- bioinformatics-list - lists2.utas.edu.au

GWAS help
by Beth Penrose 24 Jul '19

24 Jul '19

Hi there, Tracey and I supervise a student, Waleed, who is looking at zinc uptake and translocation in barley. He would like to do some association mapping of Zn in barley as part of his PhD. Waleed's done some association mapping and blasting before, but Tracey and I are not experts in this area. Is there anyone at UTAS who might be able to help him get started? Thanks Beth Dr. Beth Penrose Lecturer in Pasture Science Honours coordinator Tasmanian Institute of Agriculture University of Tasmania, Sandy Bay Campus Private Bag 98, Hobart TAS 7001 T: +61 3 6226 5569 M:+61 4 18 895 382 utas.edu.au/tia<http://www.utas.edu.au/tia/home> [cid:image003.jpg@01D3C5AC.BADFC3F0] TIA is a joint venture of the University of Tasmania and the Tasmanian Government CRICOS 00586B University of Tasmania Electronic Communications Policy (December, 2014). This email is confidential, and is for the intended recipient only. Access, disclosure, copying, distribution, or reliance on any of it by anyone outside the intended recipient organisation is prohibited and may be a criminal offence. Please delete if obtained in error and email confirmation to the sender. The views expressed in this email are not necessarily the views of the University of Tasmania, unless clearly intended otherwise.

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Fwd: AES Registration open!
by Michael Charleston 18 Jun '19

18 Jun '19

Check it out! Good conference worth taking some bioinformatics to :) Sent from my iPhone Begin forwarded message: From: Australasian Evolution Society <ausevolutionsociety(a)gmail.com<mailto:ausevolutionsociety@gmail.com>> Date: 18 June 2019 at 16:37:33 AEST To: <michael.charleston(a)utas.edu.au<mailto:michael.charleston@utas.edu.au>> Subject: AES Registration open! Reply-To: <ausevolutionsociety(a)gmail.com<mailto:ausevolutionsociety@gmail.com>> Register now for the Australasian Evolution Society 2019 conference at UNSW! View this email in your browser<https://protect-au.mimecast.com/s/Ba2ECROAWrhV46yLU96tQq?domain=mailchi.mp> Australasian Evolution Society Promoting the scientific study of evolution Register here!<https://protect-au.mimecast.com/s/gw-IC3Q870UBDkWQIO3C-A?domain=gmail.us20.…> [https://gallery.mailchimp.com/c93a9f5ca58950126e7da711e/images/5b1a91ae-4c4…] Registration and abstract submissions open! Abstract submissions and registration for the AES conference are now open. Abstract submissions will close August 12, 2019. This year's conference will be held in Sydney at UNSW from November 24th to the 27th. Please pass along this notice to all those interested in presenting or attending. Follow us on twitter @AustEvolSoc [https://cdn-images.mailchimp.com/icons/social-block-v2/color-twitter-48.png]<https://protect-au.mimecast.com/s/kI-6C4QZgDUo4VR1CX8CsZ?domain=gmail.us20.…> [https://cdn-images.mailchimp.com/icons/social-block-v2/color-link-48.png]<https://protect-au.mimecast.com/s/LuBUC5QZjEUvkJwGcjDQSy?domain=gmail.us20.…> Want to change how you receive these emails? You can update your preferences<https://protect-au.mimecast.com/s/6TV-CYWL4Bs8V7jxFMYfl3?domain=gmail.us20.…> or unsubscribe from this list<https://protect-au.mimecast.com/s/Ap1cCZYM5DFGK6XNHP7EI-?domain=gmail.us20.…>. This email was sent to michael.charleston(a)utas.edu.au<mailto:michael.charleston@utas.edu.au> why did I get this?<https://protect-au.mimecast.com/s/kz2jC1WZ5zsRJ4LYhy-fMt?domain=gmail.us20.…> unsubscribe from this list<https://protect-au.mimecast.com/s/Ap1cCZYM5DFGK6XNHP7EI-?domain=gmail.us20.…> update subscription preferences<https://protect-au.mimecast.com/s/6TV-CYWL4Bs8V7jxFMYfl3?domain=gmail.us20.…> AES · UNSW · Sydney, Nsw 2051 · Australia [Email Marketing Powered by Mailchimp]<https://protect-au.mimecast.com/s/VTVBC2xZ6AHj5Y0wf0hiyC?domain=mailchimp.c…> University of Tasmania Electronic Communications Policy (December, 2014). This email is confidential, and is for the intended recipient only. Access, disclosure, copying, distribution, or reliance on any of it by anyone outside the intended recipient organisation is prohibited and may be a criminal offence. Please delete if obtained in error and email confirmation to the sender. The views expressed in this email are not necessarily the views of the University of Tasmania, unless clearly intended otherwise.

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Opportunity: 2019 Winter School Student travel scholarship application CLOSES ON 31 MAY 2019
by Jac Charlesworth 28 May '19

28 May '19

Hi all - I'm sure many of you have seen this but the Winter School is a great bioinformatics training event held annually in Australia. Details below. Student travel scholarship application CLOSES ON 31 MAY 2019 **2019 Winter School in Mathematical & Computational Biology ** A premier bioinformatics training event in Australia, the sixteenth annual Winter School in Mathematical & Computational Biology will be held 1-5 July 2019 at the Institute for Molecular Science, The University of Queensland, St Lucia. Early bird registration for Winter School now open. http://bioinformatics.org.au/winterschool/<https://protect-au.mimecast.com/s/wtCVC6X1k7COKM53UpoJ_R?domain=bioinformat…> Note that last year we reached the capacity of 280 of our venue, so be sure to register early to ensure your place. Key Dates Online registration - Early bird - from now to Sunday 10 June 2019 - Normal - 11 June to 24 June 2019 Student travel scholarships - Applications open NOW - Applications close on 31 May 2019 The series of winter schools is designed to introduce bioinformatics, mathematical and computational biology to advanced undergraduate and postgraduate students, postdoctoral researchers and others working in the fields of biology, mathematics, statistics, computer science, information technology, complex systems analysis, and chemical and medical sciences and engineering. Themes * Next generation sequencing & bioinformatics * Long read bioinformatics and applications * Data science and machine learning for bioinformatics * Getting started with bioinformatics software Featured speakers -- Nicholas Loman, University of Birmingham, UK -- Nicola Armstrong, Murdoch University -- Joshua Ho, The University of Hong Kong -- Nicole Cloonan, University of Auckland -- Jue Ruan, Chinese Academy of Agricultural Sciences, China -- Jessica Mar, The University of Queensland -- Martin Smith, Garvan Institute of Medical Research -- Maren Westermann, Max Kelsen -- Denis Bauer, CSIRO Speakers at Winter School are chosen as great presenters and world leaders in their field. For the complete list of speakers and presentation titles, visit website http://bioinformatics.org.au/winterschool/<https://protect-au.mimecast.com/s/wtCVC6X1k7COKM53UpoJ_R?domain=bioinformat…> Workshop A Genomics Virtual Laboratory training workshop (limited places of 36 only) will be run during the Winter School on Wednesday 3rd July. The workshop was fully subscribed in days last year, so register early to avoid disappointment. Feedback from previous Winter Schools "I would strongly encourage all biologists even without any mathematical background to attend the Winter School." "Fantastic speakers." "Great networking opportunities." "It takes special talent to pull off a conference people actually enjoy attending and it was thanks to some of the more charismatic orators, that I was able to enjoy the Winter School so much." "Gave me the confidence I need to talk to other people and bioinformaticians about the analysis of my NGS data. Thanks." University of Tasmania Electronic Communications Policy (December, 2014). This email is confidential, and is for the intended recipient only. Access, disclosure, copying, distribution, or reliance on any of it by anyone outside the intended recipient organisation is prohibited and may be a criminal offence. Please delete if obtained in error and email confirmation to the sender. The views expressed in this email are not necessarily the views of the University of Tasmania, unless clearly intended otherwise.

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World Multiple Sclerosis Day event near you
by Michael Charleston 23 May '19

23 May '19

This looks really good! Do consider going along – and I believe there are some taxi vouchers available for transport and “heaps of parking”.. :) UTAS College of Health & Medicine Multiple Sclerosis Research Engagement Workshop & Public Symposium “Interactive Brainstorming the next Big Ideas in MS” Date: Thursday May 30, 2019 – World MS Day Time: 10am-12.30pm Venue: C3 Convention Centre, Angelsea Street, South Hobart If you’re interested in being a part of the next big thing in research, please join us at our Multiple Sclerosis Research Engagement Workshop on May 30th, World MS Day. World MS Day is the perfect time for us to take stock of the MS Flagship Program successes so far, and think about our next opportunities and future directions. The MS Flagship Program is a collaboration between UTAS researchers and MS consumer organisations working together to generate and translate knowledge on the causes, treatment and prevention of multiple sclerosis. (You may have heard it was recently awarded $10 million and launched a MOOC). We want a diverse group of people and disciplines to work together and help us on this research mission. There is no requirement that you have any experience in the area of MS, or even health and medicine. We want a broad range of people with an interest in fields such as education, policy change, data management, prevention, treatment, analytics, behaviour change, and lifestyle factors. We also want the opportunity to learn from you and your experiences. We are having a lunch and public symposium following the workshop and you are welcome to stay for a bite to eat and a chance to engage with members of the MS community. Please RSVP to angela.wilson(a)utas.edu.au<mailto:angela.wilson@utas.edu.au> by Friday the 24th of May if you can attend. Michael Charleston [cid:image001.png@01D3BAAE.D622B130] Mathematical Biology Group Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions University Research Theme Associate Head of School (Learning and Teaching) School of Natural Sciences University of Tasmania AUSTRALIA Phone: +61 3 6226 2444 University of Tasmania Electronic Communications Policy (December, 2014). This email is confidential, and is for the intended recipient only. Access, disclosure, copying, distribution, or reliance on any of it by anyone outside the intended recipient organisation is prohibited and may be a criminal offence. Please delete if obtained in error and email confirmation to the sender. The views expressed in this email are not necessarily the views of the University of Tasmania, unless clearly intended otherwise.

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Fwd: Tenure Track Bioinformatics Innsbruck
by Michael Charleston 16 Apr '19

16 Apr '19

A job ad sent in by Calum – share and enjoy! Dr Michael Charleston Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions University Research Theme Associate Head of School (Learning and Teaching) School of Natural Sciences University of Tasmania AUSTRALIA phone: +61 3 6226 2444 [cid:11db0c58-4326-4327-8f1c-5daedc5faea1@ausprd01.prod.outlook.com] Mathematical Biology Research Group @ UTAS Begin forwarded message: From: Calum Wilson <calum.wilson(a)utas.edu.au<mailto:calum.wilson@utas.edu.au>> Subject: Fwd: Tenure Track Bioinformatics Innsbruck Date: 16 April 2019 at 7:25:56 am AEST To: Michael Charleston <michael.charleston(a)utas.edu.au<mailto:michael.charleston@utas.edu.au>> Sent from my iPad Begin forwarded message: From: "Neuhauser, Sigrid" <Sigrid.Neuhauser(a)uibk.ac.at<mailto:Sigrid.Neuhauser@uibk.ac.at>> Date: 15 April 2019 at 9:22:36 pm AEST To: "Neuhauser, Sigrid" <Sigrid.Neuhauser(a)uibk.ac.at<mailto:Sigrid.Neuhauser@uibk.ac.at>> Subject: Tenure Track Bioinformatics Innsbruck Dear all, the Institute of Microbiology in Innsbruck ist hiring – we are looking for a tenure track fellow in bioinformatics – see the attached job description. The positon scope is very broad and open to attract as many bright minds as possible. The person we are looking for should have experience in working with bioinformatics data of microorganisms (including bacteria, archea, fungi, protists) in the widest sense. So a good track record either in genomics/transcriptomics or biodiversity or network analyses or metabolomics will make you a promising canditate. More info can be found here: https://lfuonline.uibk.ac.at/public/karriereportal.details?asg_id_in=10452<https://protect-au.mimecast.com/s/6AxeCq7BJXtlppqMCZz9vC?domain=lfuonline.u…> If you have any questions, please do not hesitate to get in touch! Please forward to any prospecitve PostDocs or anybody who you think might fit for this positon! Best regards Sigrid PS: apologies for cross posting! ------------------------------------------- Dr. Sigrid Neuhauser Institute of Microbiology University of Innsbruck Technikerstraße 25 6020 Innsbruck e-mail: Sigrid.Neuhauser(a)uibk.ac.at tel: +43 (0)512 507 51259 University of Tasmania Electronic Communications Policy (December, 2014). This email is confidential, and is for the intended recipient only. Access, disclosure, copying, distribution, or reliance on any of it by anyone outside the intended recipient organisation is prohibited and may be a criminal offence. Please delete if obtained in error and email confirmation to the sender. The views expressed in this email are not necessarily the views of the University of Tasmania, unless clearly intended otherwise.

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KMA712 Introduction to Bioinformatics at UTAS
by Michael Charleston 20 Feb '19

20 Feb '19

Dear all, Just in case you haven’t come across the existence of this unit please note that Introduction to Bioinformatics will begin next week and I think there’s still time to enrol. It’s a Post Grad Cert - approved unit (so it can count in your PhD if you’re doing one). Here’s the current Unit Outline: spread it around! Email me if you have any questions. Best wishes Mike -- Michael Charleston [cid:image001.png@01D3BAAE.D622B130] Associate Professor in Bioinformatics Mathematical Biology Research Group Organiser of Phylomania<http://www.maths.utas.edu.au/phylomania/phylomania2019.htm> conference #11, November/December 2019 Co-director of Data, Knowledge and Decisions University Research Theme Associate Head of School (Learning and Teaching) School of Natural Sciences University of Tasmania AUSTRALIA Phone: +61 3 6226 2444 University of Tasmania Electronic Communications Policy (December, 2014). This email is confidential, and is for the intended recipient only. Access, disclosure, copying, distribution, or reliance on any of it by anyone outside the intended recipient organisation is prohibited and may be a criminal offence. Please delete if obtained in error and email confirmation to the sender. The views expressed in this email are not necessarily the views of the University of Tasmania, unless clearly intended otherwise.

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PacBio circular consensus sequences
by Morag Glen 12 Feb '19

12 Feb '19

Good evening all Has anyone used the PacBio SMRT Link software to create circular consensus sequences from Sequel data? Cheers Morag Dr Morag Glen Senior Research Scientist Tasmanian Institute of Agriculture University of Tasmania Private Bag 98 Hobart, 7001. Tasmania Australia Ph +61 3 6226 2683 University of Tasmania Electronic Communications Policy (December, 2014). This email is confidential, and is for the intended recipient only. Access, disclosure, copying, distribution, or reliance on any of it by anyone outside the intended recipient organisation is prohibited and may be a criminal offence. Please delete if obtained in error and email confirmation to the sender. The views expressed in this email are not necessarily the views of the University of Tasmania, unless clearly intended otherwise.

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Fwd: 30 November webinar: Jason Williams, CyVerse, Extensible Cyberinfrastructure for Life Science
by Michael Charleston 19 Nov '18

19 Nov '18

This looks like an interesting webinar for some bioinformaticians ! Sent from my iPhone Begin forwarded message: From: EMBL Australia Bioinformatics Resource <news(a)embl-abr.org.au<mailto:news@embl-abr.org.au>> Date: 19 November 2018 at 13:46:41 AEDT To: <michael.charleston(a)utas.edu.au<mailto:michael.charleston@utas.edu.au>> Subject: 30 November webinar: Jason Williams, CyVerse, Extensible Cyberinfrastructure for Life Science Reply-To: EMBL Australia Bioinformatics Resource <news(a)embl-abr.org.au<mailto:news@embl-abr.org.au>> 19 November 2018 View this email in your browser<https://protect-au.mimecast.com/s/B89yCXLK3AfmEkYJH6o0gl?domain=mailchi.mp> [https://gallery.mailchimp.com/ff6c5ecd5fc20b82390e8a4ad/images/2cc83e0e-3ac…]<https://protect-au.mimecast.com/s/6h1iClxwAVHLR6Z7sKomkY?domain=embl-abr.us…> 30 November Webinar: CyVerse, Extensible Cyberinfrastructure for Life Science [https://gallery.mailchimp.com/ff6c5ecd5fc20b82390e8a4ad/images/92c2e3f9-21a…] The last in our 2018 WEBINAR series features Jason Williams, Chair, EMBL-ABR International Scientific Advisory Group. Jason is in Australia to present first at AMSI Bioinfosummer 2018<https://protect-au.mimecast.com/s/tREdCmOxBVhvykn2S0gF0H?domain=embl-abr.us…> hosted by the University of Western Australia in Perth, before heading to Melbourne for the EMBL-ABR All Hands meeting on 29-30 November. UWA Node members Phillip Bayer and David Edwards will be representing EMBL-ABR at Bioinfosummer and look forward to talking with attendees from all over Australia. Once again our thanks go to the ANDS/RDS/Nectar teams for collaborating with us to make the webinar series possible. _______________________________________________________________ [https://www.embl-abr.org.au/wp-content/uploads/2018/10/cyverse-3.png] Biological research increasingly depends on computational analysis of large and complex data sets. This 1-hour webinar provides a comprehensive look at platforms, tools, and services for large-scale data analysis provided by CyVerse<https://protect-au.mimecast.com/s/TcPMCnxyDVHn9ro5FjM3Nn?domain=embl-abr.us…>, a cyberinfrastructure (CI) project of the US National Science Foundation. The webinar will introduce the basic components of CyVerse CI including the Discovery Environment<https://protect-au.mimecast.com/s/tttUCoVzE9Hk26z4tjHKwK?domain=embl-abr.us…> (a simple web portal for managing data, analyses and workflows); the Data Store<https://protect-au.mimecast.com/s/0EebCp8AG6f54p8DC190dk?domain=embl-abr.us…> (scalable, secure, and reliable storage for terabyte-scale data management); Atmosphere<https://protect-au.mimecast.com/s/6Y7ECq7BJXt9YJ5WtzRMdr?domain=embl-abr.us…> (one-click, on-demand cloud computing); and the Visual and Interactive Computing Environment (flexible implementations of Jupyter Labs, Rstudio, and R Shiny). CyVerse provides a full stack of CI services with entry points for computational novices and software developers. All resources are freely available to the community and free accounts can be obtained at user.cyverse.org<https://protect-au.mimecast.com/s/mG7BCr8DKNfxQ4v9UPPvKF?domain=embl-abr.us…> Presenter: Jason Williams. Assistant Director, External Collaborations Cold Spring Harbor Laboratory, DNA Learning Center and Education, Outreach and Training lead for CyVerse. Date/time: Tuesday 30 November 2018 3:00-4:00 AEDT Registration link: https://register.gotowebinar.com/register/7261058635661650434<https://protect-au.mimecast.com/s/tk5PCvl0O7Svwr6XSlvqkt?domain=embl-abr.us…> _______________________________________________________________ All EMBL-ABR webinars are recorded and made available on our webpage here: www.embl-abr.org.au/webinars<https://protect-au.mimecast.com/s/gSAICwVLP8Holg1pSoS-iR?domain=embl-abr.us…> [https://cdn-images.mailchimp.com/icons/social-block-v2/color-twitter-48.png]<https://protect-au.mimecast.com/s/ln9vCxnMQNtZEPAOSlnxWu?domain=embl-abr.us…> Twitter<https://protect-au.mimecast.com/s/hQUmCyoNROTYOAMnSwOiYi?domain=embl-abr.us…> [https://cdn-images.mailchimp.com/icons/social-block-v2/color-link-48.png]<https://protect-au.mimecast.com/s/qX3cCzvO0NfKWO2LtRdkTX?domain=embl-abr.us…> Homepage<https://protect-au.mimecast.com/s/BypBCANZy7ijpGWYsjwapk?domain=embl-abr.us…> [https://cdn-images.mailchimp.com/icons/social-block-v2/color-link-48.png]<https://protect-au.mimecast.com/s/rGgdCBNZz7ivWz4oSoS7xP?domain=embl-abr.us…> Subscribe to this newsletter<https://protect-au.mimecast.com/s/ZYUqCD1jB7fXYDVPtDFMNW?domain=embl-abr.us…> Copyright © 2018 EMBL Australia Bioinformatics Resource, All rights reserved. Welcome to the EMBL-ABR mailing list. Our mailing address is: EMBL Australia Bioinformatics Resource 187 Grattan Street University of Melbourne, Vic 3010 Australia Add us to your address book<https://protect-au.mimecast.com/s/Ae5vCE8kD7fB4kDPtW7yz3?domain=embl-abr.us…> Want to change how you receive these emails? You can update your preferences<https://protect-au.mimecast.com/s/rYgUCjZryVCgoZq9SGnVYo?domain=embl-abr.us…> or unsubscribe from this list<https://protect-au.mimecast.com/s/fQyECk8vzVfg2oQNS4CVOJ?domain=embl-abr.us…> University of Tasmania Electronic Communications Policy (December, 2014). This email is confidential, and is for the intended recipient only. Access, disclosure, copying, distribution, or reliance on any of it by anyone outside the intended recipient organisation is prohibited and may be a criminal offence. Please delete if obtained in error and email confirmation to the sender. The views expressed in this email are not necessarily the views of the University of Tasmania, unless clearly intended otherwise.

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Just in case!
by Michael Charleston 13 Nov '18

13 Nov '18

Dear all, If you are in any way interested in metagenomics do feel free to come along to the Galaxy based metagenomics workshop tomorrow! There’s room for more: we have a small turnout so far and these free training workshops are really useful. Although registrations are now closed (they have to close some time) if you want to come, it’s on tomorrow afternoon from 1pm in the Harvard Lecture Theatre 2: [cid:C6F778CA-F0EB-432D-AB60-75EAB87145CD@staff.utas.edu.au] Cheers, Dr Michael Charleston Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions University Research Theme Associate Head of School (Learning and Teaching) School of Natural Sciences University of Tasmania AUSTRALIA phone: +61 3 6226 2444 [cid:57A171C5-21DF-4F31-B9AF-65FF92F721D1@maths.utas.edu.au] Mathematical Biology Research Group @ UTAS University of Tasmania Electronic Communications Policy (December, 2014). This email is confidential, and is for the intended recipient only. Access, disclosure, copying, distribution, or reliance on any of it by anyone outside the intended recipient organisation is prohibited and may be a criminal offence. Please delete if obtained in error and email confirmation to the sender. The views expressed in this email are not necessarily the views of the University of Tasmania, unless clearly intended otherwise.

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Don't forget! Galaxy workshop on Differential Gene Expression, Tuesday October 23rd in Sandy Bay
by Michael Charleston 19 Oct '18

19 Oct '18

You may have missed it – but if not, there’s a workshop you might be interested in: Check out the details at http://www.embl-abr.org.au/about/events/ Introduction to Galaxy Australia: Differential Gene Expression from Bacterial RNA-seq Data Tuesday 23 Oct 14:00-17:00 AEDT (Vic, Tas, NSW), 13:00-16:00 AEST (Qld), 13.30-16.30 ACDT (SA), 11:00-14:00 MYT (Malaysia) ... University of Tasmania<https://intro-galaxy-aust-rna-seq-utas.eventbrite.com.au/> It’s FREE after all. Go on, you know you want to. Best wishes Mike -- Michael Charleston [cid:image001.png@01D3BAAE.D622B130] Theoretical Phylogenetics Group Organiser of Phylomania<http://www.maths.utas.edu.au/phylomania/phylomania2018.htm> conference 2018 November 21-23 Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions University Research Theme Associate Head of School (Learning and Teaching) School of Natural Sciences University of Tasmania AUSTRALIA Phone: +61 3 6226 2444 University of Tasmania Electronic Communications Policy (December, 2014). This email is confidential, and is for the intended recipient only. Access, disclosure, copying, distribution, or reliance on any of it by anyone outside the intended recipient organisation is prohibited and may be a criminal offence. Please delete if obtained in error and email confirmation to the sender. The views expressed in this email are not necessarily the views of the University of Tasmania, unless clearly intended otherwise.

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