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Fw: Postdoc/ Research Fellow in biological data science
by Michael Charleston 07 Jan '21

07 Jan '21

An opportunity to move to another safe island just now... Dunedin is a lovely city! Michael Charleston [cid:49bc7fa5-a30a-4f7e-b019-2a1fa3333807] Mathematical Biology Group Professor in Bioinformatics Associate Head of School (Learning and Teaching) Academic co-Lead, UTAS - Data, Knowledge, Decisions School of Natural Sciences University of Tasmania AUSTRALIA Phone: +61 3 6226 2444 Zoom ID: https://utas.zoom.us/j/2948029484 ________________________________ From: Alex Gavryushkin <alex(a)biods.org> Sent: Monday, 4 January 2021 12:09 PM Subject: Postdoc/ Research Fellow in biological data science Dear colleagues, We are looking for a postdoc/ research fellow to work on computational cancer evolution. I would be very grateful if you could share the following links with your networks. https://otago.taleo.net/careersection/2/jobdetail.ftl?job=2002201<https://protect-au.mimecast.com/s/MzAbCANZy7iW37kruGYjUQ?domain=otago.taleo…> https://www.linkedin.com/posts/alex-gavryushkin_working-at-otago-your-caree…<https://protect-au.mimecast.com/s/cqJuCBNZz7i49EYPS6R5xg?domain=linkedin.com> Best wishes, Alex 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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Wild and Comparative Immunology 2020
by Andy Flies 03 Dec '20

03 Dec '20

Hello all, In 2019 we held the inaugural Wild and Comparative Immunology (WACI) workshop in Hobart. Our in person workshop discussions led to a 'Rewilding immunology<https://science.sciencemag.org/content/369/6499/37>' Perspective article in Science from our WACI consortium. This year we are totally online and have 33 speakers and over 135 people registered from 12 countries (https://www.wacimmuno.com/program/). There are still two days left to register for the 2020 Wild and Comparative Immunology workshop (https://www.wacimmuno.com/registration-2020/) and there is no fee this year. In 2021 we hope to get back to in person workshops, and will be supported as an Australian and New Zealand Society for Immunology (ASI) special interest group. Best, Andy - - Andy Flies, PhD Recent publication: A novel system to map protein interactions reveals evolutionarily conserved immune evasion pathways on transmissible cancers<https://advances.sciencemag.org/content/6/27/eaba5031> (Science Advances) Recent publication: Rewilding immunology<https://science.sciencemag.org/content/369/6499/37> (Science) Recent publication: Tasmanian devil CD28 and CTLA4 capture CD80 and CD86 from adjacent cells<https://doi.org/10.1016/j.dci.2020.103882> (Dev. & Comp. Immunology) Senior Research Fellow and ARC Discovery Early Career Researcher<http://www.utas.edu.au/profiles/staff/menzies/andrew-flies> Menzies Institute for Medical Research | College of Health and Medicine University of Tasmania Private Bag 23, Hobart TAS 7000 t: +61 3 6226 4614 | e: Andy.Flies(a)utas.edu.au<mailto:Andy.Flies@utas.edu.au> @WildImmunity<https://twitter.com/WildImmunity> | WildImmunity.com<https://wildimmunity.com/> Wild and Comparative Immunology Consortium<https://www.wacimmuno.com/> Science in the Pub Tasmania<http://scienceinthepubtasmania.org.au/> [Electronic Signature] 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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Epigenetics 2021 to circulate to AEpiA committee
by Michael Charleston 03 Dec '20

03 Dec '20

A conference that has come to my attention this morning: just in the nick of time for early bird registration (which appears to cover a coffee cart surprise in the mail, and a dinner if at all possible). Good morning everyone, Our flagship Australian Epigenetics Alliance conference will be held in February next year, all online and with a fantastic speaker list! Please see below for further information. Early bird registration closes on 4th December 2020, along with abstract submission for oral presentations. I hope to see you online! Cheers, Pip A message from the Australian Epigenetics Alliance (AEpiA): [cid:image001.png@01D6C890.BCC262B0]<https://protect-au.mimecast.com/s/sZR3C81Zm7fK6kY5cnHkOM?domain=ausepi21.ep…> Dear friends & colleagues, Our flagship scientific meeting, Epigenetics 2021<https://protect-au.mimecast.com/s/TdRUC91Zn7fpkO2WcE4LBo?domain=ausepi21.ep…>, will be online next 17- 19th February 2021. This meeting will bring together Australian and international researchers from across epigenetics-related fields, connecting senior, emerging and early-career scientists. Register by Friday 4th December for early bird rates <https://protect-au.mimecast.com/s/XF_uC0YZ4yFLGymXs2rxPN?domain=ausepi21.ep…> Early bird rates: Regular: $150 / Student: $100 Abstract Submission Deadline: Friday 4th December 2020<https://protect-au.mimecast.com/s/P_QsCgZovVC7ABG1s3itWA?domain=ausepi21.ep…> We invite abstracts for both oral and poster presentation. We will have awards for Best Talks & Best Student Talks, and poster prizes too. Program & Speakers: Epigenetics 2021 will be a fully immersive virtual event using the Attendify and Gather platforms. We've been planning a fantastic program<https://protect-au.mimecast.com/s/SD19CjZryVCvnOR4S14afD?domain=ausepi21.ep…>, with session topics including: Single-cell epigenetics, Epigenetics and stem cells Epigenetics in immunity Environmental epigenetics Transgenerational epigenetics and DOHAD Integrative OMICs (including epigenetics) Epigenetic aging Translational and clinical epigenetics We have a wonderful line-up of invited speakers<https://protect-au.mimecast.com/s/8VlyCk8vzVfpOw5yc8ha1S?domain=ausepi21.ep…>, including keynote international speakers Steve Horvath (UCLA, USA), Liran Carmel (Hebrew University of Jerusalem, Israel) and Wolf Reik (Babraham Institute, UK). We also have many national speakers, invited from all over Australia. Coffee & Dinner: Everyone who registers before the end of December can also chose to receive a coffee cart surprise in the post! We're also hoping to be able to hold satellite conference dinners in each state, which will be included in your registration fee. Fingers crossed that continued easing of covid-19 restrictions will allow these to go ahead. Keep an eye out for further updates on ausepi21.epialliance.org.au<https://protect-au.mimecast.com/s/TdRUC91Zn7fpkO2WcE4LBo?domain=ausepi21.ep…> or on Twitter at #AusEpi21<https://protect-au.mimecast.com/s/G6pwCmOxBVhrjMWof312fz?domain=twitter.com>. Sponsors: We are very grateful to our generous sponsors, without whom this meeting could not occur. Thanks to Abcam, Qiagen, Decode Science, Illumina, Custom Science, New England Biolabs, BMG Labtech and MDPI Epigenomes Journal. We look forward to seeing you at Epigenetics 2021! Best wishes from the Epigenetics 2021 Local Organising Committee and all the AEpiA Management Committee. [cid:image002.png@01D6C950.7A53B080] ausepi21.epialliance.org.au<https://protect-au.mimecast.com/s/G8s3CnxyDVHY7WmZIvAcbq?domain=ausepi21.ep…> | epialliance.org.au<https://protect-au.mimecast.com/s/HmSvCp8AG6fBnwA0FVvTUD?domain=epialliance…> | Contact AEpiA<mailto:contact@epialliance.org.au> | Follow us on Twitter<https://protect-au.mimecast.com/s/y3WzCq7BJXto82Xyso7aft?domain=twitter.com> 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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PhD Scholarship at UTAS - Molecular Basis for Plant Humidity Responses
by Frances Sussmilch 05 Nov '20

05 Nov '20

Hi All, I have a PhD scholarship (AUD$28,092/year full time for 3.5 years) available for a project co-supervised by Mike Charleston and Tim Brodribb focussing on how plants regulate their own water loss. We are looking for a student who has completed Honours in molecular biology, bioinformatics, plant physiology or genetics who is currently in Australia/NZ. A plant science background is not essential. If you know of any current or previous students who may be interested or other relevant networks where this could be shared, please let me know or feel welcome to forward these details on directly. Full details here: https://www.utas.edu.au/research/degrees/available-phd-projects/phd-project… Many thanks, Frances ________________________ Dr Frances Sussmilch Biological Sciences School of Natural Sciences University of Tasmania Private bag 55, Hobart 7001 Tasmania, Australia Ph: (+61) 03 6226 7583 Fax: (+61) 03 6226 2698 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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Postdoc position available: genomic transitions between modes of sex-determination
by Christopher Burridge 18 Sep '20

18 Sep '20

Postdoc position: Genomic transitions between modes of sex-determination Fixed term, full-time, 3 years Based at the University of Tasmania, Hobart PROJECT THEME Sex-determination controls the most significant variation within animals—the division into males and females. While the different systems of sex-determination involving genetic or environmental control are relatively well understood, transitions between these systems remain enigmatic in evolutionary biology. This project aims to address this gap by revealing the genomic changes required to transition between modes, using one of only two known lizard species exhibiting both genetic and temperature control of sex. This knowledge will have important implications for species conservation, facilitating predictions of highly biased sex ratios under climate change, plus potential commercial applications for species where the production of one sex is favoured. A Postdoc position is available to contribute to this research. The postdoc will perform advanced genomic and transcriptomic sequencing of species of Australian lizards to identify the genomic changes accompanying transitions between genetic and temperature-dependent sex determination. This collaborative research project is funded by an Australian Research Council Discovery Project grant awarded to the University of Tasmania (Assoc Profs Erik Wapstra and Chris Burridge), the University of Canberra (Prof Tariq Ezaz), and the University of Vienna (Prof. Oleg Simakov). This Postdoc will be based at the University of Tasmania, but will also work closely with Prof Simakov at the University of Vienna and a PhD student conducting related cytogenetic studies at the University of Canberra. THE IDEAL CANDIDATE The ideal candidate is expected to have knowledge in relevant aspects of genomics (e.g. NGS genome and transcriptome sequencing, mapping, screening for orthologs and homologs, assembly, annotation). Knowledge of sex determination is also desirable. The candidate will be self-motivated and well-organised, with a demonstrated capacity to learn and apply the broad skill set necessary for the successful completion of a research project. The successful candidate will be able to work alongside a wide variety of people in multi-function and multicultural laboratories. The successful candidate will also have a strong commitment and demonstrated excellence in research and research communication. SELECTION CRITERIA Essential A PhD, and experience in a relevant research area Knowledge and demonstrated expertise in areas such as NGS genome and transcriptome sequencing, mapping, screening for orthologs and homologs, and genome assembly and annotation. A demonstrated record of publication of scientific research in high-ranking international peer-review journals Desirable Knowledge of sex determination systems Knowledge and demonstrated expertise in phylogenetics, trait mapping, and ancestral state reconstruction The position is open to all nationalities. There is the potential to start this project remotely (i.e., outside Australia), given the nature of the project, desired start time (late 2020, early 2021) and the current challenges of international travel to Australia. HOW TO APPLY Interested applicants should submit a cover letter, CV, responses to the selection criteria listed above, and contact details of 2 potential referees to: chris.burridge(a)utas.edu.au<mailto:chris.burridge@utas.edu.au> Applications will close Oct 16, 2020 FURTHER INFORMATION For further information about the position please contact chris.burridge(a)utas.edu.au<mailto:chris.burridge@utas.edu.au> Chris Burridge | Associate Professor, Molecular Ecology & Evolution School of Natural Sciences | University of Tasmania | Private Bag 55 | Hobart | Tasmania 7001 | Australia Room 320a Life Sciences Building | Ph +61 3 6226 7653 | Fax +61 3 6226 2698 | https://rmdb.research.utas.edu.au/public/rmdb/q/indiv_detail_warp_trans/397… http://scholar.google.com.au/citations?user=4cYH8ZYAAAAJ&hl=en evogentas.org<http://evogentas.org/> 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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2020 IGV SCIENTIFIC MEETING
by Michael Charleston 04 Sep '20

04 Sep '20

Hi folks, Here's an interesting looking conference: (Forwarding this message:) The Immunology Victoria meeting is coming up. This is a meeting (virtual this year) specifically designed to promote speaking opportunities for Victorian and Tasmanian students and early-career postdocs. Would you mind forwarding around to the division? October 23rd is the date. It is free for ASI members, and $20 for non-members. https://www.immunology.org.au/events/2020-IgV-Scientific-Meeting/ [cid:bdd7e594-fbab-4530-8650-da1597b57e76] 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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Fw: Software developer to support dartR (software package in wildlife genomics)
by Michael Charleston 02 Sep '20

02 Sep '20

An opportunity for 2-year part-time work. From: Bernd.Gruber <Bernd.Gruber(a)canberra.edu.au> Sent: Tuesday, 1 September 2020 1:23 PM Subject: Software developer to support dartR (software package in wildlife genomics) Dear Colleagues, Can you please circulate the link to an offering for a software developer in the area of wildlife genomics to support the development of our R package (dartR) to potentially interested candidates. It is a two years, 0.5 FTE position. More information can be found here: * UC website – https://uctalent.canberra.edu.au/cw/en/job/494678/software-developer<https://protect-au.mimecast.com/s/xLyMCP7yRpt2BQXZuzJcoL?domain=uctalent.ca…> Thanks, take care and kind regards, Bernd ============================================================================== Dr Bernd Gruber Tel: (02) 6206 3804 Fax: (02) 6201 2328 Professor Institute for Applied Ecology Faculty of Applied Science University of Canberra ACT 2601 AUSTRALIA Email: bernd.gruber(a)canberra.edu.au<mailto:bernd.gruber@canberra.edu.au> WWW: http://www.canberra.edu.au/faculties/science/staff/profiles/dr-bernd-gruber<https://protect-au.mimecast.com/s/roygCQnzVqtKn7P9HPx-25?domain=canberra.ed…> Australian Government Higher Education Provider Number CRICOS:#00212K NOTICE & DISCLAIMER: This email and any files transmitted with it may contain confidential or copyright material and are for the attention of the addressee only. If you have received this email in error please notify us by email reply and delete it from your system. The University of Canberra accepts no liability for any damage caused by any virus transmitted by this email. ============================================================================== [UC Logo]<https://protect-au.mimecast.com/s/Oql4CROAWrhpwNWQsPR2KK?domain=canberra.ed…> [#1 in the ACT for three years running Full-time employment and graduate starting salaries Good Universities Guide 2021]<https://protect-au.mimecast.com/s/0zfBCVAG1yhEVMyXUJX9A0?domain=canberra.ed…> [UC Facebook]<https://protect-au.mimecast.com/s/EF2oCWLJ2zfQ10qxtm8BN6?domain=facebook.com>[UC Twitter]<https://protect-au.mimecast.com/s/SXFfCXLK3AfglmKGi9pJNX?domain=twitter.com>[UC Instagram]<https://protect-au.mimecast.com/s/2fU3CYWL4BsvK5lgu3CwoM?domain=instagram.c…>[UC Linkedin]<https://protect-au.mimecast.com/s/NoZ3CZYM5DFw1zgxUN9Upf?domain=au.linkedin…>[UC Youtube]<https://protect-au.mimecast.com/s/km-FC1WZ5zs0r8GOUminVt?domain=youtube.com> [University of Canberra]<https://protect-au.mimecast.com/s/Oql4CROAWrhpwNWQsPR2KK?domain=canberra.ed…> Australian Government Higher Education Registered Provider (CRICOS) #00212K The University of Canberra acknowledges the Ngunnawal people, traditional custodians of the lands where Bruce Campus is situated. We wish to acknowledge and respect their continuing culture and the contribution they make to the life of Canberra and the region. We also acknowledge all other First Nations Peoples on whose lands we gather. NOTICE AND DISCLAIMER: This email and any files transmitted with it may contain confidential or copyright materials and are for the attention of the addressee only. If you have received this email in error please notify us by email reply and delete it from your system. The University of Canberra accepts no liability for any damage caused by any virus transmitted by this email. 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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IHP program: Quantitative evolution, phylogeny and ecology, Jan 11 to Feb 19, 2021, Paris (France)
by Peter Jarvis 13 Jun '20

13 Jun '20

FYI Peter _________________________________________________________________________________________________ IHP program: Quantitative evolution, phylogeny and ecology, Jan 11 to Feb 19, 2021, Paris (France) More information at: https://indico.math.cnrs.fr/category/389/<https://protect-au.mimecast.com/s/HmU-C3Q870UzPBEYHgibUM?domain=indico.math…> Please pre-register at: https://indico.math.cnrs.fr/event/5760/registrations/432/<https://protect-au.mimecast.com/s/RjC2C4QZgDUKnovAuxxTPb?domain=indico.math…> preferably by June 15. Registrations are and will remain free of charge. We are aware of the uncertainties regarding travel in the next months. Pre-registrations are non-binding, but necessary for organizational reasons. From: Anne-Florence Bitbol <anne-florence.bitbol(a)epfl.ch<mailto:anne-florence.bitbol@epfl.ch>> 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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Webinars on using Containers in bioinformatics
by Michael Charleston 05 Jun '20

05 Jun '20

Hi all! Long time no hear. There are a series of bioinformatics webinars being run soon by Australian BioCommons, on the use of Containers. Here's the link: https://www.biocommons.org.au/events/containers-intro [http://static1.squarespace.com/static/5d3a4213cf4f5b00014ea1db/5d3a5c1b6311…]<https://www.biocommons.org.au/events/containers-intro> WEBINAR SERIES: Using Containers in Bioinformatics — Australian BioCommons<https://www.biocommons.org.au/events/containers-intro> Using containers in bioinformatics can bring benefits like software portability, data reproducibility and improved collaboration. Are containers the right fit for your research? This three-part series takes you from the absolute basics of containers through to demonstrating how to use containers in www.biocommons.org.au What's a container? It's a way of packaging up analyses with correct versions of software and data to make analyses highly reproducible, which as we know is incredibly important and often rather lacking in published work. There's a really nice blog entry here on why containers, in particular one system called Docker, is handy. Very accessible read: link below. If you're interested in "attending" the webinars then you can register to do so, and I think they'll be recorded. After the webinars there will be some online workshops learning how to use containers; you don't have to worry about registering for them now but I'd like to get a sense if anyone was interested in *maybe* doing one of those. I get the impression they will use command-line tools but don't know yet. Anyway, have a read over the long weekend: https://www.molecularecologist.com/2016/05/docker-making-our-bioinformatics… Cheers for now, Michael Charleston [cid:5060fe50-be4c-4a29-8610-59a03a6b9461] Mathematical Biology Group Associate Professor in Bioinformatics Associate Head of School (Learning and Teaching) Academic co-Lead, UTAS - Data, Knowledge, Decisions School of Natural Sciences University of Tasmania AUSTRALIA Phone: +61 3 6226 2444 Zoom ID: https://utas.zoom.us/j/2948029484 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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A little more information on the next AusBiocommons workshop on information visualisation
by Michael Charleston 28 Jan '20

28 Jan '20

This extra wording is now on the Eventbrite page for the event: ___ LEARNING OUTCOMES By completing this workshop you will learn to generate a multi-track Circos image and use rules to format the image dynamically based on data values and positions. INTENDEND AUDIENCE This workshop is aimed at biologists and bioinformaticians with no previous Circos knowledge. A familiarity with the Galaxy environment is assumed. Please bring along: * your Galaxy Australia login credentials * a WIFI enabled laptop You can apply for a free Galaxy Australia account using an Australian university email address here: https://usegalaxy.org.au<https://protect-au.mimecast.com/s/8qzcCOMxQoFLyAKrFEHuJB?domain=usegalaxy.o…>. You can watch a quick introduction to using Galaxy Australia on the Australian BioCommons youtube channel<https://protect-au.mimecast.com/s/uSZ9CP7yRpt1k4xAT0xFIV?domain=youtu.be>. If you need to brush up on your Galaxy knowledge, you can find great background information that's easy to follow here: https://training.galaxyproject.org/training-material/topics/visualisation/t…<https://protect-au.mimecast.com/s/TFsRCQnzVqt1y6W4TMWsik?domain=training.ga…> 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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