geuvadis_exome

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[Geuvadis_exome] GEUVADIS - Summer annoucements

by Gabrielle Anne Bertier

Dear all, here are a few announcements for the summer: 1) Report I uploaded and officially sent the new version of the mid-term report to the EC. Let's see if they accept it this time ! 2) Annual Meeting -As you know, our next Annual Meeting will take place in Santiago de Compostela on October 29-31. All information is now available on the dedicated page<http://www.geuvadis.org/group/geuvadis/annual-meeting-2011> of our intranet. Don't forget to register here<https://docs.google.com/spreadsheet/viewform?formkey=dEpnY0h6Y2Z3Y291dFhvRz…> before the end of the month. Note that all labs should be represented by at least one person. - Please note that we will have two Special attendees to our meeting and workshop: - Pui-Yan Kwok (USF) as our Scientific Advisor - Patrik Kolar, head of the personalized medicine unit at the Health directorate of the EC. - We are setting up the workshop on day 2 and 3 of the annual meeting on the following theme: Exome seq data storage, sharing and analysis: from National to European standards. To collect quantitative and qualitative data on NGS data use in Europe, we have set up a survey (word file attached), to be distributed to a maximum of institutions using NGS for research/clinical purposes. We plan to distribute this survey before the end of the month, so please let me know if you have any comment on the content, and if you want access to the online version to have an idea of the format. 3) Events announcements - GEUVADIS/ENGAGE Course announcement, to be passed on to your labs: With sponsoring from the ENGAGE and GEUVADIS consortia, partners EBI and LUMC are organizing a course on RNA-seq data analysis for participants from both EU consortia. The course will be held from December 4-6, 2012 at the EBI campus, in Hinxton, UK. It involves a three-day program with lectures and many hands-on sessions covering the following topics: introduction to RNA-seq technology, quality assessment, alignment tools, statistical analysis of differential expression, eQTL analysis, miRNA-seq and archiving of RNA-seq data. For a full program and speakers, please visit the website: http://www.ebi.ac.uk/training/onsite/121204_ENGAGE.html The course is aimed at PhD students and postdocs that have familiarity with the technology and the biological use cases of high throughput sequencing . Experience in R is desirable. Registration costs including housing and meals are £150. You can register here: http://www.ebi.ac.uk/training/events/121204_Engage.html - ENGAGE Workshop announcement, to be passed on to your labs: We are organizing a scientific conference "From Genetic Discovery to Future Health" as a closure highlight for our EU-funded project the 'European Network for Genetic and Genomic Epidemiology' (ENGAGE Consortium, website: www.euengage.org<http://www.euengage.org/>) to be held on November 15th, 2012 in Rotterdam, the Netherlands. This scientific conference is open to the wider scientific community with aims to (a) share ENGAGE experiences through presenting the project results and (b) involve leaders from related fields in dialogue to maximise the translational opportunities afforded by basic science discovery. Please find attached the conference flyer for details. The participation is free of charge but registration is required prior to the deadline. - Note that I will be out of office until the August 20th, and then from August 31st to September 12th. I wish you a very nice summer, Kind regards, Gabrielle Gabrielle Bertier Scientific Project Manager International and Scientific Affairs CRG, Center for Genomic Regulation Carrer Dr. Aiguader, 88 08003 Barcelona, España Tel: +34933160374 Mobile: +34639960656 email: gabrielle.bertier(a)crg.es<mailto:gabrielle.bertier@crg.es> web: www.geuvadis.eu; www.fliact.eu

12 years, 1 month

[Geuvadis_exome] FYI: Registration - GEUVADIS AM 2012: 29-31/10/2012 - Santiago de Compostela

by Gabrielle Anne Bertier

FYI - Here is the information for the GEUVADIS Annual Meeting during which the results of all project WP will be presented. Kind regards, Gabrielle From: Gabrielle Anne Bertier Subject: Registration - GEUVADIS AM 2012: 29-31/10/2012 - Santiago de Compostela Dear all, Please find here the registration form<https://docs.google.com/spreadsheet/viewform?formkey=dEpnY0h6Y2Z3Y291dFhvRz…> for our next Annual Meeting; to be filled in before August 31st 2012. Here is a draft programme for the meeting: GEUVADIS Annual Meeting 2 - Santiago de Compostela - 29-31 October 2012 Sunday 28 October - 20:00 - Welcome dinner Monday 29 October - 09:00 - 18:00 - GEUVADIS Annual Meeting, WP updates and feedback from SAB. Tuesday 30 October - 09:00 - Wednesday 31 October -13:00 Workshop: Exome sequencing data storage, sharing and analysis: from National to European standards. If you want to be involved in the organization of this workshop, or suggest speakers please let me know. Let me know if anything remains unclear, Kind regards, Gabrielle PS: registration form full link: https://docs.google.com/spreadsheet/viewform?formkey=dEpnY0h6Y2Z3Y291dFhvRz…<https://docs.google.com/spreadsheet/viewform?formkey=dEpnY0h6Y2Z3Y291dFhvRz…> Gabrielle Bertier Scientific Project Manager International Collaboration Office CRG, Center for Genomic Regulation Carrer Dr. Aiguader, 88 08003 Barcelona, España Tel: +34933160374 Mobile: +34639960656 email: gabrielle.bertier(a)crg.es<mailto:gabrielle.bertier@crg.es> web: www.geuvadis.eu

12 years, 2 months

[Geuvadis_exome] GEUVADIS Action Points

by Gabrielle Anne Bertier

Dear all, You'll find attached a series of Action Points that stemmed out of our lively discussions during the Annual Meeting. Note that the slides of all presentations are accessible from our website intranet in the 'Documents - Annual Meeting 2011 Toulouse' section. Don't hesitate to contact me in case of any doubt, Kind regards, Gabrielle Gabrielle Bertier Scientific Project Manager International Collaboration Office CRG, Center for Genomic Regulation Carrer Dr. Aiguader, 88 08003 Barcelona, España Tel: +34933160374 Mobile: +34639960656 email: gabrielle.bertier(a)crg.es<mailto:gabrielle.bertier@crg.es> web: www.geuvadis.eu

12 years, 9 months

[Geuvadis_exome] GEUVADIS Annual Meeting final Guide and Interim Report

by Gabrielle Anne Bertier

Dear all, You'll find attached the final guide for the Annual Meeting, including the agenda and all useful information for attendees. I also attach the finalised Interim Report which was sent to our Scientific Advisory Board as well as to our EU project Officer. For any enquiry please don't hesitate to contact me, Looking forward to see you in Toulouse for those who'll be there, Kind regards, Gabrielle Gabrielle Bertier Scientific Project Manager International Collaboration Office CRG, Center for Genomic Regulation Carrer Dr. Aiguader, 88 08003 Barcelona, España Tel: +34933160374 Mobile: +34639960656 email: gabrielle.bertier(a)crg.es<mailto:gabrielle.bertier@crg.es> web: www.geuvadis.eu

12 years, 9 months

[Geuvadis_exome] Geuvadis, comments on QC parameters wanted

by Mathias Brännvall

Dear Geuvadis partners, I have here attached the draft for the survey of sequence data quality control in WP2 (D2.2/T2.1) . It covers parameters that we (Uppsala) have identified ourselves and now we would like to have input from all of you to see if there are more things that should be included and/or if there are questions that are not clear. So, I kindly ask each partner to go through the survey and give any feedback to me before *7 November*. Please note that you don't have to answer /*all*/ the questions now, just the questions: i) ; ii) and 44 since the survey will be circulated at a later stage for D2.2. This information is also in the survey so please feel free to send it to the person in your organisation you see fit. Thank you in advance and best regards Mathias -- _____________________________________________ Mathias Brännvall, PhD Project coordinator Dept. of Medical Sciences, sect. Molecular Medicine, Uppsala University phone:+46-18-6114934 e-mail: Mathias.Brannvall(a)medsci.uu.se

12 years, 10 months

[Geuvadis_exome] RE : GEUVADIS Annual Meeting: Call for abstracts

by Gabrielle Anne Bertier

Dear all, Here is the right link for the abstract submission: https://docs.google.com/spreadsheet/viewform?formkey=dGlKMEtmVDFSenFwU2dKN2… Thanks very much Terry for pointing this out, and sorry for the mistake. Best, Gabrielle. ________________________________________ De : Gabrielle Anne Bertier Date d'envoi : vendredi 7 octobre 2011 13:10 À : geuvadis_partners(a)lists.crg.es Cc : geuvadis_rnaseq(a)lists.crg.es; geuvadis_exome(a)lists.crg.es; geuvadis_wpl(a)lists.crg.es Objet : GEUVADIS Annual Meeting: Call for abstracts Dear all, As the date for our first Annual Meeting is approaching, please find below important information regarding its organisation: 1. Registration: Please complete the registration form<https://docs.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0RzhCSkR0aG…> before next Monday October 10th. 2. Interim Report: As decided by the Management Committee, all PIs should prepare a very short scientific and financial report to be submitted to the SAB and the EU Officer. You'll receive a specific email with instructions. 3. Call for abstracts: The Management Committee has decided to open a call for abstracts<https://spreadsheets.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0Rz…> for the Meeting. This call is open to the whole GEUVADIS community. The 2 best abstracts will be selected for oral presentation on 28th November afternoon. The 5 next ones will be selected for posters presentation. Abstracts submission deadline: Sunday October 30th. 4. Presentations and posters: a. All WPL should prepare a 20 mins presentation highlighting main results from the project. b. All posters made quoting GEUVADIS should be brought to the Meeting. 5. Practical information: all the information is accessible on our intranet dedicated page. Please don't hesitate to let me know if you have troubles entering the intranet. Information on accommodation will be delivered next week, after the registration deadline For any enquiry please let me know. Kind regards, Gabrielle --> Registration form full link: https://docs.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0RzhCSkR0aG… --> Abstract submission full link: https://spreadsheets.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0Rz… Gabrielle Bertier Scientific Project Manager International Collaboration Office CRG, Center for Genomic Regulation Carrer Dr. Aiguader, 88 08003 Barcelona, España Tel: +34933160374 Mobile: +34639960656 email: gabrielle.bertier(a)crg.es<mailto:gabrielle.bertier@crg.es> web: www.geuvadis.eu

12 years, 11 months

[Geuvadis_exome] GEUVADIS Annual Meeting: Call for abstracts

by Gabrielle Anne Bertier

Dear all, As the date for our first Annual Meeting is approaching, please find below important information regarding its organisation: 1. Registration: Please complete the registration form<https://docs.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0RzhCSkR0aG…> before next Monday October 10th. 2. Interim Report: As decided by the Management Committee, all PIs should prepare a very short scientific and financial report to be submitted to the SAB and the EU Officer. You'll receive a specific email with instructions. 3. Call for abstracts: The Management Committee has decided to open a call for abstracts<https://spreadsheets.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0Rz…> for the Meeting. This call is open to the whole GEUVADIS community. The 2 best abstracts will be selected for oral presentation on 28th November afternoon. The 5 next ones will be selected for posters presentation. Abstracts submission deadline: Sunday October 30th. 4. Presentations and posters: a. All WPL should prepare a 20 mins presentation highlighting main results from the project. b. All posters made quoting GEUVADIS should be brought to the Meeting. 5. Practical information: all the information is accessible on our intranet dedicated page. Please don't hesitate to let me know if you have troubles entering the intranet. Information on accommodation will be delivered next week, after the registration deadline For any enquiry please let me know. Kind regards, Gabrielle --> Registration form full link: https://docs.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0RzhCSkR0aG… --> Abstract submission full link: https://spreadsheets.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0Rz… Gabrielle Bertier Scientific Project Manager International Collaboration Office CRG, Center for Genomic Regulation Carrer Dr. Aiguader, 88 08003 Barcelona, España Tel: +34933160374 Mobile: +34639960656 email: gabrielle.bertier(a)crg.es<mailto:gabrielle.bertier@crg.es> web: www.geuvadis.eu

12 years, 11 months

[Geuvadis_exome] TC Minutes and important deadlines

by Gabrielle Anne Bertier

Dear all, You will find attached the last WPL TC Minutes. Comments are welcome. Action points: - Annual Meeting: 29.11 morning Workshop on Medical NGS. -Thomas Meitinger- Suggestions of External Speakers can be made until the end of August. (Leena Peltonen School 21-25 August 2011) - WP5: Plan -Parkinson's disease and mental retardation- has to be shaped before the annual meeting and finalised in Toulouse. Because of the summer holidays, some WPL could not attend the TC. Manolis, Alvis, could you give us a short update on your WP ? Please remember that we have several Deliverables due in November: Nov. 2011 D1.3 Geuvadis Website Evaluation CRG Please fill in the survey<https://spreadsheets.google.com/spreadsheet/viewform?hl=en_US&formkey=dDlPd…> before September 19th 2011 Nov. 2011 D1.4 Communication CRG Develop a transparent communication strategy. Nov. 2011 D2.1 Quality Control of Sequence Data UU Definition of standards for quality control of sequence data Nov. 2011 D4.1 Database for RNAseq pilot ptoject UNIGE Nov. 2011 D5.1 Database for Exomeseq pilot ptoject HMGU Nov. 2011 D6.1 Documentation Inserm Relevant documentation for European Commission and internal ELSI policy established Nov. 2011 D6.2 ELSI database Inserm ELSI Database: Database of ELSI experts and list of relevant ELSI initiatives and events As mentioned in the table, please be so kind as to fill in the survey<https://spreadsheets.google.com/spreadsheet/viewform?hl=en_US&formkey=dDlPd…> we've prepared to assess the use of our project website before September 19th 2011. https://spreadsheets.google.com/spreadsheet/viewform?hl=en_US&formkey=dDlPd… We also set up the registration page<https://spreadsheets.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0Rz…> for our next annual meeting in Toulouse. Please register as soon as possible and before October 10th 2011. You will also find this registration sheet as well as all useful information for the annual meeting on our intranet dedicated page. https://spreadsheets.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0Rz… For any question don't hesitate to contact me, I wish you a very nice summer ! Kind regards, Gabrielle Dealines Reminder: 2011 August September October November Deadline/ Action 21-25: Leena Peltonen School 19: Fill-in website survey<https://spreadsheets.google.com/spreadsheet/viewform?hl=en_US&formkey=dDlPd…> 10: Registration<https://spreadsheets.google.com/spreadsheet/viewform?formkey=dDFkdktiQ1Y0Rz…> for Annual Meeting 28-29: Annual Meeting 31: Suggestions of Ext. Speakers to T. Meitinger for 29.11 morning Workshop on Medical NGS. WP5 plan shaping 30: Deliverables: D1.3, D1.4, D2.1, D4.1, D5.1, D6.1, D6.2

13 years, 1 month

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