From geirksa at ifi.uio.no Tue Apr 3 09:14:36 2018 From: geirksa at ifi.uio.no (Geir Kjetil Sandve) Date: Tue, 3 Apr 2018 07:14:36 +0000 Subject: [SocBiN] PhD Fellowship on machine learning of immune recognition Message-ID: Dear all, please spread the word if you know of any suited candidates for an open PhD Research Fellowship on machine learning of immune recognition: https://www.jobbnorge.no/en/available-jobs/job/149434/phd-research-fellowship-in-machine-learning The candidate will develop and employ a variety of machine learning techniques, including deep learning on biological sequence data, to characterize and predict pathogen recognition by the immune system. The position is located at the Department of Informatics, and the candidate will also receive supervision from the Department of Immunology. Application deadline is April 15th. best regards, .. Geir Kjetil Sandve From coordinator at rth.dk Wed Apr 4 10:15:49 2018 From: coordinator at rth.dk (Betina Wingreen Jensen) Date: Wed, 4 Apr 2018 10:15:49 +0200 Subject: [SocBiN] April 8 deadline for 2 Postdoc in Bioinformatics at UCPH Message-ID: <003401d3cbed$23dbc750$6b9355f0$@rth.dk> Dear All, April 8 is the new application deadline for the two postdocs positions we have available from April 15, 2018 or as soon as possible thereafter. The postdocs will be working at the Department of Veterinary and Animal Sciences on the research projects: NeuroStem (neurostem.dk) and 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 in RNA Bioinformatics and Systems Biology* (NextProd) Full ad: http://jobportal.ku.dk/videnskabelige-stillinger/?show=146544 Application deadline: April 8, 2018. *Postdoc in Bioinformatics and Neurotranscriptomics*(NeuroStem) Full ad: http://jobportal.ku.dk/videnskabelige-stillinger/?show=146536 Application deadline: April 8, 2018. Best wishes, Betina Betina Wingreen Jensen Scientific and administrative Coordinator Københavns Universitet Det Sundhedsvidenskabelige Fakultet Grønnegårdsvej 3 DIR 35334704 MOB 20510932 coordinator at rth.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 marc.friedlander at scilifelab.se Fri Apr 6 11:11:32 2018 From: marc.friedlander at scilifelab.se (=?UTF-8?Q?Marc_Friedl=c3=a4nder?=) Date: Fri, 6 Apr 2018 11:11:32 +0200 Subject: [SocBiN] Two PhD positions in computational biology at SciLifeLab in Stockholm Message-ID: <3e2a768b-d3ce-f56f-6cfa-95c47d78c13e@scilifelab.se> Dear all, I am recruiting two computational PhD students for studying miRNA functions in single cells. They are ERC-funded positions at SciLifeLab in Stockholm. www.nature.com/naturejobs/science/jobs/641211-phd-in-computational-rna-biology www.friedlanderlab.org Best regards, Marc Friedländer Marc Friedländer, SciLifeLab Fellow Head of Quantitative RNA Biology Group Department of Molecular Biosciences, the Wenner-Gren Institute Webpage: www.friedlanderlab.org Phone: 0046 737121558 Science for Life Laboratory Karolinska Institutet Science Park Tomtebodavägen 23A 171 65 Solna Sweden -------------- next part -------------- An HTML attachment was scrubbed... URL: From ehovig at ifi.uio.no Mon Apr 9 17:20:23 2018 From: ehovig at ifi.uio.no (Eivind Hovig) Date: Mon, 09 Apr 2018 17:20:23 +0200 Subject: [SocBiN] Two Elixir engineer positions vacant Message-ID: <4F6E6871-F5A6-4AD8-A873-EFD8D4C2600F@ifi.uio.no> https://www.jobbnorge.no/ledige-stillinger/stilling/150638/senior-engineer-two-positions#?p=0&reset=1 Two temporary position as senior engineer are vacant for three years, with a possibility of prolongation. The positions will be part of the Oslo bioinformatics Elixirteam. The Oslo bioinformatics Elixir team is part of the Biomedical Informatics (BMI) research group at the Department of Informatics (IFI) at the University of Oslo. The Elixir2 project is part of a European bioinformatics infrastructure program to ensure timely sustainable use of data and bioinformatics tools for life sciences. ElixirNorway is jointly funded by the Norwegian Research Council and the partner universities and organizations until Oct 2021. A main goal is for the Elixir Norway infrastructure to transform into a more permanent structure after that time. Project description The two positions will be part of the Elixir development team at the University of Oslo (UiO), participating in the development and implementation of functionality for various national and international solutions provided by Elixir Norway, including: Solutions for data management and analysis of sensitive data connected to the Nordic collaborative project Tryggve. Participation in development of a national database of DNA variation in Norwegian individuals Development and maintenance of workflows related to High Throughput Sequencing (HTS) or Systems Biology, both within and outside an international Python-based end-user framework called Galaxy. Taking part in the development team of Python-based statistical genomics tools (The Genomic HyperBrowser, which is based on Galaxy, as well as tools and file formats for managing genomic datasets (the GTrack ecosystem). Taking part of a national development team of main Elixir infrastructure aimed at Norwegian researchers: National e-Infrastructure for Life Science (NeLS) The exact project allocations will be made after an overall evaluation of the qualifications and motivation of all members of the Elixir development team at UiO, after the positions have been filled. We are looking for both system developers and engineers, preferably with a background in bioinformatics, although this is not a requirement, as well as strong bioinformaticians with a solid computational experience/background. Qualification requirements Relevant master degree or above in informatics or bioinformatics from college or university - relevant experience can weigh up for lack of formal education. Important Competence: Professional software development experience in Python. Solid competence in Java: Oracle Certified Professional/Associate, Java SE Programmer, or equivalent proven competence. Open source development, including git/GitHub-based version control Experienced user of Integrated Development Environments (IDE), e.g. PyCharm, IntelliJ, Eclipse Working experience with continuous integration: Jenkins, Travis CI, or similar. Experience in Test-Driven Development (TDD), Agile methodologies, Design Patterns, and System architecture Solid experience in Docker image building and container management Experience in High Performance Computing (HPC): Slurm, HTCondor, PBS, or similar. Experience in High Throughput Sequencing-related analysis Workflow development/design in High Throughput Sequencing/Systems Biology, etc., in e.g. CWL, Galaxy, or similar workflow engines Galaxy development and Galaxy community participation Solid experience in Linux Excellent communication skills in English, both oral and written. Preferred competence: Professional experience with Spring: Core, AOP, Boot. Statistics, Scientific programming, R, NumPy Experience in other container platforms, e.g. Singularity and uDocker, and package management with Conda/BioConda. Experience with code analysis tools: Checkstyle, or similar. Web front-end development Database management and architecture Algorithm development ______________________________ Eivind Hovig Dr.philos. Professor ehovig at ifi.uio.no Dept. of Tumor Biology, Inst. for Cancer Research, The Norwegian Radium Hospital & Dept. of Informatics, University of Oslo Phone: -47-22781778, Fax: -47-22781795 (http://radium.no/hovig) -------------- next part -------------- An HTML attachment was scrubbed... URL: From paolo.romano at hsanmartino.it Tue Apr 10 16:25:52 2018 From: paolo.romano at hsanmartino.it (Romano Paolo) Date: Tue, 10 Apr 2018 14:25:52 +0000 Subject: [SocBiN] NETTAB 2018: Call for Abstracts for oral communications Message-ID: NETTAB 2018 Building a FAIR Bioinformatics environment October 22-24, 2018, Genoa, Italy http://www.nettab.org/2018/ CALL FOR ABSTRACTS FOR ORAL COMMUNICATIONS NETTAB 2018 is organised in collaboration with ELIXIR Nodes of the UK and Italy as well as the Italian Society of Bioinformatics, BITS. The main focus will be on FAIR principles in bioinformatics, a challenging topic that we hope will attract many researchers from all over the world, including but not limited to, Bioinformaticians, Biologists, Computer Scientists, and others working or interested in the above research scope. The FAIR Guiding Principles for scientific data management and stewardship, published in 2016, has sparked worldwide interest across the biology community: from grassroots to policymakers, and from data providers to publishers. In order to make the FAIR concept a reality, we need to answer many questions, like: What is FAIRness? How to make FAIR data a reality? How to facilitate the translation to FAIR data? How to measure it? On these topics, there are many ongoing projects, such as EOSCpilot, FAIRmetrics, FAIRsharing, and GO-FAIR. Now is the perfect time to discuss on these topics and related actions, and to move on from FAIR principles to FAIR practice. The workshop will provide an excellent environment and a range of opportunities to present and discuss methods, theoretical approaches, algorithms, tools, platforms, practical applications and experiences of FAIR in Bioinformatics. TOPICS Methods, theoretical approaches, algorithms, tools, platforms, practical applications and experiences of FAIR in Bioinformatics including, but not limited to: FAIR concept * Specification and revision of components, conceptual issues. * Criticisms and review of FAIR principles Development tools * FAIR Web Services, metadata for FAIR tools, revision of standard formats. FAIRification methodologies * FAIRification best practices and training * Experiences of FAIR methods * Best practices and lessons learned from domains outside bioinformatics. * FAIRness evaluation * FAIRness validation and correction tools. * FAIR metrics: Levels of FAIRness, FAIRness scores, FAIRness minimal levels. * FAIR environment * Integration and interoperation of FAIR data and systems. * FAIR and its demonstrated contribution to open science and reproducible results * FAIR principles and practices of research outputs other than data: workflows, scripts, tools, models, training materials, SOPs etc * Surveys of FAIR resources and methods * FAIR value * Examples of FAIR in practice and the benefits of FAIR resources * Related initiatives to FAIR: for example Data Commons and EOSC * The economics of FAIR * Incentives for FAIR stewardship throughout the data lifecycle The topics of NETTAB 2018 also include the usual topics of NETTAB workshops. INSTRUCTIONS AND DEADLINES Submission of abstracts for oral communications: Sunday May 20, 2018 Notification: Monday June 18, 2018 Abstracts of maximum four A4 pages must be submitted through EasyChair at: https://easychair.org/conferences/?conf=nettab2018 . See full instructions at: http://www.igst.it/nettab/2018/submissions/instructions-for-authors/ . KEYNOTE SPEAKERS Michel DUMONTIER, MaastrichtUniversity, The Netherlands Frederik COPPENS, Gent University , Belgium Patricia PALAGI, SIB, Switzerland Christine DURINX, ELIXIR, Switzerland GUEST SPEAKERS Rob HOOFT, DTLS, The Netherlands Rafael JIMENEZ, ELIXIR, UK Marco ROOS, LUMC, The Netherlands Amnon SHABO, Siemens, Germany Tutorial/Hackathon programme under definition. WORKSHOPS ORGANIZORS Carole Goble, University of Manchester Paolo Romano, Ospedale Policlinico San Martino, Genoa Mauro Giacomini, University of Genoa SCIENTIFIC COMMITTEE The Scientific Committee is being defined. Many invitations are still pending. * Oya Deniz BEYAN, Fraunhofer FIT, Germany * Michael CRUSOE, Common Workflow Language, Lithuania * Michel DUMONTIER, Maastricht University, The Netherlands * Leyla Jael GARCIA CASTRO, EMBL-EBI, United Kingdom * Mauro GIACOMINI, University of Genoa, Italy * Carole GOBLE, University of Manchester, United Kingdom * Paul GROTH, Elsevier Labs * Paolo MANGHI, CNR/ISTI & OpenAIRE, Italy * Patricia PALAGI, Swiss Institute of Bioinformatics, Switzerland * Helen PARKINSON, EMBL-EBI, United Kingdom * Paolo ROMANO, Ospedale Policlinico San Martino, Italy * Mark WILKINSON, UPM, Spain * Katherine WOLSTENCROFT, Leiden University, The Netherlands Paolo Romano on behalf of Workshop Organizors 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 Carsten.Daub at ki.se Thu Apr 12 09:58:51 2018 From: Carsten.Daub at ki.se (Carsten Daub) Date: Thu, 12 Apr 2018 07:58:51 +0000 Subject: [SocBiN] Fwd: Vacancies at NGI Stockholm: Project coordinators References: Message-ID: Begin forwarded message: From: Ellen Sherwood > Subject: Vacancies at NGI Stockholm: Project coordinators Date: 12 April 2018 at 09:51:08 CEST Dear SciLifeLab, We are recruiting project coordinators: https://www.scilifelab.se/vacancies/tva-projektkoordinatorer-inom-genomik-med-placering-vid-scilifelab/ It is a really fun position, where you get to meet users of NGI and discuss their research on a daily basis. Please help us find the right candidates! Best regards, Ellen Ellen Sherwood, PhD Head of Facility, NGI Stockholm (Genomics production) Science for Life Laboratory www.scilifelab.se ngisweden.scilifelab.se -------------- next part -------------- An HTML attachment was scrubbed... URL: From izabelcavassim at gmail.com Thu Apr 12 10:44:13 2018 From: izabelcavassim at gmail.com (Maria Izabel Cavassim Alves) Date: Thu, 12 Apr 2018 10:44:13 +0200 Subject: [SocBiN] Fwd: [building.birc] PhD position and post doc position available In-Reply-To: References: Message-ID: PhD and Postdoc positions in Population Genomics available in a very nice environment at Aarhus University - Denmark. If you are interested please do not hesitate to contact Mikkel Schierup. Best, Maria Izabel ---------- Forwarded message ---------- From: Mikkel Heide Schierup Date: 2018-04-12 10:26 GMT+02:00 Subject: [building.birc] PhD position and post doc position available To: "building.birc at maillist.au.dk" Hi all BiRCs I have a PhD position in population genomics available, starting August 1. The position description can be found here http://talent.au.dk/phd/ scienceandtechnology/opencalls/calls-on-specific-projects/ may-2018/population-genomics-understanding-the-evolution- of-our-extraordinary-sex-chromosomes/ The application deadline is May 1. If you are potentially interested, please do not hesitate to come and see me or write me an email. I also have a 2 year post doc position in sex chromosome evolution available. Deadline for application is April 25. Starting time is as soon as foible thereafter. You can find the detailed description here http://www.au.dk/om/stillinger/videnskabelige-stillinge r/stillinger/Vacancy/show/971405/5285/ Please circulate this message to any interested candidates in your networks thanks best Mikkel Mikkel H. Schierup Bioinformatics Research Centre, Aarhus University, CF Mollers Alle Building 1110, 8000 Aarhus C Denmark Ph: +45 8715 6535 Email: mheide at birc.au.dk http://www.birc.au.dk/~mheide _______________________________________________ building.birc mailing list -- PhD in Bioinformatics at Bioinformatics Research Center (BiRC) Aarhus University - Denmark Phone: +45 91458049 E-mail: mica at birc.au.dk https://izabelcavassim.github.io/ Linkedin profile -------------- next part -------------- An HTML attachment was scrubbed... URL: From Junbai.Wang at rr-research.no Fri Apr 13 12:07:39 2018 From: Junbai.Wang at rr-research.no (Junbai Wang) Date: Fri, 13 Apr 2018 10:07:39 +0000 Subject: [SocBiN] FW: PhD position In-Reply-To: References: Message-ID: Hello, I have registered. Will you help me post the job now? Best regards from Junbai ________________________________________ From: SocBiN [socbin-at-sbc.su.se-bounces at lists.su.se] on behalf of socbin-at-sbc.su.se-owner at lists.su.se [socbin-at-sbc.su.se-owner at lists.su.se] Sent: Friday, April 13, 2018 10:36 AM To: Junbai Wang Subject: PhD position This is a moderated email list. Only members are allowed to post on it. If you are interested to post on it please subscribe at https://lists.su.se/mailman/listinfo/socbin-at-sbc.su.se Also remember that you can only post from EXACTLY the email adress you have subscribed with. -------------- next part -------------- An embedded message was scrubbed... From: Junbai Wang Subject: PhD position Date: Fri, 13 Apr 2018 08:36:18 +0000 Size: 179214 URL: From Junbai.Wang at rr-research.no Fri Apr 13 12:17:21 2018 From: Junbai.Wang at rr-research.no (Junbai Wang) Date: Fri, 13 Apr 2018 10:17:21 +0000 Subject: [SocBiN] FW: PhD position In-Reply-To: References: , Message-ID: Hello, We have a Three years Bioinformaitcs/Computational Biology PhD position available in Oslo. More detailed information please refer to the attachment. Hope you can help us distribute the message to potential candidates, whom can apply for the position through below web-link https://www.webcruiter.no/WcMain/advertviewpublic.aspx?oppdragsnr=3773149972&company_id=798077672&culture_id=EN I am very appreciated for your help. Best regards from Junbai Wang Pathology Department Oslo University Hospital – Norwegian Radium Hospital Norway -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: PhD_position_in_Oslo.pdf Type: application/pdf Size: 127121 bytes Desc: PhD_position_in_Oslo.pdf URL: From esko.ukkonen at cs.helsinki.fi Mon Apr 16 17:13:22 2018 From: esko.ukkonen at cs.helsinki.fi (Esko Ukkonen) Date: Mon, 16 Apr 2018 18:13:22 +0300 Subject: [SocBiN] WABI 2018 Final Call for Papers Message-ID: <436a66fa-6c8f-442c-bcfd-3478000858c3@helsinki.fi> WABI 2018 - 18th Workshop on Algorithms in Bioinformatics Helsinki, 20-22 August 2018 WABI 2018 call for papers http://algo2018.hiit.fi/wabi/ Scope All research in algorithmic work in bioinformatics, computational biology and systems biology. The emphasis is mainly on discrete algorithms and machine-learning methods that address important problems in molecular biology, that are founded on sound models, that are computationally efficient, and that have been implemented and tested in simulations and on real datasets. The goal is to present recent research results, including significant work-in-progress, and to identify and explore directions of future research. Paper Submission Submissions must be formatted in LaTeX using the LIPIcs style and must not exceed 12 pages including references. Each paper must contain a succinct statement of the issues and of their motivation, a summary of the main results, and a brief explanation of their significance, all accessible to non-specialist readers. All submissions must be made online, through the EasyChair submission system, at: https://easychair.org/conferences/?conf=wabi2018 You need to register on the EasyChair web site before submitting. A standard PDF file must be received by midnight on May 4, 2018 (time zone of your choice) in order for your submission to be considered. Simultaneous submission to another conference with published proceedings is not permitted, but simultaneous submission to a journal is allowed, provided that the authors notify the program chairs; if published in a journal, such a contribution will be published as a short abstract in the WABI proceedings. Depositing in arxiv.org or biorxiv.org is allowed. Note, by submitting a paper the authors acknowledge that in case of acceptance at least one of the authors must register at ALGO 2018 (http://algo2018.hiit.fi/) or WABI 2018, attend the conference, and present the paper. Proceedings Accepted papers will be published in a proceedings in the LIPIcs Leibniz International Proceedings in Informatics. Important Dates * *Paper submission deadline: May **4**, 201**8* * Notification of paper acceptance: June 8, 2018 * Final version of accepted paper: *June 1**3**, 201**8* * WABI 2018 workshop: August 20-22, 2018 * ALGO 2018 conference: 20-24 August 2018 *Programme committee* * Tatsuya Akutsu, Kyoto University Lars Arvestad, Stockholm University Anne Bergeron, Universite du Quebec a Montreal Paola Bonizzoni, Università di Milano-Bicocca Alessandra Carbone, Université Pierre et Marie Curie Benny Chor, Tel-Aviv Univ Daniel Doerr, Bielefeld University Nadia El-Mabrouk, University of Montreal Liliana Florea, Johns Hopkins University Anna Gambin, Institute of Informatics, Warsaw University Niina Haiminen, IBM Iman Hajirasouliha, Cornell University Bjarni Halldorsson, deCODE genetics and Reykjavik University Katharina Huber, University of East Anglia Carl Kingsford, Carnegie Mellon University Gunnar W. Klau, Heinrich Heine University Düsseldorf Harri Lähdesmäki, Aalto University Timo Lassmann, Telethon Kids Yu Lin, Australian National University Zsuzsanna Liptak, University of Verona Veli Mäkinen, University of Helsinki Paul Medvedev, Pennsylvania State University Bernard Moret, EPFL Burkhard Morgenstern, University of Goettingen Vincent Moulton, University of East Anglia Laxmi Parida (co-chair), IBM T. J. Watson Research Center Robert Patro, Stony Brook Christian Nørgaard Storm Pedersen, Aarhus University Solon Pissis, King's College London Cinzia Pizzi, Univ Padova Alex Pothen, Purdue Univ Teresa Przytycka, NIH Sven Rahmann, University of Duisburg-Essen Knut Reinert, FU Berlin Eric Rivals, CNRS & Univ Montpellier Simona Rombo, Univ Palermo Marie-France Sagot, INRIA Grenoble Rhône-Alpes and Univ de Lyon 1 Yasubumi Sakakibara, Keio University Mikaël Salson, Université Lille 1 Michael Schatz, Cold Spring Harbor Laboratory Marcel Schulz, Saarland University Russell Schwartz, Carnegie Mellon University Kana Shimizu, Waseda University Rahul Siddharthan, Institute of Mathematical Sciences, Chennai Alexandros Stamatakis, Heidelberg Instit. for Theoretical Studies Jens Stoye, Bielefeld University Hélène Touzet, University of Lille and INRIA Esko Ukkonen (co-chair), University of Helsinki Lusheng Wang, City University of Hong Kong Tandy Warnow, University of Illinois at Urbana–Champaign Yufeng Wu, Univ Connecticut Louxin Zhang, National University of Singapore Shaojie Zhang, University of Central Florida Michal Ziv-Ukelson, Ben Gurion University of the Negev *Keynote speaker* * Mihai Pop *Previous edition* * WABI 2017, Boston, MA -------------- next part -------------- An HTML attachment was scrubbed... URL: From Junbai.Wang at rr-research.no Mon Apr 16 18:11:55 2018 From: Junbai.Wang at rr-research.no (Junbai Wang) Date: Mon, 16 Apr 2018 16:11:55 +0000 Subject: [SocBiN] Postdoc position In-Reply-To: References: Message-ID: Hello, We have a Three years Bioinformaitcs/Computational Biology Postdoc position available in Oslo. More detailed information please refer to the attachment. Hope you can help us distribute the message to potential candidates, whom can apply for the position through below web-link https://www.webcruiter.no/WcMain/AssignmentSearch.aspx?oppdragsnr=3773149972&company_id=798077672&culture_id=EN I am very appreciated for your help. Best regards from Junbai Wang Pathology Department Oslo University Hospital – Norwegian Radium Hospital Norway -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: Advert_PrintPdf_postdoc_2018.pdf Type: application/pdf Size: 125006 bytes Desc: Advert_PrintPdf_postdoc_2018.pdf URL: From Junbai.Wang at rr-research.no Mon Apr 16 18:21:27 2018 From: Junbai.Wang at rr-research.no (Junbai Wang) Date: Mon, 16 Apr 2018 16:21:27 +0000 Subject: [SocBiN] Postdoc position In-Reply-To: References: , Message-ID: Hello, We have a Three years Bioinformaitcs/Computational Biology Postdoc position available in Oslo. More detailed information please refer to the attachment. Hope you can help us distribute the message to potential candidates, whom can apply for the position through below web-link https://www.webcruiter.no/WcMain/AssignmentSearch.aspx?oppdragsnr=3773149972&company_id=798077672&culture_id=EN I am very appreciated for your help. Best regards from Junbai Wang Pathology Department Oslo University Hospital – Norwegian Radium Hospital Norway -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: Advert_PrintPdf_postdoc_2018.pdf Type: application/pdf Size: 125006 bytes Desc: Advert_PrintPdf_postdoc_2018.pdf URL: From mauno.vihinen at med.lu.se Tue Apr 17 16:51:06 2018 From: mauno.vihinen at med.lu.se (Mauno Vihinen) Date: Tue, 17 Apr 2018 16:51:06 +0200 Subject: [SocBiN] Meeting on variation interpretation Message-ID: <1eea2775-1417-cc72-d6c5-35db9c6fbcf6@med.lu.se> Dear All, Still some places available at FEBS Advanced Course on The molecular basis of diseases: Can we infer phenotypes from protein variant analysis? to be organized in Biologna, Italy 23-25.5.2018. Deadline for registration April 22. More information: https://genomeanalysis2018.febsevents.org/ as well as in the attachment. In case of any questions, please, feel free to contact me. Best regards, Mauno -- Mauno Vihinen Professor of Medical Structural Biology Department of Experimental Medical Science Lund University BMC B13 SE-22184 Lund Sweden http://structure.bmc.lu.se tel +46 72 526 0022 ORCID iD 0000-0002-9614-7976 -------------- next part -------------- A non-text attachment was scrubbed... Name: FEBS2018extended.pdf Type: application/pdf Size: 185874 bytes Desc: not available URL: From Inge.Jonassen at ii.uib.no Mon Apr 23 22:26:38 2018 From: Inge.Jonassen at ii.uib.no (Inge Jonassen) Date: Mon, 23 Apr 2018 22:26:38 +0200 Subject: [SocBiN] tenure track position - machine learning Message-ID: Our Department of Informatics at the University of Bergen has an open tenure track position in Machine Learning. Please note that an applicant does not need to be an expert in machine learning at the outset, but should present a plan for how to become an expert in machine learning. We are building a new strong group in machine learning and there are excellent opportunities for collaborations with groups in bioinformatics and visualisation. For more information, and to apply, see https://www.jobbnorge.no/en/available-jobs/job/151865/tenure-track-associate-professor-in-machine-learning Inge Inge Jonassen, Prof PhD Head of Node, Elixir Norway Director, Computational Biology Unit Department of Informatics University of Bergen HiB N5020 Bergen Norway Inge.Jonassen at uib.no -------------- next part -------------- An HTML attachment was scrubbed... URL: From coordinator at rth.dk Tue Apr 24 11:09:30 2018 From: coordinator at rth.dk (Betina Wingreen Jensen) Date: Tue, 24 Apr 2018 11:09:30 +0200 Subject: [SocBiN] Two Postdoc positions at University of Copenhagen from June 1, 2018 Message-ID: <001c01d3dbab$f41788f0$dc469ad0$@rth.dk> Dear All, We are looking to fill two available postdoc positions from June 1, 2018 or as soon as possible thereafter. The postdocs will be working at the Department of Veterinary and Animal Sciences on the research projects: NeuroStem (neurostem.dk) and 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 in Systems Biology for non-coding RNA in bacterial cell factories *(NextProd) Full ad: http://employment.ku.dk/faculty/?show=147153 Application deadline: May 18, 2018. *Postdoc in Bioinformatics within Neurodegenerative Diseases *(NeuroStem) Full ad: http://employment.ku.dk/faculty/?show=147152 Application deadline: May 18, 2018. Best wishes, Betina 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 mvitezic at gmail.com Tue Apr 24 13:23:17 2018 From: mvitezic at gmail.com (Morana Vitezic) Date: Tue, 24 Apr 2018 13:23:17 +0200 Subject: [SocBiN] Industrial PhD student position in Bioinformatics at Lundbeck and Copenhagen University Message-ID: Dear all, at the Lundbeck Bioinformatics department we are looking for a PhD student interested in working within the field of depression genetics. This is a position partly funded by the Innovation Foundation together with the University of Copenhagen's Anders Albrechtsen, associate professor in bioinformatics, and Ida Moltke, assistant professor in bioinformatics. Please find more information here: http://www.lundbeck.com/global/career/job-opportunities?Id=E2054391en and we would appreciate it if you would circulate it with potentially interested students as well. Best regards *Morana Vitezic* PhD Principal Bioinformatician Bioinformatics Mbl +4530839997 *H. Lundbeck A/S* Ottiliavej 9 2500 Valby Denmark Tel +4536301311 Fax +4536438273 www.lundbeck.com The information in this email and in any attachments is confidential and may be protected by legal privilege. The information in this email and any attachments is solely for use by the intended recipient. If you are not the intended recipient, please notify the sender immediately and destroy this message as well as any attachments and delete any copies held on your systems. If you are not the intended recipient you may not retain, copy or use this email or any attachments for any purpose nor disclose all or any part of their content to any other person. -------------- next part -------------- An HTML attachment was scrubbed... URL: From Erik.Bongcam at slu.se Thu Apr 26 13:53:23 2018 From: Erik.Bongcam at slu.se (Erik Bongcam Rudloff) Date: Thu, 26 Apr 2018 11:53:23 +0000 Subject: [SocBiN] Open position at SLU Uppsala: Research Engineer in Bioinformatics Message-ID: <5E9F9A75-4577-4A57-9E3B-CCB23BCF510C@slu.se> Open position at SLU Uppsala: Research Engineer in Bioinformatics Dear all, The Swedish University of Agricultural Sciences (SLU) is recruiting. We have an open position for an expert bioinformatician at the SLU Bioinformatics Infrastructure. Here is a description of the position and how to apply: https://www.slu.se/en/about-slu/jobs-vacancies/?rmpage=job&rmjob=815&rmlang=UK Regards Erik ----------------------------------- Dr. Erik Bongcam-Rudloff Professor of Bioinformatics Head of SLU Bioinformatics Infrastructure Head of SGBC SLU-Uppsala [cid:E56A3825-2BF1-454D-A869-6D9AA49C9820 at wifi.slu.se] -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: SLUBI_logo_small.jpeg Type: image/jpeg Size: 5887 bytes Desc: SLUBI_logo_small.jpeg URL: From leo.lahti at iki.fi Fri Apr 27 09:25:05 2018 From: leo.lahti at iki.fi (Leo Lahti) Date: Fri, 27 Apr 2018 09:25:05 +0200 Subject: [SocBiN] PhD position in microbial bioinformatics (Netherlands) Message-ID: Dear list, dear colleagues There is an open PhD candidate position available in a good group in Leiden, The Netherlands in the field of human microbiome & bioinformatics. Kindly share the information through relevant networks. More info at: https://www.academictransfer.com/nl/47098/phd-student-modelling-of-human-microbiota/ kind regards Leo Lahti, Adj. Prof. University of Turku, Finland -------------- next part -------------- An HTML attachment was scrubbed... URL: From skhadar at gmail.com Sat Apr 28 14:04:08 2018 From: skhadar at gmail.com (Shameer K) Date: Sat, 28 Apr 2018 12:04:08 +0000 Subject: [SocBiN] Post-doctoral position at Northwell Health - Design, develop and implement biomedical big data and machine intelligence-driven intensive care unit Message-ID: Hi, A new post-doctoral position is available for candidates with experience in the application of machine intelligence methods to large-scale healthcare datasets. The candidate will be co-mentored by Dr. Negin Hajizadeh (Center for Health Innovations and Outcomes Research (CHIOR)) , Northwell Health and Department of Medicine Division of Pulmonary Critical Care and Sleep Medicine , Hofstra Northwell School of Medicine and Northwell Health) and Dr. Shameer Khader (Centre for Research Informatics and Innovation , Northwell Health, New Hyde Park, NY). The incoming fellow would work on the design, development, and implementation of data and intelligence-driven connected ICU that could improve outcomes for acute respiratory distress syndrome (ARDS). ARDS is a life-threatening form of respiratory failure that affects approximately 200,000 patients and resulting in nearly 75,000 deaths each year in the United States. The candidate should be able to analyze data resulting from data-intensive medicine and have a Ph.D., M.D., or equivalent doctoral degree in computer science, bioinformatics, statistics or engineering. The candidate is expected to gain cross-disciplinary training in healthcare, clinical informatics, critical care informatics, computational medicine, bioinformatics and health data science. *Requirements:* We are encouraging applicants with Ph.D. in computer science, biomedical informatics, engineering, biostatistics, or related disciplines to apply for the position. MD or MD-PhD candidates with informatics experience and quantitative skills may also apply. Applicants may have experience in one or more areas including biomedical informatics, bioinformatics, computer vision, robotics, machine learning, deep learning, scalable computing and pervasive computing. Experience in scientific computing using Python (pandas, scipy, numpy etc.), database technologies (SQL, NoSQL, and time-series database) modern machine intelligence software packages (Tensor Flow, Theano, Open CV etc.), and statistical computing using R are desirable. *How to apply:* If you are interested, email your curriculum vitae, links to your technology portfolio (github, bitbucket etc.) a brief statement of your research interests, and the names of two or three references. Please email your application to nhajizadeh at northwell.edu; skhader at northwell.edu *Related links:* - Northwell Health - Quick summary - Feinstein Institute of Medical Research - Dr. Hajizadeh's recent publications at PubMed - Dr. Khader's recent publications at Google Scholar Please feel free to share with your students, graduate school and networks/slacks. Thank you for your help. Shameer -------------- next part -------------- An HTML attachment was scrubbed... URL: