November 2015 - BBClist - maillist.psb.ugent.be

Reminder: One-day symposium - In silico drug design - Nov 30th 2015 - Villeneuve d'Ascq (Lille area)
by Marc Lensink 16 Nov '15

16 Nov '15

Dear colleagues, This is a reminder about the one-day symposium organized by the Lille bioinformatics platform, bilille, on the use of molecular modeling for computer-aided drug design. The detailed schedule is now available through the link below. Registration is free but required before Thursday, 19th November. The number of places is limited. Lunch is offered. ----- Recent years have seen a rapid development of molecular modeling and docking techniques in combination with high-throughput protein crystallography. These novel methods have allowed many a success story in the computer-assisted discovery of new drugs and has helped structure-based drug design to become increasingly effective in the development of target-based therapies. During this one-day symposium, a panel of experts will introduce, discuss and illustrate these techniques. The meeting will be held at the lecture hall of Campus CNRS Haute Borne in Villeneuve d'Ascq, next to Lille, Monday, 30th November 2015. Speakers are: * Martine Prevost - Université Libre de Bruxelles * Eric Henon - Université de Reims * Anna Gaulton - EMBL-EBI, Cambridge * Philippe Chavatte - Faculté de Pharmacie, Université de Lille * Henriette Willems - Takeda Cambridge * Jerome de Ruyck - UGSF, Université de Lille * Nicolas Willand and Olivier Sperandio, UMR1177, Inserm, Université de Lille, Institut Pasteur de Lille More information and detailed schedule available here http://www.cristal.univ-lille.fr/~htouzet/bilille/drug_design.html For more information, send an e-mail to any member of the organizing committee (marc.lensink, guillaume.brysbaert or helene.touzet, all @univ-lille1.fr) Cheers, Guillaume -- Guillaume Brysbaert IR2 CNRS - Computational biology ------------------------------------------ UGSF - UMR8576 Campus CNRS Haute-Borne 50 Avenue de Halley BP 70478 59658 Villeneuve d'Ascq Cedex France ------------------------------------------ tel: +33 3 62 53 17 32 fax: +33 3 62 53 17 01 ----- End forwarded message ----- -- Marc F Lensink, CR1, PhD marc.lensink(a)univ-lille1.fr University Lille, CNRS UMR8576 UGSF, FRABio FR 3688 Parc de la Haute Borne, 50 Avenue de Halley, BP 70478 F-59658 Villeneuve d'Ascq, France tel: +33 3 62 53 17 28 fax: +33 3 62 53 17 01

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AlCoB 2016: 1st call for papers
by GRLMC 13 Nov '15

13 Nov '15

*To be removed from our mailing list, please respond to this message with UNSUBSCRIBE in the subject line* ************************************************************************************ 3RD INTERNATIONAL CONFERENCE ON ALGORITHMS FOR COMPUTATIONAL BIOLOGY ALCOB 2016 TRUJILLO, SPAIN JUNE 21-23, 2016 Organized by: Computer Architecture and Logic Design Group (ARCO) University of Extremadura Extremadura Centre for Advanced Technologies (CETA-Ciemat) Research Group on Mathematical Linguistics (GRLMC) Rovira i Virgili University http://grammars.grlmc.com/alcob2016/ ************************************************************************************ 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. Previous events were held in Tarragona (2014) and Mexico City (2015). 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 2016 will take place in Trujillo, homeland of the so-called "conquistadores" who arrived in Peru in the XVI century. The venue will be the Extremadura Centre for Advanced Technologies. 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 2016 will consist of: invited lectures invited tutorials peer-reviewed contributions INVITED SPEAKERS: tba PROGRAMME COMMITTEE (to be completed): Can Alkan (Bilkent University, Ankara, Turkey) Timothy L. Bailey (University of Queensland, Brisbane, Australia) Vladimir Bajic (King Abdullah University of Science and Technology, Thuwal, Saudi Arabia) Geoff Barton (University of Dundee, UK) Inanc Birol (University of British Columbia, Vancouver, Canada) Alan P. Boyle (University of Michigan, Ann Arbor, USA) Vladimir Brusic (NazarbayevUniversity, Astana, Kazakhstan) Liming Cai (University of Georgia, Athens, USA) Rita Casadio (University of Bologna, Italy) Ken Chen (University of Texas MD AndersonCancerCenter, Houston, USA) Jason Ernst (University of California, Los Angeles, USA) Laurent Gautier (Novartis Institutes for BioMedical Research, Cambridge, USA) Manolo Gouy (ClaudeBernardUniversity Lyon 1, France) Michael Gribskov (PurdueUniversity, West Lafayette, USA) Iman Hajirasouliha (Stanford University, USA) John Hancock (Genome Analysis Centre, Norwich, UK) Fereydoun Hormozdiari (University of California, Davis, USA) Kazutaka Katoh (Osaka University, Japan) Evangelos Kranakis (Carleton University, Ottawa, Canada) Bill Majoros (DukeUniversity, Durham, USA) Lennart Martens (Ghent University, Belgium) Maria-Jesus Martin (European Bioinformatics Institute, Hinxton, UK) Carlos Martín-Vide (Rovira i VirgiliUniversity, Tarragona, Spain, chair) Folker Meyer (Argonne National Laboratory, USA) Kenta Nakai (University of Tokyo, Japan) Matteo Pellegrini (University of California, Los Angeles, USA) Mihaela Pertea (JohnsHopkinsUniversity, Baltimore, USA) Ben Raphael (BrownUniversity, Providence, USA) Denis Shields (UniversityCollegeDublin, Ireland) Fredj Tekaia (Pasteur Institute, Paris, France) Fuli Yu (BaylorCollege of Medicine, Houston, USA) Daniel Zerbino (European Bioinformatics Institute, Hinxton, UK) Kaizhong Zhang (University of WesternOntario, London, Canada) Weixiong Zhang (WashingtonUniversity in St. Louis, USA) Zhongming Zhao (VanderbiltUniversity, Nashville, USA) Yaoqi Zhou (GriffithUniversity, Brisbane, Australia) ORGANIZING COMMITTEE: María Botón-Fernández (Trujillo, co-chair) Carlos Martín-Vide (Tarragona, co-chair) Miguel A. Vega-Rodríguez (Cáceres, co-chair) Florentina Lilica Voicu (Tarragona) LOCAL COMMITTEE: Leslye Alarcón (Cáceres) María Botón-Fernández (Trujillo, co-chair) José M. Granado-Criado (Cáceres) Sergio Santander-Jiménez (Cáceres) Miguel A. Vega-Rodríguez (Cáceres, co-chair) 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, references, proofs, etc.) and should be prepared 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=alcob2016 PUBLICATIONS: A volume of proceedings published by Springer in the LNCS/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 substantially 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 October 30, 2015 to June 21, 2016. The registration form can be found at: http://grammars.grlmc.com/alcob2016/Registration.php DEADLINES: Paper submission: January 26, 2016 (23:59 CET) Notification of paper acceptance or rejection: March 1, 2016 Final version of the paper for the LNCS/LNBI proceedings: March 15, 2016 Early registration: March 15, 2016 Late registration: June 7, 2016 Submission to the journal special issue: September 23, 2016 QUESTIONS AND FURTHER INFORMATION: florentinalilica.voicu (at) urv.cat POSTAL ADDRESS: AlCoB 2016 Research Group on Mathematical Linguistics (GRLMC) Rovira i Virgili University Av. Catalunya, 35 43002 Tarragona, Spain Phone: +34 977 559 543 Fax: +34 977 558 386 ACKNOWLEDGEMENTS: Centro Extremeño de Tecnologías Avanzadas (CETA-CIEMAT) Universidad de Extremadura Universitat Rovira i Virgili

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Benelux Bioinformatics Conference 2015 - Call for anniversary edition memories
by Laukens Kris 12 Nov '15

12 Nov '15

- Benelux Bioinformatics Conference 2015 - Call for anniversary edition memories - Join us in Antwerp for the tenth anniversary edition of the Benelux Bioinformatics Conference! To celebrate this special anniversary edition, we believe there should be time for a retrospective session on the previous editions of this conference, and on the evolution of the community. We therefore invite anyone who attended earlier editions (especially the first editions), to send us your memories, interesting facts and trivia that could fit in such a session or elsewhere. Please send your input to info(a)bbc2015.be<mailto:info@bbc2015.be>. Pictures or other media are very welcome too, but please use a file transfer or cloud service to send them without crashing our mailbox :-). To give our special guest speaker sufficient time to compile this material, we look forward to receive your input preferentially by december 1st. We look forward to meeting you on a successful and interesting BBC in Antwerpen! Thank you cordially! The organisers. Practical information: Date: 7 - 8 december, 2015 Venue: Elzenveld, Lange Gasthuisstraat 45, Antwerpen, Belgium Communication channels: Website: www.bbc2015.be<http://www.bbc2015.be> Twitter: @BBC2015AN Social media hashtag: #BBC2015AN Linkedin group: http://linkd.in/1a4Gv1T Conference email: info(a)bbc2015.be<mailto:info@bbc2015.be> Gold sponsors: [cid:39348392-FFB5-410B-BD43-AC02AE426152@ua.ac.be][cid:A7C6CF3A-9AE4-4B83-A478-767908F6EA32@ua.ac.be]

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VSC Users Day
by Becuwe Stefan 12 Nov '15

12 Nov '15

VSC USERS DAY MONDAY 30 NOVEMBER 2015 Venue: University of Antwerp, Campus Drie Eiken After the successful VSC users day in January 2014, this year’s users day takes place at the University of Antwerp on Monday November 30. The users committee has organized the day and has drawn up the programme. We have invited both an external and an internal speaker. Moreover, 4 workshops will be organized (VSC for starters, Specialized Tier-2 infrastructure: shared memory, Big data, Cloud and grid access). These workshops will be repeated in the afternoon such that every participant is able to participate in two workshops. The day ends with a networking reception at 17:00 allowing time for informal discussions and followup from the day's activities. More details about the program and registration can be found at https://www.vscentrum.be/events/userday-2015 Kind regards, Stefan Becuwe, on behalf of the VSC coordination team

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Fwd: e-infrastructuren (14 december 2015)
by Frederik Coppens 09 Nov '15

09 Nov '15

Meeting on e-infrastructures in Belgium > Dear Madam, Dear Sir, > > Wouldn’t it be great if more researchers could take their work to the next level, thanks to access to the very best e-infrastructure? > > Our upcoming conference "e-Infrastructures in Belgium" is an excellent entry point for you to join us on this road to top-level research. > > Funding agencies, public authorities and the international science community are keenly aware that e-infrastructure is key for researchers to achieve at the top level internationally. > We will have an interactive dialogue between all concerned. It will be an opportunity for you to assess the great potential on offer and to clarify what you expect. > It will be about existing e-infrastructures, about how to use them better and about what should come next. > > Do you already use e-infrastructure services? Does it meet your needs? Will existing e-infrastructures meet your future requirements? Would you prefer to build your own ICT environment? Do you receive adequate funding? These are but some of the questions that will be addressed in presentations and during a panel discussion. > > This conference is a chance to make e-infrastructures at your university, in your region, in Belgium and in Europe work for you. It is also a unique opportunity for you to help shape the future. > > We hope to welcome you at the Royal Library in Brussels, this coming December 14. > Please register at http://www.begrid.be/index.php?module=blog&id=52, where you will also find the programme in full. > > Kind regards, > Rosette Vandenbroucke for the organising committee. ================================================================== Frederik Coppens, Ph.D. Project Leader Applied Bioinformatics & Biostatistics IT manager Tel: 32 (0)9 3313812 Fax:32 (0)9 3313809 VIB DEPARTMENT OF PLANT SYSTEMS BIOLOGY, UGent Technologiepark 927, 9052 Gent, BELGIUM frcop(a)psb.ugent.be http://www.psb.ugent.be/abb ==================================================================

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(no subject)
by Nicolaes G (BIOCH) 09 Nov '15

09 Nov '15

We are offering a PhD project: "Small compounds for treatment of acquired TTP" Funded by the HORIZON 2020 programme of the European Commission, the Marie Sklodowska-Curie Innovative Training Network “PROFILE” groups academic and industrial expertise within Europe to develop an immunoprofile-directed stratification of patients with the autoimmune disorder thrombotic thrombocytopenic purpura (TTP). The grant beneficiaries, located in Belgium, The Netherlands and Estonia, are currently recruiting six early stage researchers (ESR) (PhD students). To all ESR, outstanding training opportunities and support in an excellent scientific network will be provided. The project beneficiaries are affiliated with internationally renowned research institutes, universities or industrial partners. Sanquin Research as a beneficiary of the Marie Curie EID PROFILE consortium is hiring 2 PhD students. Job Description Thrombotic thrombocytopenic purpura is a life-threatening disorder that results from the development of auto-antibodies directed against ADAMTS13. You will use structural bioinformatics methods including virtual ligand screening to develop novel small-compound based therapeutic strategies for acquired TTP. You will use rational methods to select potential ligands that target pathogenic auto-antibodies that arise in patients with acquired TTP. Based on the information collected in a complementary project also small compounds interfering with CD4+ T cell responses in acquired TTP will be developed. The compounds will be tested for their efficacy in in vitro assays as well as mouse models for acquired TTP. You will work in a multidisciplinary international team that focuses on the interplay between hemostatic proteins and immune cells. This team is embedded in the Department of Plasma Proteins, where 25-30 fellow researchers (post-docs, PhD students and technicians) are studying various aspects of bleeding disorders. The research program of the department benefits from the excellent research facilities at Sanquin. This project will be performed in collaboration with Dr. Gerry Nicolaes (Pharma Target, Maastricht), expert in the development of small compounds. The PhD student will work 50% of her/his time in Maastricht. You will be trained in drug discovery, design and optimisation under the direction of Dr. Gerry Nicolaes. The PROFILE consortium consists of 6 PhD students that will al receive an excellent research-training. Additionally, all students will receive a clinical training, translational training, training in management, business, ethical and legal skills and training in career development and personal skills. Nr of positions available : 1 Research Fields Medical sciences - Other Career Stage Early stage researcher or 0-4 yrs (Post graduate) Research Profiles First Stage Researcher (R1) Benefits - An exciting, well-equipped research environment - A PhD-title after 4 years of research - Enrollment in the Graduate School of the AMC in Amsterdam. - A thorough scientific education with opportunity to become a world-class researcher - Access to the unique training network organized by the PROFILE consortium - Opportunities to present research findings at national and international conferences - Opportunities to publish research findings in international journals - Opportunities to learn to present research to the general public - A competitive salary with additional family and mobility allowance - Employment contract with social coverage Comment/web site for additional job details Profile of the ESR (PhD student) - You have a master degree with distinction in biomedical sciences or biochemistry - Especially candidates with experience in structural bioinformatics, drug design and programming in a LINUX environment are requested to apply. - You are fascinated by scientific research and innovation - You are motivated, enthusiastic and eager to learn - You are being able to work methodically and accurately - You are being able to work independently yet also being a team player - You have excellent communication skills and fluently spoken and written English - You have a creative mind and strong problem solving skills - You have a good writing and oral expression - In frame-work of your PhD you have the opportunity to work for 1.5 year in a non-academic institution that will include an extended stay at Pharma Target in Maastricht. Eligibility Candidates may have max. 4 years of full time research experience and may not have resided or carried out their main activity in The Netherlands for more than 12 months in the 3 years immediately prior to recruitment. Candidates must work exclusively on the action and must be able to start on March 1, 2016. Interested? - Applicants should submit a detailed curriculum vitae, PDF of degrees, a letter of motivation and contact information of 2 referees by email. Please mention “PROFILE ESR application” as subject. - For more information please contact prof. Dr. Jan Voorberg; tel: +31205123122, email: j.voorberg@Sanquin<mailto:j.voorberg@Sanquin> or Dr. Gerry Nicolaes; tel: +31433881688, email: g.nicolaes(a)maastrichtuniversity.nl<mailto:g.nicolaes@maastrichtuniversity.nl> - You can apply for this job no later than November 27, 2015. - Pre-selected candidates will be invited to the final selection round in Leuven, Belgium held in December 2016 (date to be announced). Travel expenses will be reimbursed up to 100€.

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BigDat 2016: early registration deadline 15 November
by GRLMC 07 Nov '15

07 Nov '15

*To be removed from our mailing list, please respond to this message with UNSUBSCRIBE in the subject line* ******************************************************** 2ND INTERNATIONAL WINTER SCHOOL ON BIG DATA BIGDAT 2016 BILBAO, SPAIN FEBRUARY 8-12, 2016 Organized by: DeustoTech, University of Deusto Rovira i VirgiliUniversity http://grammars.grlmc.com/bigdat2016/ ******************************************************** --- Early registration deadline: November 15, 2015 --- ******************************************************** AIM: BigDat 2016 will be a research training event addressed to graduates and postgraduates in the first steps of their academic career. With a global scope, it aims at updating them about the most recent advances in the critical and fast developing area of big data, which covers a large spectrum of current exciting research and industrial innovation with an extraordinary potential for a huge impact on scientific discoveries, medicine, engineering, business models, and society itself. Renowned academics and industry pioneers will lecture and share their views with the audience. Most big data subareas will be displayed, namely: foundations, infrastructure, management, search and mining, security and privacy, and applications. Main challenges of analytics, management and storage of big data will be identified through 4 keynote lectures, 20 six-hour courses, and 1 round table, which will tackle the most active and promising topics. The organizers are convinced that outstanding speakers will attract the brightest and most motivated students. Interaction will be a main component of the event. An open session will give participants the opportunity to present their own work in progress in 5 minutes. ADDRESSED TO: Graduates and postgraduates from around the world. There are no formal pre-requisites in terms of academic degrees. However, since there will be differences in the course levels, specific knowledge background may be assumed for some of them. BigDat 2016 is also appropriate for more senior people who want to keep themselves updated on recent developments and future trends. All will surely find it fruitful to listen and discuss with major researchers, industry leaders and innovators. REGIME: In addition to keynotes, 2-3 courses will run in parallel during the whole event. Participants will be able to freely choose the courses they will be willing to attend as well as to move from one to another. VENUE: BigDat 2016 will take place in Bilbao, the capital of the Basque Country region, famous for its gastronomy and the seat of the GuggenheimMuseum. The venue will be: DeustoTech, School of Engineering University of Deusto Avda. Universidades, 24 48014 Bilbao KEYNOTE SPEAKERS: Nektarios Benekos (European Organization for Nuclear Research), Role of Computing and Software in Particle Physics Chih-Jen Lin (NationalTaiwanUniversity), When and When Not to Use Distributed Machine Learning Jeffrey Ullman (StanfordUniversity), Theory of MapReduce Algorithms Alexandre Vaniachine (Argonne National Laboratory), Big Data Technologies and Data Science Methods in the Higgs Boson Discovery PROFESSORS AND COURSES: Nektarios Benekos (European Organization for Nuclear Research), [introductory/intermediate] Exploring the Mysteries of our Cosmos: the Big Deal between Big Data and Big Science Hendrik Blockeel (KU Leuven), [intermediate] Decision Trees for Big Data Analytics Edward Y. Chang (HTC Health, Taipei), [introductory/intermediate] Big Data Analytics for Healthcare: Scalable Algorithms and Applications Nello Cristianini (University of Bristol), [introductory] THINKBIG: Towards Large Scale Computational Social Sciences, History and Digital Humanities Ernesto Damiani (University of Milan), [introductory/intermediate] Architectures, Models and Tools for Big-Data-as-a-Service Francisco Herrera (University of Granada), [introductory] Big Data Preprocessing George Karypis (University of Minnesota), [intermediate/advanced] Scaling Up Recommender Systems Chih-Jen Lin (NationalTaiwanUniversity), [introductory/intermediate] Large-scale Linear Classification Geoff McLachlan (University of Queensland), [intermediate/advanced] Big Data Extensions of Some Methods of Classification and Clustering Wladek Minor (University of Virginia), [introductory/intermediate] Big Data and Structural Biology and Chemistry Raymond Ng (University of British Columbia), [introductory/intermediate] Mining and Summarizing Text Conversations Sankar K. Pal (Indian Statistical Institute), [introductory/advanced] Machine Intelligence and Granular Mining: Relevance to Big Data Erhard Rahm (University of Leipzig), [introductory/intermediate] Scalable and Privacy-preserving Data Integration Hanan Samet (University of Maryland), [introductory/intermediate] Sorting in Space: Multidimensional, Spatial, and Metric Data Structures for Applications in Spatial Databases, Geographic Information Systems (GIS), and Location-based Services Jaideep Srivastava (Qatar Computing Research Institute), [intermediate] Social Computing: Computing as an Integral Tool to Understanding Human Behavior and Solving Problems of Social Relevance Jeffrey Ullman (StanfordUniversity), [introductory] Big Data Algorithms that Aren't Machine Learning Alexandre Vaniachine (Argonne National Laboratory), [introductory/advanced] Big Data: Comparison with Computational Models Xiaowei Xu (University of Arkansas, Little Rock), [introductory/advanced] Big Data Analytics for Social Networks Fuli Yu (Baylor College of Medicine), [introductory/intermediate] Overview of Large-scale Genomics and Variant Analysis Mohammed J. Zaki (Rensselaer Polytechnic Institute), [introductory/intermediate] Large Scale Graph Analytics and Mining OPEN SESSION An open session will collect 5-minute presentations of work in progress by participants. They should submit a half-page abstract containing title, authors, and summary of the research to adrian.dediu (at) urv.cat by February 5, 2016. ORGANIZING COMMITTEE: Adrian Horia Dediu Carlos Martín-Vide (co-chair) Iker Pastor López (co-chair) Borja Sanz (co-chair) Florentina Lilica Voicu REGISTRATION: It has to be done at http://grammars.grlmc.com/bigdat2016/registration.php The selection of up to 8 courses requested in the registration template is only tentative and non-binding. For the sake of organization, it will be helpful to have an approximation of the respective demand for each course. Since the capacity of the venue is limited, registration requests will be processed on a first come first served basis. The registration period will be closed and the on-line registration facility disabled when the capacity of the venue will be complete. It is much recommended to register prior to the event. FEES: Participants are expected to attend full-time. Fees are a flat rate allowing the attendance to all courses during the week. There are several early registration deadlines. Fees depend on the registration deadline. ACCOMMODATION: Suggestions of accommodation are available on the webpage. CERTIFICATE: Participants will be delivered a certificate of attendance. QUESTIONS AND FURTHER INFORMATION: florentinalilica.voicu (at) urv.cat ACKNOWLEDGEMENTS: University of Deusto Rovira i VirgiliUniversity

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SLSP 2015: call for participation
by GRLMC 06 Nov '15

06 Nov '15

*To be removed from our mailing list, please respond to this message with UNSUBSCRIBE in the subject line* ********************************************************************************** 3rd INTERNATIONAL CONFERENCE ON STATISTICAL LANGUAGE AND SPEECH PROCESSING SLSP 2015 Budapest, Hungary November 24-26, 2015 Organised by: Laboratory of Speech Acoustics Department of Telecommunications and Telematics Budapest University of Technology and Economics http://alpha.tmit.bme.hu/speech/ Research Group on Mathematical Linguistics (GRLMC) Rovira i Virgili University http://grammars.grlmc.com/SLSP2015/ ********************************************************************************** PROGRAM Tuesday, November 24 08:15 - 08:45 Registration 08:45 - 09:00 Opening 09:00 - 09:50 Xavier Carreras: Low-rank Matrix Learning for Compositional Objects, Strings and Trees - Invited Lecture 09:50 - 10:20 Coffee Break 10:20 - 11:35 Khan Baykaner, Mark Huckvale, Iya Whiteley, Oleg Ryumin and Svetlana Andreeva: The Prediction of Fatigue Using Speech as a Biosignal Tamás Gábor Csapó, Géza Németh and Milos Cernak: Residual-based Excitation with Continuous F0 Modeling in HMM-based Speech Synthesis Marc Evrard, Albert Rilliard and Christophe d'Alessandro: Evaluation of the Impact of Corpus Phonetic Alignment on the HMM-Based Speech Synthesis Quality 11:35 - 11:50 Break 11:50 - 12:40 Sahar Ghannay, Yannick Estève, Nathalie Camelin, Camille Dutrey, Fabian Santiago and Martine Adda-Decker: Combining Continuous Word Representation and Prosodic Features for ASR Error Prediction Mark Huckvale and Aimee Webb: A Comparison of Human and Machine Estimation of Speaker Age 12:40 - 14:10 Lunch 14:10 - 15:25 Luis Chiruzzo and Dina Wonsever: Supertagging for a Statistical HPSG Parser for Spanish Mathilde Dargnat, Katarina Bartkova and Denis Jouvet: Discourse Particles in French: Prosodic Parameters Extraction and Analysis Julia Efremova, Alejandro Montes García, Jianpeng Zhang and Toon Calders: Effects of Evolutionary Linguistics in Text Classification 15:25 - 15:40 Break 15:40 - 16:55 Fatemeh Ghiyafeh Davoodi and Yllias Chali: Semi-Extractive Multi-Document Summarization via Submodular Functions Pavel Král, Ladislav Lenc and Christophe Cerisara: Semantic Features for Dialogue Act Recognition André Mansikkaniemi and Mikko Kurimo: Unsupervised and User Feedback Based Lexicon Adaptation for Foreign Names and Acronyms Wednesday, November 25 09:00 - 09:50 Sebastian Riedel: Towards Two-way Interaction with Reading Machines - Invited Lecture 09:50 - 10:20 Coffee Break 10:20 - 11:35 Denis Jouvet and Katarina Bartkova: Acoustical Frame Rate and Pronunciation Variant Statistics Tatiana Kachkovskaia: The Influence of Boundary Depth on Phrase-final Lengthening in Russian Ferenc Kazinczi, Krisztina Mészáros and Klára Vicsi: Automatic Detection of Voice Disorders 11:35 - 11:50 Break and Group Photo 11:50 - 12:40 Rasa Lileikyte, Lori Lamel and Jean-Luc Gauvain: Conversational Telephone Speech Recognition for Lithuanian Erfan Loweimi, Mortaza Doulaty, Jon Barker and Thomas Hain: Long-term Statistical Feature Extraction from Speech Signal and its Application in Emotion Recognition 12:40 - 14:10 Lunch 14:10 - 15:25 Lorenzo Ferrone, Fabio Massimo Zanzotto and Xavier Carreras: Decoding Distributed Tree Structures Luiza Orosanu and Denis Jouvet: Combining Lexical and Prosodic Features for Automatic Detection of Sentence Modality in French Konstantinos Pechlivanis and Stasinos Konstantopoulos: Corpus Based Methods for Learning Models of Metaphor in Modern Greek 15:25 - 15:40 Break 15:40 - 16:30 Lina Maria Rojas-Barahona and Christophe Cerisara: Weakly Supervised Discriminative Training of Linear Models for Natural Language Processing Daniel Soutner and Ludek Müller: On Continuous Space Word Representations as Input of LSTM Language Model 16:30 - 18:30 Touristic visit Thursday, November 26 09:00 - 09:50 Steve Young: Open-domain Statistical Spoken Dialogue Systems - Invited Lecture 09:50 - 10:20 Coffee Break 10:20 - 11:35 Bogdan Ludusan, Antonio Origlia and Emmanuel Dupoux: Rhythm-Based Syllabic Stress Learning without Labelled Data Raheel Qader, Gwénolé Lecorvé, Damien Lolive and Pascale Sébillot: Probabilistic Speaker Pronunciation Adaptation for Spontaneous Speech Synthesis Using Linguistic Features Sarah Samson Juan, Laurent Besacier, Benjamin Lecouteux and Tien-Ping Tan: Merging of Native and Non-native Speech for Low-resource Accented ASR 11:35 - 11:50 Break 11:50 - 12:40 Jan Zelinka, Jan Vanek and Ludek Müller: Neural-Network-based Spectrum Processing for Speech Recognition and Speaker Verification Xiaoyi Wu, Yuji Matsumoto, Kevin Duh and Hiroyuki Shindo: An Improved Hierarchical Word Sequence Language Model Using Word Association 12:40 - 12:55 Closing

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PoreCamp (Birmingham, 14-18 December 2015) - A training bootcamp based around Oxford Nanopore MinION sequencing
by Bert Overduin 06 Nov '15

06 Nov '15

Dear all, From 14-18 December 2015 PoreCamp will be run at the University of Birmingham. PoreCamp is a training bootcamp based around Oxford Nanopore MinION sequencing. It is a unique opportunity to learn about this exciting new sequencing platform from some of the leading experts in the field. PoreCamp will be entirely hands-on; participants will gain practical experience in library preparation, operation of the MinION and data analysis. As far as I know this is the first course of its kind in the UK, possibly in Europe, or even the world! The registration fee for PoreCamp is £500, but there are a limited number of bursaries available to cover registration costs. More information (including how to apply) can be found at: http://porecamp.github.io. Note that the deadline for application is coming Wednesday 11 November 2015 at 6pm UK time. Please feel free to forward this mail and the attached flyer to anyone potentially interested. With kind regards, Bert -- Bert Overduin, PhD TRAINING AND OUTREACH BIOINFORMATICIAN Bert.Overduin(a)ed.ac.uk EDINBURGH GENOMICS The University of Edinburgh Ashworth Laboratories The King's Buildings Charlotte Auerbach Road Edinburgh EH9 3FL Scotland, United Kingdom tel. +44(0)1316507403 http://genomics.ed.ac.uk The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.

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Programming for Evolutionary Biology Summer School, 10-27 Feb 2016, Leipzig, Germany
by Bert Overduin 06 Nov '15

06 Nov '15

Forwarding this on behalf of a friend. This is a very intensive course in which I have taught several times myself and that I can recommend very highly. Please feel free to forward this mail to anyone potentially interested. Cheers, Bert ********** Course on Programming for Evolutionary Biology When: February 10th - February 27th 2016 Location: Leipzig, Germany Application deadline: December 20th 2015 Detailed information about the course content and how to apply: http://evop.bioinf.uni-leipzig.de/ In this intensive 18 days course, students will learn how to survive in a Linux environment, get hands-on experience in two widely used programming languages (Python and R), and statistical data analysis. The classes will be given by experts in the field and consist of lectures and exercises with the computer. The aim of the course is to provide the students with the necessary background and skills to perform computational analyses with a focus on solving research questions related to genomics and evolution. The philosophy of the course will be “learning by doing”, which means that the computational skills will be taught using examples and real data from evolutionary biology for the exercises. During the course, students will also propose projects of their own interest and perform them as final projects in small groups under the supervision of a teaching assistant. This summer school is open for students from all countries and targeted toward PhD students and postdocs of evolutionary biology or related research fields with no or little programming experience who want to become proficient in computational evolutionary biology in a couple of weeks. The course takes place at the University of Leipzig. -- Dr. Katja Nowick Group Leader "TFome and Transcriptome Evolution" www.nowick-lab.info Universität Leipzig Härtelstrasse 16-18 04107 Leipzig Germany Phone 1: +49 341 97-16684 Phone 2: +49 341 97-16653 Fax: +49 341 97-16679 ********** -- Bert Overduin, PhD TRAINING AND OUTREACH BIOINFORMATICIAN Bert.Overduin(a)ed.ac.uk EDINBURGH GENOMICS The University of Edinburgh Ashworth Laboratories The King's Buildings Charlotte Auerbach Road Edinburgh EH9 3FL Scotland, United Kingdom tel. +44(0)1316507403 http://genomics.ed.ac.uk The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.

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