From jimp at compbio.dundee.ac.uk Thu Oct 8 11:04:23 2009 From: jimp at compbio.dundee.ac.uk (James Procter) Date: Thu, 08 Oct 2009 11:04:23 +0100 Subject: [Sbforum-general] Fw: Postdoctoral research post at the University of Bristol Message-ID: <4ACDB927.4010009@compbio.dundee.ac.uk> Hello All. Please find below information about a post-doctoral position in bioinformatics at Bristol. Begin forwarded message: Date: Wed, 07 Oct 2009 18:06:48 +0100 From: To: jprocter at compbio.dundee.ac.uk -- Dear colleague, please could you let any suitable candidates know about this job opportunity. Many thanks, Julian Gough. -- http://www.cs.bris.ac.uk/~gough/job.html POST-DOCTORAL RESEARCH POSITION ?30,000-?40,000 PA The position is for 2 years to work in the Gough group at the University of Bristol, ranked 32nd in the world according to the QS Top Universities ranking. Although placed in the Computer Science department, the position will involve interacting mostly with the Gough group but also with collaborators at the MRC Laboratory for Molecular Biology in Cambridge, and around the world. The position will include working with data from the SUPERFAMILY database. The initial project is flexible, depending on the candidate, but it must contribute to development of the SUPERFAMILY database and exploit the resource to answer biological questions. We expect this to lead to publications in high profile journals. Many projects in the group relate to evolution, e.g. [Chothia, C. and Gough, J. (2009) Genomic and Structural Aspects of Protein Evolution. Biochem. J. 419(1), 15-28.]. Two areas of potential development also include: inclusion of functional information, and automation of the pipeline integrating with SCOP and ASTRAL. The functional work includes automatically adding Gene Ontology but also targetting specific biological processes such as calcium signalling and transcription factors for deeper investigation from a functional and an evolutionary perspective. A candidate may also bring their own research interests to the group. All applicants must possess a PhD, preferrably in: bioinformatics, systems biology, molecular biology or some related subject. Computer skills are essential, in particular bioinformatics and data analysis/manipulation/management skills, e.g. PERL, SQL and Linux. Previous experience of protein sequence analysis is a plus, but not essential. What is important is an interest in molecular biology and some previous experience working with biological data. We kindly ask that applicants explain in their cover letter what interests them about this position, and how their skills and expertise can contribute. We invite applicants both from computational or biological backgrounds, but both must possess computer skills and an interest and basic understanding of molecular biology. We expect all applicants to have a good publication record; this will be one of the most important criteria for selecting candidates for interview. Please apply via E-mail to Julian Gough (gough at cs.bris.ac.uk) including a C.V. with publication list and cover letter. Formal details of the position are available on request. ~~~~~~~~~~~~~~~~ Dr. Julian Gough Reader, University of Bristol Department of Computer Science Merchant Venturers Building Woodland Road, Bristol, UK BS8 1UB Tel: +44 (0)117 3315221 Web: http://www.cs.bris.ac.uk/~gough -- ------------------------------------------------------------------- J. B. Procter (ENFIN/VAMSAS) Barton Bioinformatics Research Group Phone/Fax:+44(0)1382 388734/345764 http://www.compbio.dundee.ac.uk The University of Dundee is a Scottish Registered Charity, No. SC015096. From colins at hgu.mrc.ac.uk Thu Oct 8 11:08:07 2009 From: colins at hgu.mrc.ac.uk (Colin Semple) Date: Thu, 08 Oct 2009 11:08:07 +0100 Subject: [Sbforum-general] Bioinformatician job in Edinburgh Message-ID: <4ACDBA07.7050704@hgu.mrc.ac.uk> Bioinformatician MRC Human Genetics Unit, Edinburgh The MRC Human Genetics Unit is seeking to recruit a new member of staff to specialise in the analysis of high-throughput sequencing data. This post is associated with the development of the new MRC Regional Sequencing Hub to be established at the University of Edinburgh, and will deliver a high-level analysis service to the Institute of Genetics and Molecular Medicine (IGMM) research community. It offers an excellent opportunity to work with a variety of distinguished scientists on a wide range of cutting edge problems. Further information on the research interests of IGMM groups is available on the IGMM web site (http://www.igmm.ac.uk/). The full advert is at http://www.nature.com/naturejobs/science/jobs/114851 Candidates should hold a PhD in Biology, Bioinformatics, Statistics, Computer Science or a closely related discipline and have extensive experience in computational biology, genetics, molecular biology or a related field. Informal enquiries can be made to Personnel at hgu.mrc.ac.uk or to Colin.Semple at hgu.mrc.ac.uk . Closing Date: 2 November 2009 -- Dr Colin A. M. Semple Head of Bioinformatics MRC Human Genetics Unit Institute of Genetics and Molecular Medicine Edinburgh EH4 2XU, UK Tel: +44 (0)131 332 2471 x4034 Fax: +44 (0)131 467 8456 Email: Colin.Semple at hgu.mrc.ac.uk Web: http://www.hgu.mrc.ac.uk/Users/Colin.Semple/ From sandra.borthwick at sbforum.org Thu Oct 8 11:17:04 2009 From: sandra.borthwick at sbforum.org (Sandra Borthwick) Date: Thu, 8 Oct 2009 11:17:04 +0100 Subject: [Sbforum-general] Job Message-ID: <84680AC5C09844159C237CED8CE03CB6@society.local> JOB VACANCY Bioinformatician MRC Human Genetics Unit, Edinburgh The MRC Human Genetics Unit is seeking to recruit a new member of staff to specialise in the analysis of high-throughput sequencing data. This post is associated with the development of the new MRC Regional Sequencing Hub to be established at the University of Edinburgh, and will deliver a high-level analysis service to the Institute of Genetics and Molecular Medicine (IGMM) research community. It offers an excellent opportunity to work with a variety of distinguished scientists on a wide range of cutting edge problems. Further information on the research interests of IGMM groups is available on the IGMM web site (http://www.igmm.ac.uk/). The full advert is at http://www.nature.com/naturejobs/science/jobs/114851 Candidates should hold a PhD in Biology, Bioinformatics, Statistics, Computer Science or a closely related discipline and have extensive experience in computational biology, genetics, molecular biology or a related field. Informal enquiries can be made to Personnel at hgu.mrc.ac.uk or to Colin.Semple at hgu.mrc.ac.uk . Closing Date: 2 November 2009 -- Dr Colin A. M. Semple Head of Bioinformatics MRC Human Genetics Unit Institute of Genetics and Molecular Medicine Edinburgh EH4 2XU, UK Tel: +44 (0)131 332 2471 x4034 Fax: +44 (0)131 467 8456 Email: Colin.Semple at hgu.mrc.ac.uk Web: http://www.hgu.mrc.ac.uk/Users/Colin.Semple/ From sandra.borthwick at sbforum.org Thu Oct 8 15:46:27 2009 From: sandra.borthwick at sbforum.org (Sandra Borthwick) Date: Thu, 8 Oct 2009 15:46:27 +0100 Subject: [Sbforum-general] Advanced notice of SBF event - "Computing with cells: Membrane Computing" Message-ID: ** Advanced notice of seminar in December ** ******************************************** "COMPUTING WITH CELLS: Membrane Computing" - Seminar and Discussion on Membrane Computing Date: 2nd December 2009, Time: 2:00 pm Location: Royal Society of Edinburgh, 22-26 George Street, EH2 2PQ Pierluigi Frisco will give a seminar and question and answer session on membrane computing ********************************************* Program: 14:00-15:00 Seminar 15:00-15:30 coffee and networking 15:30-16:30 Q & A session Membrane Computing originates from the observation that eukaryotic cells have an internal organisation defined by membranes. In the framework provided by Membrane Computing several biological processes and phenomena occurring in eukaryotic cells have been studied from a computational point of view or have been used to develop algorithms for solving computationally hard problems. Some of the question that this fascinating field of research tries to answer are: . How could we use living cells to perform computation? . Would our definition of computation change as a consequence of this? . Could such a cell-computer outperform digital computers? In this talk Pier will give an overview on Membrane Computing and an answer to the questions above. For further information and registration details please see http://www.sbforum.org/events.php * * * * * * * * * * * * * * * We look forward to seeing you on Wednesday 2nd December. Sandra Borthwick, Executive Assistant Scottish Bioinformatics Forum The Royal Society of Edinburgh 22-26 George Street Edinburgh EH2 2PQ Tel: +44 (0)131 240 2783 Fax: +44 (0)131 240 2786 email: sandra.borthwick at sbforum.org www.sbforum.org 10th International Conference on Systems Biology Edinburgh, UK. 10th-15th October 2010 http://www.icsb-2010.net/ The SBF is a project of the RSE Scotland Foundation is Scottish Charity No. SC024636 The information contained in this e-mail is confidential, intended for the above named individual/s and may be legally privileged. This message may contain personal views which are not the views of the Foundation/Forum, unless specifically stated www.rsescotlandfoundation.org.uk www.sbforum.org From h.gonzalez-velez at rgu.ac.uk Tue Oct 13 17:30:05 2009 From: h.gonzalez-velez at rgu.ac.uk (h.gonzalez-velez at rgu.ac.uk) Date: Tue, 13 Oct 2009 17:30:05 +0100 Subject: [Sbforum-general] Interdisciplinary Approaches to Calcium and Secretory Dynamics in Cells (Santander Nov 4-5, 2009) Message-ID: <9BFE143F8563B94EA157E35790DB072E0B0D0ACF@exbe1.rgu.ac.uk> Symposium on Interdisciplinary Approaches to Calcium and Secretory Dynamics in Cells: Mathematical Models and Experiments November 4-5, 2009 Santander, Spain http://www.camath.unican.es/ The principal aim of the symposium is to promote the exchange of ideas among researchers, experimentalists and theoreticians, interested in the field of calcium and secretory dynamics in cells. Our goal is to cover secretory cell prototypes with very different time scales: from panchreatic cells (alpha, beta), as example of slow secretory cells, to presynaptic terminals. Our idea is, on one hand, to show similarities and differences regarding the basic mechanisms responsibles of triggering secretion in these cells; on the other hand, we plan to analyse the framework of the mathematical models describing these cellular processes. --------------- Dr. Horacio Gonz?lez-V?lez, FRSA Lecturer, School of Computing, The Robert Gordon University - Aberdeen mailto:h.gonzalez-velez at rgu.ac.uk??? vCard: http://member.acm.org/~horacio --------------- -------------- next part -------------- A non-text attachment was scrubbed... Name: poster Simposio Nov2009.pdf Type: application/octet-stream Size: 818777 bytes Desc: poster Simposio Nov2009.pdf URL: From mark.blaxter at ed.ac.uk Tue Oct 20 18:30:49 2009 From: mark.blaxter at ed.ac.uk (Mark Blaxter) Date: Tue, 20 Oct 2009 18:30:49 +0100 Subject: [Sbforum-general] late messages Message-ID: <98AB8E3D-020C-444A-B00E-E3D52FD527D8@ed.ac.uk> Hi folks I received 3 messages with 'sent' dates of 21/24 September today. Is there a problem with the sbforum maillist? Mark -- The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. From richard at flymine.org Fri Oct 23 14:31:29 2009 From: richard at flymine.org (Richard Smith) Date: Fri, 23 Oct 2009 14:31:29 +0100 Subject: [Sbforum-general] InterMine Workshop - Cambridge, UK Message-ID: <4AE1B031.1000200@flymine.org> Dear all, We still have some places available on an InterMine workshop we are running in Cambridge, UK on November 16th-17th. InterMine is a free, open source system for integrating biological data and querying it via a powerful webapp and query API. http://www.intermine.org InterMine is used to build FlyMine (http://www.flymine.org) and is now being deployed at the yeast, rat and zebrafish model organism databases. The course is intended for software developers and will give a complete introduction to setting up an InterMine system. It is free to attend, more details and sign up information are available here: http://www.biomed.cam.ac.uk/gradschool/skills/intermine.html Please get in touch if you have any questions. Regards, Richard. From fclark1 at inf.ed.ac.uk Thu Oct 29 16:06:10 2009 From: fclark1 at inf.ed.ac.uk (Fiona Clark) Date: Thu, 29 Oct 2009 16:06:10 -0000 Subject: [Sbforum-general] ICSB 2010, Edinburgh, UK. 10th-15th October 2010 - Call for Tutorials Message-ID: <200910291606.n9TG6BKG009501@lmtp1.ucs.ed.ac.uk> Call For Tutorials 10th International Conference on Systems Biology Edinburgh, UK. 10th-15th October 2010 The ICSB tutorials series is meant to prepare attendees for a better understanding of certain aspects of the main conference, by giving them an introduction to the tools and methods of general interest for systems biology and by providing hands-on experience where appropriate. We would now like to invite prospective tutorial organisers to submit proposals for ICSB2010 tutorials to the organising commitee. Proposals should include the purpose and background of the subject area, the name of organizer and speakers, a description of their organisation, an estimate of the numbers of participants and mention whether demonstration facilities other than a standard AV system will be used. If tutorial material already exists even in draft stage, it would be helpful for the programme committee to make a more informed decision, if it were included with the proposal. Tutorials will last up to 4hrs. Enquiries can be made directly to Prof. Vincent Danos (vdanos at inf.ed.ac.uk) and Dr. Hong Yue (hong.yue at eee.strath.ac.uk). Examples of tutorials given at recent ICSB meetings can be found at http://www.icsb-2007.org/tutorials/index.html http://www.icsb-2008.org/main.php?display=tutorials http://icsb-2009.org/schedule.php#tutorial1 Deadline for tutorial proposals: Jan 15 2010 Tutorial venue and date: Edinburgh International Conference Centre, Oct 10 2010 Submission can be made directly to Prof Danos and Dr Yue or via the conference website. Registration and Fees : There is no charge to present an academic/non-profit tutorial. Registration for tutorials will be handled by ICSB and participants will be charged to cover the local expenses. Tutorial presenters and attendees are expected to register for the main conference. Appropriate badging for all tutorial attendees will be provided. Commercial tutorials may be presented at a cost of GBP500. Commercial tutorials are tutorials that primarily focus on using specific commercial products or systems, or at which commercial products are advertised, promoted, or sold, or which are primarily taught by the distributors or producers of those products. The program committee will make the final determination of whether or not a tutorial is commercial. For more information about ICSB2010, please see http://www.icsb-2010.net/ Sent on behalf of: Chair of the Scientific Program Committee and Congress Chairman, Prof. Igor Goryanin Vice Chair of the Scientific Program Committee, Dr. Andrew B. Goryachev 10th International Conference on Systems Biology Edinburgh, UK. 10th-15th October 2010 http://www.icsb-2010.net/ Fiona Clark Senior Clerical Assistant Room 1.37 School of Informatics Informatics Forum University of Edinburgh 10 Crichton Street Tel: 0131 651 3291 -- The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.