geuvadis_rna_analysis June 2012

geuvadis_rna_analysis@lists.crg.es

14 participants
17 discussions

[Geuvadis_rna_analysis] DEADLINE TODAY - GEUVADIS RNA Analysis Meeting 2: BARCELONA

by Gabrielle Anne Bertier

Gentle reminder Please register today ! Gabrielle Registration form full link: https://docs.google.com/spreadsheet/viewform?pli=1&formkey=dDFxZ2diT0hUVFhu… From: Gabrielle Anne Bertier Sent: 05 June, 2012 10:04 AM To: 'geuvadis_rna_analysis(a)lists.crg.es'; 'geuvadis_rnaseq(a)lists.crg.es' Cc: 'geuvadis_wpl(a)lists.crg.es'; Xavier Estivill; Michela Bertero; 'Tuuli Lappalainen'; Magali Bartomeus Cistare Subject: REMINDER: GEUVADIS RNA Analysis Meeting 2: BARCELONA Dear all, please remember to register for the meeting before this Friday ! Gabrielle Registration form full link: https://docs.google.com/spreadsheet/viewform?pli=1&formkey=dDFxZ2diT0hUVFhu… From: Gabrielle Anne Bertier Sent: 30 May, 2012 1:20 PM To: geuvadis_rna_analysis(a)lists.crg.es<mailto:geuvadis_rna_analysis@lists.crg.es>; geuvadis_rnaseq(a)lists.crg.es<mailto:geuvadis_rnaseq@lists.crg.es> Cc: geuvadis_wpl(a)lists.crg.es<mailto:geuvadis_wpl@lists.crg.es>; Xavier Estivill; Michela Bertero; 'Tuuli Lappalainen'; Magali Bartomeus Cistare Subject: GEUVADIS RNA Analysis Meeting 2: BARCELONA Dear all, Please find here the registration form<https://docs.google.com/spreadsheet/viewform?pli=1&formkey=dDFxZ2diT0hUVFhu…> for the 2nd GEUVADIS RNA analysis meeting; which will take place at the CRG in Barcelona; on:. Monday July 9th; from 12:00 to 17:00 Tuesday July 10th; from 09:00 to 16:00. A detail agenda will follow soon. Please forward this to any relevant person in your lab. Registration deadline: 8th June 2012 The hotel has to be paid from your own GEUVADIS budget. We have pre-booked 30 hotel rooms for the 9th of July near the CRG; in: Hotel H10 Marina<http://www.hotelh10marinabarcelona.com/en/index.html> Hotel H4<http://www.besthotelscities.com/hotel4barcelona/index.php> If you want to stay for more nights, or in a different hotel please tick the according box in the registration form, and we'll provide you with hotel suggestions. Registration form full link: https://docs.google.com/spreadsheet/viewform?pli=1&formkey=dDFxZ2diT0hUVFhu… Don't hesitate to contact me in case you have any question, 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, 4 months

[Geuvadis_rna_analysis] transcript quantifications available

by Tuuli Lappalainen

Hello, Geuvadis mRNA transcript quantifications from flux are now available in: /upload/geuvadis/wp4_rnaseq/main_project/analysis_data/quantification/transcript There are both individual gtf files, and tab-separated tables of reads and rpkms in all the samples. best regards, Tuuli -- Tuuli Lappalainen, PhD Department of Genetic Medicine and Development University of Geneva Medical School CMU / Rue Michel-Servet 1 1211 Geneva 4 Switzerland Tel. +41-(0)22-3795550 tuuli.lappalainen(a)unige.ch

12 years, 4 months

[Geuvadis_rna_analysis] data needed for analysis

by Tuuli Lappalainen

Dear all, Something that I'd like you think/discuss a bit in advance before the Geuvadis analysis call today: Are there data, resources, or general information that are still lacking and that you(r group) needs in order to proceed with the analysis that you have planned? We'll discuss on the call how and when we'll be able to have everything set for people to work on their analysis. best regards, Tuuli -- Tuuli Lappalainen, PhD Department of Genetic Medicine and Development University of Geneva Medical School CMU / Rue Michel-Servet 1 1211 Geneva 4 Switzerland Tel. +41-(0)22-3795550 tuuli.lappalainen(a)unige.ch

12 years, 4 months

[Geuvadis_rna_analysis] REMINDER: GEUVADIS RNA Analysis Meeting 2: BARCELONA

by Gabrielle Anne Bertier

Dear all, please remember to register for the meeting before this Friday ! Gabrielle Registration form full link: https://docs.google.com/spreadsheet/viewform?pli=1&formkey=dDFxZ2diT0hUVFhu… From: Gabrielle Anne Bertier Sent: 30 May, 2012 1:20 PM To: geuvadis_rna_analysis(a)lists.crg.es; geuvadis_rnaseq(a)lists.crg.es Cc: geuvadis_wpl(a)lists.crg.es; Xavier Estivill; Michela Bertero; 'Tuuli Lappalainen'; Magali Bartomeus Cistare Subject: GEUVADIS RNA Analysis Meeting 2: BARCELONA Dear all, Please find here the registration form<https://docs.google.com/spreadsheet/viewform?pli=1&formkey=dDFxZ2diT0hUVFhu…> for the 2nd GEUVADIS RNA analysis meeting; which will take place at the CRG in Barcelona; on:. Monday July 9th; from 12:00 to 17:00 Tuesday July 10th; from 09:00 to 16:00. A detail agenda will follow soon. Please forward this to any relevant person in your lab. Registration deadline: 8th June 2012 The hotel has to be paid from your own GEUVADIS budget. We have pre-booked 30 hotel rooms for the 9th of July near the CRG; in: Hotel H10 Marina<http://www.hotelh10marinabarcelona.com/en/index.html> Hotel H4<http://www.besthotelscities.com/hotel4barcelona/index.php> If you want to stay for more nights, or in a different hotel please tick the according box in the registration form, and we'll provide you with hotel suggestions. Registration form full link: https://docs.google.com/spreadsheet/viewform?pli=1&formkey=dDFxZ2diT0hUVFhu… Don't hesitate to contact me in case you have any question, 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, 4 months

[Geuvadis_rna_analysis] miRNA sequencing

by Daniela Esser

Dear all, The sequencing of the miRNA is finished in Kiel and the fastq files are now available for download in /upload/geuvadis/wp4_rnaseq/main_project/sequence_data/fastq/mirna/ best regards Daniela -- Daniela Esser Institute of Clinical Molecular Biology Christian Albrechts University Kiel Schittenhelmstr. 12 D-24105 Kiel, Germany d.esser(a)ikmb.uni-kiel.de office: +49 - (0)431-5978681

12 years, 4 months

[Geuvadis_rna_analysis] Re : [Geuvadis_rnaseq] Geuvadis LoF abstract for ASHG

by Tuuli Emilia LAPPALAINEN

Hello all, After some thought we've decided to add a couple of names to the author list of the LoF abstract. Our initial author list included people who are contributing specifically to LoF analysis, Natalja and Thasso for processing of the entire dataset, and the PIs and the Geuvadis Consortium representing the data. But it's fair to include one analysis person from all the labs on behalf of the data production, so we added Marc, Matthias, Olof, and Monkol from Daniel's lab. Thus, the latest version of the author list is the following: Manuel A Rivas, Tuuli Lappalainen, Michael Sammeth, Daniel MacArthur, Natalja Kurbatova, Thomas Wieland, Monkol Lek, Thasso Griebel, Matthias Barann, Marc Sultan, Olof Karlberg, Peter AC ‘t Hoen, Tim Strom, Stefan Schreiber, Hans Lehrach, Stylianos Antonarakis, Gert-Jan van Ommen, Ralf Sudbrak, Robert Häsler, Alvis Brazma, Ann-Christine Syvanen, Philip Rosenstiel, Thomas Meitinger, Roderic Guigo, Ivo Gut, Xavier Estivill, Mark McCarthy, Emmanouil T Dermitzakis, The Geuvadis Consortium best regards, Tuuli Le 01-06-12, Manuel Rivas <rivas(a)broadinstitute.org> a écrit : > Hello, > > Attached is an abstract that I am planning to submit on behalf of the project on loss of variants and their effect on the transcriptome. Please do send any comments you may have by Monday, June 4th. > > > > > Best Regards, > Manuel Rivas > > >

12 years, 4 months

[Geuvadis_rna_analysis] Geuvadis LoF abstract for ASHG

by Manuel Rivas

Hello, Attached is an abstract that I am planning to submit on behalf of the project on loss of variants and their effect on the transcriptome. Please do send any comments you may have by Monday, June 4th. Best Regards, Manuel Rivas

12 years, 4 months

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geuvadis_rna_analysis June 2012