From coordinator at rth.dk Thu Sep 6 10:22:55 2018 From: coordinator at rth.dk (Betina Wingreen Jensen) Date: Thu, 6 Sep 2018 10:22:55 +0200 Subject: [SocBiN] Postdoc position in Bioinformatic and transcriptomic analysis and detection of non-coding RNA in bacteria Message-ID: <000f01d445ba$d03f25e0$70bd71a0$@rth.dk> Dear All, We have a postdoc position available from 1st October, 2018 or as soon as possible thereafter. The postdoc will be working at the Department of Veterinary and Animal Sciences on the research project NextProd (nextprod.dk) funded by Innovation Foundation Denmark. Please help us spread the word by forwarding this email to possible candidates in your network. Thank you in advance Postdoc position in Bioinformatic and transcriptomic analysis and detection of non-coding RNA in bacteria Full ad: https://candidate.hr-manager.net/ApplicationInit.aspx?cid=1307 &ProjectId=147905&DepartmentId=19008&MediaId=5 Application deadline: Sep 17, 2018. Best wishes, Betina Betina Wingreen Jensen Project Manager University of Copenhagen Faculty of Health and Medical Sciences Grønnegårdsvej 3 DIR +45 35334704 MOB +45 21510932 bwj at sund.ku.dk -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: image001.gif Type: image/gif Size: 5975 bytes Desc: not available URL: From guillaume.filion at gmail.com Mon Sep 10 18:49:10 2018 From: guillaume.filion at gmail.com (Guillaume Filion) Date: Mon, 10 Sep 2018 18:49:10 +0200 Subject: [SocBiN] Workshop Statistical Methods for Post Genomic Data Message-ID: Dear all, We have the pleasure to announce the 2019 edition of the Statistical Methods for Post Genomic Data (SMPGD) workshop, that will take place at the Center for Genomic Regulation (CRG) in Barcelona on 31 January and 1 February 2019. The workshop aims to present works from mathematics and applied statistics, but also new areas in high throughput biology that could need new statistical developments. https://smpgd2019.sciencesconf.org/ The 2019 edition is organized by Guillaume Filion, and the main topics are: Genome conformation, Analysis of biological images, and Causal inference. The workshop will feature 4 keynote speakers** * Marc Marti-Renom, CRG-CNAG, Barcelona * Aleksandra Walczak, Ecole Normale Supérieure, Paris > * Marloes Maathuis, ETH, Zurich < https://www.math.ethz.ch/research/seminar-for-statistics/marloes-maathuis.html > * Katharina Proksch, Ruhr University, Bochum The conference is *free*, but participants need to register. Registrations will close on *January 14, 2019 at 23:59 pm*. Submissions for posters and short talks are open and will close on *November 30, 2018 at 23:59 pm*. The abstract selected for a short talk will be announced on *December 15, 2018*. We hope to see you in Barcelona! Alice Cleynen, Guillaume Filion, Franck Picard, Stéphane Robin. G. -- Guillaume Filion Centre de Regulació Genòmica (CRG) C/ Dr. Aiguader 88 E-08003 Barcelona Spain tel: +34 93316 0142 blog: http://blog.thegrandlocus.com -------------- next part -------------- An HTML attachment was scrubbed... URL: From coordinator at rth.dk Tue Sep 11 11:30:22 2018 From: coordinator at rth.dk (Betina Wingreen Jensen) Date: Tue, 11 Sep 2018 11:30:22 +0200 Subject: [SocBiN] 3rd Announcement of 4th Annual Meeting on RNA, Oct 9, 2018 (abstract deadline: Sep 15) Message-ID: <005101d449b2$108b2db0$31a18910$@rth.dk> Dear All, This is the 3rd announcement for the ”4th Annual Meeting on RNA: from basic research to industrial applications” hosted by the Danish RNA Society on Oct 9, 2018 at The Ceremonial Hall (Festsalen), University of Copenhagen, Frue Plads 4, Copenhagen K. Registration (250/500 dkk) is now open both for meeting and membership sign up via https://rnasociety.dk/home/events/4th-annual-rna-meeting Abstract deadline: September 15, 2018 Registration deadline: September 21, 2018 Confirmed speakers are: Keynote: Andrés Aguilera, University of Seville Keynote: Rickard Sandberg, Karolinska Institutet EMBO Young Investigator lecture: Ana Cjevik, University of Cambridge Astrid Mach-Aigner, TU Vienna Christian Kroun Damgaard, Aarhus University Henrik Nielsen, University of Copenhagen Morten Lindow, Roche Sine Lo Svenningsen, University of Copenhagen Speakers selected from poster abstracts On behalf of the Danish RNA Society Betina Betina Wingreen Jensen Project Manager University of Copenhagen Faculty of Health and Medical Sciences Grønnegårdsvej 3 DIR +45 35334704 MOB +45 21510932 bwj at sund.ku.dk Betina Wingreen Jensen Scientific and administrative Coordinator Københavns Universitet Det Sundhedsvidenskabelige Fakultet Grønnegårdsvej 3 DIR 35334704 MOB 20510932 bwj at sund.ku.dk -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: image001.gif Type: image/gif Size: 5975 bytes Desc: not available URL: From paolo.romano at hsanmartino.it Tue Sep 11 15:04:51 2018 From: paolo.romano at hsanmartino.it (Romano Paolo) Date: Tue, 11 Sep 2018 13:04:51 +0000 Subject: [SocBiN] NETTAB 2018: Call for posters and software demoes - deadline is approaching Message-ID: Dear all, this is reminder that the deadline for the submission of abstracts for posters for next NETTAB 2018 workshop is set to next Sunday September 16, 2018. See the Instructions for authors here below. Devoted to the FAIR approach, tools and applications in bioinformatics, it is for sure one of the best programmes set up for a NETTAB workshop. I invite everybody to have a careful look at the programme at http://www.igst.it/nettab/2018/programme/scientific-programme/ . Here is a quick summary of the programme. KEYNOTE TALKS * Are we FAIR yet? And will it be worth it? Michel Dumontier, University of Maastricht, The Netherlands * FAIR data, tools and workflows: a user perspective Frederik Coppens, VIB, University of Gent, Belgium, & ELIXIR Belgium * ELIXIR Core Data Resources: FAIR, community and impact Christine Durinx, Swiss Institute of Bioinformatics, Switzerland * Challenges in adopting FAIR principles in Training Patricia Palagi, Swiss Institute of Bioinformatics, Switzerland GUEST TALKS * Paradigm shifts in health informatics needed for leveraging FAIR data environments Amnon Shabo, The International Academy of Health Sciences Informatics * A FAIR approach to Research Data Stewardship and Data Stewardship Planning - Guest Lecture Rob Hooft, Dutch Techcentre for Life Sciences - DTLS, The Netherlands * BioExcel & ELIXIR: towards interoperable and reproducible biomolecular research workflows Adam Hospital, IRB Barcelona, Spain * FAIR data and EOSC: Strategy for finding and accessing datasets at EOSC Rafael Jimenez, ELIXIR Europe, United Kingdom * Standards and SOP implementation in the life-sciences research: a snapshot from the CA CHARME Domenica D'Elia, CNR/ITB, Bari, Italy * From rare to FAIR data in the rare disease community Marco Roos, Leiden University Medical Centre - LUMC, The Netherlands TUTORIALS * Bioschemas, a lightway approach to enable FAIRer data resources Leyla Jael Garcia Castro, Ricardo Arcila, Rafael Jimenez, Victoria Dominguez del Angel Organized in collaboration with ELIXIR. * The ELIXIR Data Stewardship Wizard - how to guide life science researchers towards FAIR data management Rob Hooft, Vojtěch Knaisl, Jan Slifka Organized by ELIXIR-NL and ELIXIR-CZ. SATELLITE EVENT * Adopting Open Source Software FAIR Practices Allegra Via and Mateusz Kuzak Organized by ELIXIR-IIB I hope that many of you will take this occasion to present their work and I'm looking forward to meeting you in Genoa soon. All the best. Paolo Romano === NETTAB 2018 Building a FAIR Bioinformatics environment Genova, October 22-24, 2018 Instructions for authors Abstracts for posters and software demonstrations must be submitted as PDF files through EasyChair at https://easychair.org/conferences/?conf=nettab2018 . Accepted abstracts must then be revised and resubmitted for inclusion in the Proceedings. No Copyright form or permission is required for abstracts, since proceedings won't be officially published. Authors of all works presented at the workshop will be invited to a Call for papers for a Special Issue in an International Journal with IF. Instructions for the preparation of the abstract: * page size: A4; all margins: 2cm; paragraphs justified; single line spacing * font: Arial (or Helvetica); sizes: title 14pts; authors' names 11pts; affiliations 10pts; section headings 12pts; body text 11pts; bibliography 10pts * length: max 2 pages for posters and software demos * sections: Introduction, Methods, Results, Conclusions (omit for posters and software demos), References * tables and figures: include one per type, only when needed Templates Templates for MS Word and LaTeX (renamed as txt for security reasons) are available at http://www.igst.it/nettab/2018/submissions/instructions-for-authors/ . Deadline are due within Sunday September 16, 2018. A short delay may be acceptable, please get in touch wit the organizers at nettab.workshops at gmail.com . Instructions for the preparation of posters The maximum poster size is A1 in portrait format, i.e. 84,1 cm (height) x 59,4 cm (width). Note that posters will be displayed on a limited number of panels: it is essential that all posters are printed in the appropriate format. Presenters are invited to attend their poster when possible and to leave their contact information near to the poster. Paolo Romano Ospedale Policlinico San Martino Genova, Italy Skype: p.romano Email: paolo.romano at hsanmartino.it - paolo.dm.romano at gmail.com -------------- next part -------------- An HTML attachment was scrubbed... URL: From benjamin.ulfenborg at his.se Tue Sep 11 15:20:39 2018 From: benjamin.ulfenborg at his.se (Benjamin Ulfenborg) Date: Tue, 11 Sep 2018 13:20:39 +0000 Subject: [SocBiN] Postdoctoral researcher in bioinformatics Message-ID: Dear All, We are currently looking for a postdoctoral researcher in bioinformatics. The position is offered at the University of Skövde, where the postdoc will be working with stem cell in vitro systems for organogenesis, disease modelling, drug development and toxicity testing. The complete job advertisement can be found below: Postdoctoral researcher in bioinformatics https://www.his.se/en/about-us/Job-opportunities/Job-opportunities People with only experience in bioinformatics are highly interesting and experience in cell biology is not required. Note the close application deadline of Sep 17, 2018. Please forward this message to anyone you think may be interested. Thank you in advance. Best regards, Benjamin Ulfenborg, PhD Associate senior lecturer in bioinformatics School of Bioscience University of Skövde Box 408, 541 28 Skövde, Sweden Email: benjamin.ulfenborg at his.se Phone: 0500-448683 -------------- next part -------------- An HTML attachment was scrubbed... URL: From ingemar.andre at biochemistry.lu.se Mon Sep 10 19:27:40 2018 From: ingemar.andre at biochemistry.lu.se (=?utf-8?B?SW5nZW1hciBBbmRyw6k=?=) Date: Mon, 10 Sep 2018 17:27:40 +0000 Subject: [SocBiN] Postdoc position in the modeling of protein self-assembly processes using Bayesian inference Message-ID: <56859C1F-AF19-41B1-9D27-65E24DFE8C98@biochemistry.lu.se> Dear all, We are happy to announce a postdoc position in a project where we apply Bayesian inference methods to analyze protein self-assembly processes. This primarily involves analysis of data from small angle scattering experiments. The postdoc will be stationed at Lund University, Sweden. The position is available from November 2018 and the deadline for application is 1st of October. For more information about the position and how to apply visit https://lu.mynetworkglobal.com/en/what:job/jobID:225359/ Sincerely, Ingemar Ingemar André Biochemistry & Structural Biology Lund University PO Box 124 221 00 Lund tel: +46 46 222 4470 email: ingemar.andre at biochemistry.lu.se -------------- next part -------------- An HTML attachment was scrubbed... URL: From erik.larsson at gu.se Tue Sep 18 14:20:30 2018 From: erik.larsson at gu.se (Erik Larsson Lekholm) Date: Tue, 18 Sep 2018 12:20:30 +0000 Subject: [SocBiN] Postdoc in computational cancer genomics in Gothenburg Message-ID: Hi everyone, There is an opening for a postdoc in my group in Göteborg, Sweden, to work on exciting problems in computational cancer genomics. Our interests include, but are not limited to, mutational processes and mutational heterogeneity, and selection acting on somatic mutations in cancer. Please spread the word to qualified and talented applicants anywhere! https://www.gu.se/english/about_the_university/job-opportunities/vacancies-details/?id=3103 Best wishes, Erik Larsson Lekholm -------------- next part -------------- An HTML attachment was scrubbed... URL: From anders.andersson at scilifelab.se Tue Sep 18 15:16:17 2018 From: anders.andersson at scilifelab.se (Anders Andersson) Date: Tue, 18 Sep 2018 15:16:17 +0200 Subject: [SocBiN] Fwd: postdoc position available at SciLifeLab Stockholm In-Reply-To: <9457E1A5-0DCA-426C-A602-5445EFE26392@scilifelab.se> References: <9457E1A5-0DCA-426C-A602-5445EFE26392@scilifelab.se> Message-ID: Afshin Ahmadian at KTH/Scilifelab is recruiting potdocs, please see below Dear all, A postdoctoral position in bioinformatics is available in my lab at SciLifeLab Stockholm (salaried position 1+1 year). The work focuses on bioinformatics method development for MPS data with particular focus on de novo genome assembly. You may find the full announcement at KTH-vacancies ( https://www.kth.se/en/om/work-at-kth/lediga-jobb/what:job/jobID:223415/where:4/ ). Please feel free to forward the announcement to possible candidates. Yours Afshin Ahmadian /Anders Andersson Afshin Ahmadian, Professor KTH Royal Institute of Technology School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH) Department of Gene Technology SciLifeLab Postal address: Box 1031 171 21 Solna Visiting address: Tomtebodavägen 23A 171 65 Solna Sweden -- Associate Professor SciLifeLab School of Biotechnology KTH Royal Institute of Technology Stockholm, Sweden Webpage: http://envgen.github.io/ Email: anders.andersson at scilifelab.se Phone: +46-8-5248-1414; +46-73-9838962 -------------- next part -------------- An HTML attachment was scrubbed... URL: From anna-karin.wihlborg at med.lu.se Wed Sep 19 12:04:28 2018 From: anna-karin.wihlborg at med.lu.se (Anna-Karin Wihlborg) Date: Wed, 19 Sep 2018 10:04:28 +0000 Subject: [SocBiN] Announcement of Post doc scholarship in Computational Genomics, Bioinformatics Message-ID: <0eade5bbb0b74a35ab3a0ca21e0cf1b9@med.lu.se> Lund University Announcement of Post doc scholarship in Computational Genomics, Bioinformatics Placement: Department of Hematology and Transfusion medicine Ref No: V 2018/1613 Duration: 24 months Starting time: 2019-01-01 or according to agreement Last day for applying: 2018-10-31 Full announcement at: https://www.med.lu.se/content/download/138434/888506/file/ILM%20Announcement%20of%20Post%20Doc%20Scholarship%20in%20Computational%20Genomics,%20Bioinformatics.pdf (https://www.med.lu.se/intramed/stipendier_anslag_fraan_fakulteten) For further information regarding the position, please contact Björn Nilsson at bjorn.nilsson at med.lu.se. -------------- next part -------------- An HTML attachment was scrubbed... URL: From arne at bioinfo.se Fri Sep 21 16:21:37 2018 From: arne at bioinfo.se (Arne Elofsson) Date: Fri, 21 Sep 2018 16:21:37 +0200 Subject: [SocBiN] EMBL opening Message-ID: Group Leader - Computational Biology Location: EMBL-EBI, Hinxton near Cambridge, UK Staff Category: Staff Member Contract Duration: 5 Years Grading: 9 Closing Date: 12 October 2018 Reference Number: EBI01295 We are looking for enthusiastic, motivated computational biologists to lead independent research groups at EMBL-EBI and can offer successful applicants a unique opportunity to pursue their own research direction in computational biology. https://www.embl.de/jobs/searchjobs/index.php?ref=EBI01295 Yours Arne ----------------------------------------- Arne Elofsson Science for Life Laboratory Tel:+46-(0)70 695 1045 Stockholm University http://bioinfo.se/ Box 1031, Email: arne at bioinfo.se 17121 Solna, Sweden Twitter: https://twitter.com/arneelof Scholar: http://scholar.google.se/citations?user=s3OCM3AAAAAJ ORCID: 0000-0002-7115-9751 -------------- next part -------------- An HTML attachment was scrubbed... URL: From erik.sonnhammer at scilifelab.se Mon Sep 24 08:38:30 2018 From: erik.sonnhammer at scilifelab.se (Erik Sonnhammer) Date: Mon, 24 Sep 2018 08:38:30 +0200 Subject: [SocBiN] Fwd: Looking for excellent postdocs In-Reply-To: References: Message-ID: <93735392-5968-0092-e391-35c9f523da58@scilifelab.se> -------- Forwarded Message -------- Subject: Looking for excellent postdocs Date: Thu, 20 Sep 2018 05:08:15 +0000 From: Quackenbush, John Friends, I have had a very interesting year, moving from Dana-Farber to the Harvard TH Chan School of Public Health where I took over as the chair of the Biostatistics Department. As I was making this change, I was fortunate enough to have a group of outstanding postdocs move on to faculty positions or to excellent positions in industry. And at the same time, I received a number of substantial research grants, including an NCI R35 Career Award. I am currently looking for between four and six postdoctoral fellows. I've found one excellent candidate with a machine learning background, but I am looking for others with complementary strengths. I've attached an ad for the positions. If you have outstanding students or postdocs who might be interesting in working on network methods, data science, and image analysis and interested in having these applied to the study of complex disease, I would love to hear from them. There is an "official" application process in the ad, but I would be happy to receive applications directly as well. Thanks in advance for any help you can provide. John Quackenbush -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: JQ Posdoctoral Fellow.pdf Type: application/pdf Size: 67993 bytes Desc: not available URL: From henrik.lantz at nbis.se Mon Sep 24 14:52:20 2018 From: henrik.lantz at nbis.se (Henrik Lantz) Date: Mon, 24 Sep 2018 14:52:20 +0200 Subject: [SocBiN] Permanent position in sequence-based bioinformatics in Uppsala, Sweden Message-ID: <1655F1E1-BE6A-4D22-91B3-627DB1E587D9@nbis.se> Dear all, National Bioinformatics Infrastructure Sweden (NBIS) is looking for a new expert to join our organisation in Uppsala, Sweden. The position focuses on giving support to Swedish researchers in sequence-based bioinformatics (genomics more than transcriptomics). Work will most likely involve genome annotation, but could also include comparative genomics, meta-genomics, or other areas depending on the qualifications of the applicant. Personal suitability for the position is stressed, and with over 60 experts in the organisation there are a lot of opportunities for learning new subjects and gaining new skills. Deadline is Oct 22. Please see here for more information and how to register: http://uu.se/en/about-uu/join-us/details/?positionId=226605 You are very welcome to contact henrik.lantz at nbis.se if you have any questions. Best regards, Henrik ———————— Henrik Lantz Support manager, NBIS Uppsala, Sweden -------------- next part -------------- An HTML attachment was scrubbed... URL: From arne at bioinfo.se Mon Sep 24 19:20:39 2018 From: arne at bioinfo.se (Arne Elofsson) Date: Mon, 24 Sep 2018 19:20:39 +0200 Subject: [SocBiN] Fwd: [Csss-alumni] Santa Fe Institute Postdoc in Computational Social Science In-Reply-To: <2f756bee468a46108dfe7866291218ee@ebox-prod-srv13.win.su.se> References: <2f756bee468a46108dfe7866291218ee@ebox-prod-srv13.win.su.se> Message-ID: ---------- Forwarded message --------- From: Mirta Galesic Date: Mon, 24 Sep 2018, 18:29 Subject: [Csss-alumni] Santa Fe Institute Postdoc in Computational Social Science To: galesic at santafe.edu Dear Colleagues, We have a new opening at the Santa Fe Institute – could you please spread the word? Thank you, Mirta *Postdoc in Computational Social Science at the Santa Fe Institute* SFI seeks a program postdoc to play a key role in a project using natural language processing, online group experiments, and computational modeling to study social dynamics in online discussions and problem-solving groups. The project is positioned at the intersection of literatures on exploration-exploitation tradeoffs, collective problem solving, social learning, and social judgments. The position will enable transdisciplinary training in theories and methods relevant for studies of complex social systems. Postdoctoral fellows are encouraged to participate in the postdoctoral fellows leadership program activities and to interact and collaborate with members of the larger SFI community. The position can start immediately and will last for 18 months. It includes full employee benefits including insurance, paid time off, family leave support, and modest relocation support. Qualifications: .demonstrated experience in working with social media data and in using natural language processing methods to analyze large textual corpora .strong quantitative and computational skills; facility in using Python; facility in either Matlab or R; web programming is a plus .strong interest in quantitative modeling of cognitive and social processes .good writing skills .a proven ability to work both independently and collaboratively .evidence of the ability to think outside traditional paradigms .a Ph.D. in any scientific discipline and exemplary academic record To Apply: Please send an email containing your CV and a two-page description of your relevant projects and interests to employ at santafe.edu with “SFI Postdoc, CSS” in the subject line. Please include names and contact information of three references. Applications will be considered until the position is filled. For additional information, you can email Prof. Mirta Galesic at galesic at santafe.edu. The Santa Fe Institute is an equal opportunity employer, and women, veterans, and minorities are especially encouraged to apply. U.S. citizenship is not a requirement, but you should be a U.S. permanent resident or eligible for J-1 visa sponsorship. *Please note that we also have open positions for the Santa Fe Institute's Complexity Postdoctoral Fellowships. More at https://www.santafe.edu/jobs * --- Mirta Galesic Professor and Cowan Chair in Human Social Dynamics, Santa Fe Institute Associate Researcher at the Harding Center for Risk Literacy, Max Planck Institute for Human Development https://www.santafe.edu/people/profile/mirta-galesic -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- _______________________________________________ Csss-alumni mailing list Csss-alumni at santafe.edu http://tuvalu.santafe.edu/mailman/listinfo/csss-alumni From arne at bioinfo.se Thu Sep 27 19:31:03 2018 From: arne at bioinfo.se (Arne Elofsson) Date: Thu, 27 Sep 2018 17:31:03 +0000 Subject: [SocBiN] =?utf-8?q?announcement_DEADLINE_approaching=3A_registrat?= =?utf-8?q?ion_for_The_Swedish_Bioinformatics_Workshop_SBW2018=2C_?= =?utf-8?q?=C3=96rebro=2C_25/26_October?= Message-ID: Dear Bioinformaticians! the Swedish Workshop in Bioinformatics SBW2018 registration deadline (early bird) is approaching -- please register in time to stay at the low cost registration fee! For early bird registered PhD students there is no registration fee and free dinner. *Everybody* is invited to present a poster. A programme with invited speakers, all with exciting timely and highly relevant contribution, is ready arranged for you. We have a really interesting Tutorial in the beginning on Genome-scale metabolomic modeling, hands-on! And in the end a panel discussion about different career ways in bioinformatics is awaiting you. Looking very much forward to having all of you joining this year's SBW here in Örebro! Yours sincerely Dirk Yours Arne ----------------------------------------- Arne Elofsson Science for Life Laboratory Tel:+46-(0)70 695 1045 Stockholm University http://bioinfo.se/ Box 1031, Email: arne at bioinfo.se 17121 Solna, Sweden Twitter: https://twitter.com/arneelof Scholar: http://scholar.google.se/citations?user=s3OCM3AAAAAJ ORCID: 0000-0002-7115-9751 -------------- next part -------------- An HTML attachment was scrubbed... URL: