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Asking help on Gene set Enrichment
by Raihan Mahmud 23 Aug '17

23 Aug '17

Dear All, I am a student of IMAS Taroona working with a set of gene expression data. I was wondering if anyone can help me on gene ontology analysis/pathway enrichment analysis. Specifically, I am having difficulties to import g:profiler output data into Cytoscape. Please let me know if anyone is working with g:Profiler (Or DAVID/ GO) and Cytoscape (especially-EnrichmentMap/BiNGO/ENViz or any plugins in that regards)? Thank you very much for your time and help. Regards, Raihan 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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Amazing genomics conference here in Tasmania - Early Bird Closing Monday | Updated Program Available
by Jac Charlesworth 02 Aug '17

02 Aug '17

Hi, I’m circulating this on to the list because it is local, earlybird closes Monday, there’s group registration options, posters are still open and it’ll be a great conference. Rego is even cheaper for AGTA members (and membership is cheap and worth having if you’re into genomics). There are also two pre-conference workshops being held on the 29th of October that are open to non-conference attendees – one on single-cell sequencing and a gene editing symposium. Those are $40 for general and $20 for students and worth going to one! Pass it on! View this email in your browser<http://mail.eventsairmail.com/wf/click?upn=leXlJNbV2Nqtn2a5oly5SAre39JNF5xm…> [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/1adf3c91-d21…]<http://mail.eventsairmail.com/wf/click?upn=P9Z9BSJktgtsb-2BzdM0xrq70ga27JWB…> [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/02c218b1-942…]<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> Standard fees will apply from 5pm, Monday 7 August 10% Group Registration Discount 3+ attending from the same organisation? Don't forget to register through the group registration portal to receive a 10% discount off each registration. CLICK HERE TO REGISTER FOR AGTA 2017<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> AGTA17 CONFERENCE DINNER [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/aa7496a3-2b2…] The highlight of the social program will take place at Mona (Museum of Old and New Art). You'll experience a ride on the Mona Roma ferry, followed by a private museum viewing and dinner at Eros and Thanatos. This conference dinner will undoubtedly be one to remember! UPDATED PROGRAM AVAILABLE The reviews are in and we would like to thank all authors who submitted an abstract for consideration in the program. Congratulations again to all those who were successful! CLICK HERE TO VIEW THE PROGRAM<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> PRE-CONFERENCE WORKSHOPS Tickets to can be purchased when registering online for AGTA17. If you are not attending the conference and wish to attend a workshop, please contact Emma<mailto:emma@laevents.com.au>. Delegate Ticket - $40 Student Ticket - $20 Can Genome Editing Fulfil Its Promise in the Clinic and the Field? Symposium Speakers Alex Hewitt, University of Tasmania Alice Pébay, The University of Melbourne Dianne Nicol, University of Tasmania Kaylene Young, University of Tasmania Margaret Otlowski, University of Tasmania (Mediator) Owain Edwards, CSIRO VIEW THE SYMPOSIUM PROGRAM<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> Technical Solutions to Single Cell Problems Workshop Speakers Brian Fritz, 10X David Gallego-Ortega, Garvan Institute of Medical Research Mark Lynch, Fluidigm Shalin Naik, Walter and Eliza Hall Institute of Medical Research Marina Oliva, University of Western Australia Alicia Oshlack, Murdoch Childrens Research Institute Joseph Powell, The University of Queensland VIEW THE WORKSHOP PROGRAM<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/6110b600-d74…]<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> [https://cdn-images.mailchimp.com/icons/social-block-v2/color-twitter-48.png]<http://mail.eventsairmail.com/wf/click?upn=ixLt52LWCFyq2nS3RXiMSDQhZMpMj7uV…> @agtaGenomics #AGTA17<http://mail.eventsairmail.com/wf/click?upn=ixLt52LWCFyq2nS3RXiMSDQhZMpMj7uV…> [https://cdn-images.mailchimp.com/icons/social-block-v2/color-facebook-48.png]<http://mail.eventsairmail.com/wf/click?upn=ixLt52LWCFyq2nS3RXiMSHdtVJiabJFT…> agtaconference<http://mail.eventsairmail.com/wf/click?upn=ixLt52LWCFyq2nS3RXiMSHdtVJiabJFT…> [https://cdn-images.mailchimp.com/icons/social-block-v2/color-link-48.png]<http://mail.eventsairmail.com/wf/click?upn=P9Z9BSJktgtsb-2BzdM0xrq70ga27JWB…> agtaconference.org<http://mail.eventsairmail.com/wf/click?upn=P9Z9BSJktgtsb-2BzdM0xrq70ga27JWB…> [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/06bf7001-714…]<mailto:emma@laevents.com.au?subject=AGTA%202017> This email was sent by Leishman Associates, Conference & Event Management, 227 Collins Street, Hobart, TAS, 7000 on behalf of the organisers of the above mentioned conference. As the recipient you have received this notice as a past delegate or potential delegate of the above mentioned conference. 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: A 3-year postdoc in genomics at CSIRO. Hobart
by Michael Charleston 31 Jul '17

31 Jul '17

Michael Charleston Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions Research Theme Head of UTAS node of EMBL-ABR School of Physical Sciences University of Tasmania AUSTRALIA phone: +61 3 6226 2444 Begin forwarded message: From: Larry Forbes <larry.forbes(a)utas.edu.au<mailto:larry.forbes@utas.edu.au>> Subject: A 3-year postdoc in genomics at CSIRO. Hobart Date: 29 July 2017 at 5:37:23 PM AEST To: Mathematics & Physics - All <SET-DL-Maths-And-Physics-All(a)utas.ad.internal<mailto:SET-DL-Maths-And-Physics-All@utas.ad.internal>> Another job! Might be worth a look. Here is the website: https://jobs.csiro.au/job/Hobart%2C-TAS-Postdoctoral-Fellowship-Microbial-E… Cheers, Larry F. 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: A job as a Population Dynamicist, CSIRO, Hobart
by Michael Charleston 31 Jul '17

31 Jul '17

Michael Charleston Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions Research Theme Head of UTAS node of EMBL-ABR School of Physical Sciences University of Tasmania AUSTRALIA phone: +61 3 6226 2444 Begin forwarded message: From: Larry Forbes <larry.forbes(a)utas.edu.au<mailto:larry.forbes@utas.edu.au>> Subject: A job as a Population Dynamicist, CSIRO, Hobart Date: 29 July 2017 at 5:35:02 PM AEST To: Mathematics & Physics - All <SET-DL-Maths-And-Physics-All(a)utas.ad.internal<mailto:SET-DL-Maths-And-Physics-All@utas.ad.internal>> Dear All: Here is the website for that Job Ad. https://jobs.csiro.au/job/Hobart%2C-TAS-Population-Dynamicist/417405800/ This may be of interest! Cheers, Larry F. 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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AGTA17 Genomics conference in Hobart
by Jac Charlesworth 23 Jun '17

23 Jun '17

Hi everyone, There's a genomic technologies conference happening in Hobart October 29th to November 1st that you should consider checking out. Abstracts for talks close in a bit over a week (3rd July) but registration is open longer so get the abstracts in! It is interdisciplinary, has some great speakers lined up, includes travel awards (even for locals), a family room if you need it, conference dinner at Mona, lots of awards and prizes and best of all, covers lots of awesome science. There's also two pre-conference workshops<http://agtaconference.org/pre-conference-workshops-2/> (a symposium on gene editing and a workshop on single cell sequencing) that locals can register for without attending the conference! If you only want to attend a workshop please email Emma Harrison Emma(a)leishman-associates.com.au<mailto:Emma@leishman-associates.com.au> instead on using the online registration. There's also a student/ECR function organised by some local PhD students, and discounts for group registrations (plus become an AGTA member - it is cheap and helps with registration costs) Best wishes, Jac View this email in your browser<http://mail.eventsairmail.com/wf/click?upn=leXlJNbV2Nqtn2a5oly5SIbTVvWpWO-2…> [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/1adf3c91-d21…]<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/9787f6d0-595…]<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> The AGTA Organising Committee are pleased to share with you the first look at the 2017 preliminary program. Packed with speakers from Australia and abroad, this year's conference is one not to be missed! VIEW THE PRELIMINARY PROGRAM<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> Pre-Conference Workshops A single-cell sequencing workshop and gene editing symposium will run concurrently on Sunday 29 October, prior to the commencement of the conference. Registration can be completed during your conference registration. Delegate Ticket - $40 Student Ticket - $20 [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/0f63dd62-9dc…] Can Genome Editing Fulfil Its Promise in the Clinic and the Field? A symposium covering the social, clinical, research and industry applications, potentials and concerns of gene editing. [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/b6e302ea-989…] Technical Solutions to Single Cell Problems This workshop aims to be a technical brainstorming session - comparing and contrasting available technologies, and 'workshopping' the technical issues or tips that directly impact the output and quality of data as well as the advantages and potential pitfalls of specific platforms in different situations. EARLY BIRD REGISTRATION IS OPEN UNTIL 31 JULY SUBMIT YOUR ABSTRACT NOW Oral Abstract Submissions Closing 3 July 2017 Poster Abstract Submissions Closing 14 August 2017 CLICK HERE TO SUBMIT YOUR ABSTRACT<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> CLICK HERE TO REGISTER FOR AGTA 2017<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> [https://cdn-images.mailchimp.com/icons/social-block-v2/color-twitter-48.png]<http://mail.eventsairmail.com/wf/click?upn=ixLt52LWCFyq2nS3RXiMSDQhZMpMj7uV…> @agtaGenomics #AGTA17<http://mail.eventsairmail.com/wf/click?upn=ixLt52LWCFyq2nS3RXiMSDQhZMpMj7uV…> [https://cdn-images.mailchimp.com/icons/social-block-v2/color-facebook-48.png]<http://mail.eventsairmail.com/wf/click?upn=ixLt52LWCFyq2nS3RXiMSHdtVJiabJFT…> agtaconference<http://mail.eventsairmail.com/wf/click?upn=ixLt52LWCFyq2nS3RXiMSHdtVJiabJFT…> [https://cdn-images.mailchimp.com/icons/social-block-v2/color-link-48.png]<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> agtaconference.org<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/2486b9d1-9e6…]<http://mail.eventsairmail.com/wf/click?upn=6Z1aqJiIYyZxRAXwtKR5r8X7jDDQ1hum…> [https://gallery.mailchimp.com/8e6c7f581a1a22c544246ccdc/images/71f40c50-43f…]<mailto:emma@laevents.com.au?subject=AGTA%202017> This email was sent by Leishman Associates, Conference & Event Management, 227 Collins Street Hobart, TAS, 7000 on behalf of the organisers of the above mentioned conference. As the recipient you have received this notice as a past delegate or potential delegate of the above mentioned conference. 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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Genome Workshop: Darn darn darn, darny darn!
by Michael Charleston 16 Jun '17

16 Jun '17

Dear everyone, I’m very sorry to announce that, most regrettably, we can no longer go ahead with Dr Munoz-Torres’ workshops, which were to take place on the 29th and 30th of this month. The travel agent / visa company she commissioned to get her over here messed it up and so she doesn’t have a visa, and cannot travel to Australia. If you’ve registered and paid, then please accept our apologies for getting your hopes up! I know I was very much looking forward to the two days. I’ll contact Finance to see how we get your monies back to you. Sincerely, Mike Michael Charleston Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions Research Theme Head of UTAS node of EMBL-ABR School of Physical 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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Genome Annotation and Open Science workshop -- please register
by Michael Charleston 15 Jun '17

15 Jun '17

Dear all, The live link to payment for the above workshop on 29th and 30th of June (gack, so soon!) is https://payments.utas.edu.au/OneStopWeb/Register/tran?UDS_ACTION=DEFAULT&UD… We are currently battling with a visa issue (seems it’s hard to get into LOADS of different countries!) but will keep you apprised. If we have to reschedule the visit we will of course reimburse you. See you there! Best wishes Mike Michael Charleston Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions Research Theme Head of UTAS node of EMBL-ABR School of Physical 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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Job opportunity in bioinformatics!
by Michael Charleston 31 May '17

31 May '17

Look what I found! [cid:22319DB3-7D51-47FA-A0CB-80467D40F1E4@maths.utas.edu.au] [cid:EE665DC0-28AC-4EDC-8E81-75C9A78FE099@maths.utas.edu.au] https://www.seek.com.au/job/33577212?pos=1&ref=beta&tier=no_tier&type=stand… Michael Charleston Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions Research Theme Head of UTAS node of EMBL-ABR School of Physical 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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Genome Annotation and Open Science workshop update
by Michael Charleston 12 May '17

12 May '17

Dear all, The tour website has been set up and I’m now working on a registration page for this fun workshop. Book in those dates: 29th and 30th of June, Sandy Bay campus. Stay tuned to https://www.embl-abr.org.au/monicamunoz-torrestour/ ! The registration fee will be $100 for the two days. And in related news, the open science workshop is now expanded to a whole day – there’s lots of interesting activities and discussions to take part in and I hope you’ll join us. Those of you who are a bit more au fait with bioinformatics are hereby also asked if you’d like to take part in a slightly more leading way, such as joining on a panel discussion on aspects of Open Science. Here’s a rough break-down of expected activities (but I’m not promising catering at this point!): * Welcome * Open Science: what is it and why? * Fears about OS and response * Open Data: what makes good Open Data in Biology? * Morning tea * Exercise: make a Data Management Plan for your own project * Report back, discussion * Open Methods and Code: why is this important and what are some ways to do this? * Exercise * Lunch * Report back, discussion * Exercise * Open Access Publishing * Exercise: discover your own OA publishing requirements * Open Training Materials * Open Training Materials: discussion * Afternoon tea * Exercise (with afternoon tea continuing) * Report back, discussion * Tips for open collaborative science * Summary and feedback * Wrap-up, thank-yous, goodbyes Michael Charleston Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions Research Theme Head of UTAS node of EMBL-ABR School of Physical 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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... and if you thought sequencing was all nice and accurate
by Michael Charleston 11 May '17

11 May '17

https://www.wired.com/2017/04/geneticists-fear-illuminas-sequencers-may-dis… Michael Charleston Associate Professor in Bioinformatics Co-director of Data, Knowledge and Decisions Research Theme Head of UTAS node of EMBL-ABR School of Physical 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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