeburg) Florentina Lilica Voicu (Tarragona) SUBMISSIONS: Authors are invited to submit non-anonymized papers in English presenting original and unpublished research. Papers should not exceed 12 single-spaced pages (including eventual appendices) and should be formatted according to the standard format for Springer Verlag's LNCS series (see http://www.springer.com/computer/lncs?SGWID=0-164-6-793341-0) Submissions have to be uploaded to: https://www.easychair.org/conferences/?conf=lata2014 PUBLICATIONS: A volume of proceedings published by Springer in the LNCS series will be available by the time of the conference. A special issue of a major journal will be later published containing peer-reviewed extended versions of some of the papers contributed to the conference. Submissions to it will be by invitation. REGISTRATION: The period for registration is open from July 15, 2013 to March 10, 2014. The registration form can be found at: http://grammars.grlmc.com/lata2014/Registration.php DEADLINES: Paper submission: October 14, 2013 (23:59 CET) Notification of paper acceptance or rejection: November 25, 2013 Final version of the paper for the LNCS proceedings: December 2, 2013 Early registration: December 9, 2013 Late registration: February 24, 2014 Starting of the conference: March 10, 2014 End of the conference: March 14, 2014 Submission to the post-conference journal special issue: June 14, 2014 QUESTIONS AND FURTHER INFORMATION: florentinalilica.voicu(a)urv.cat POSTAL ADDRESS: LATA 2014 Research Group on Mathematical Linguistics (GRLMC) Rovira i Virgili University Av. Catalunya, 35 43002 Tarragona, Spain Phone: +34-977-559543 Fax: +34-977-558386 ACKNOWLEDGEMENTS: Departament dEconomia i Coneixement, Generalitat de Catalunya Universidad Complutense de Madrid Universitat Rovira i Virgili

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