- beg-sysbiol@psb.ugent.be - maillist.psb.ugent.be

[Beg-sysbiol] (no subject)
by Greg Amoutzias 27 Oct '08

27 Oct '08

http://news.bbc.co.uk/2/hi/europe/7693386.stm

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[Beg-sysbiol] thursday
by vamei＠psb.ugent.be 22 Oct '08

22 Oct '08

Hi guys, tomorrow I have to attend a PhD evaluation at the Faculty of Bioscience Engineering. Most likely I will work at home after this meeting. Vanessa

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[Beg-sysbiol] @home
by Eric Bonnet 16 Oct '08

16 Oct '08

hi there, kids are sick, so i'll stay at home this morning. cu guys.

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[Beg-sysbiol] Ig-Nobel prizes 2008
by Greg Amoutzias 03 Oct '08

03 Oct '08

http://news.bbc.co.uk/2/hi/science/nature/7650103.stm --- Greg Amoutzias, Ph.D VIB Department of Plant Systems Biology, UGent Ghent University Technologiepark 927 B-9052 Ghent Belgium Phone: +32 (0)9 331 3758 Fax: +32 (0)9 331 3809 email: gramo(a)psb.ugent.be

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[Beg-sysbiol] papers
by Eric Bonnet 29 Sep '08

29 Sep '08

might be of interest to have a look at those papers: http://www.bio-itworld.com/pb/2008/09/25/gbm-vogelstein.html

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[Beg-sysbiol] For those interested ... Eric (for sure) and Tom and ...
by Yves Van de Peer 25 Sep '08

25 Sep '08

-------- Original Message -------- Subject: RE: Your availability for a meeting (2 hours) on 28 November Date: Thu, 25 Sep 2008 20:51:31 +0200 From: Hilde Govaert <Hilde.Govaert(a)med.kuleuven.be> To: 'Yves Van de Peer' <yves.vandepeer(a)psb.ugent.be> References: <999AE4C8BE3F49DF9617D708277FE883(a)med.ad10.intern.kuleuven.ac.be> <48DBA67C.1010408(a)psb.ugent.be> Geachte professor, Dat is geen enkel probleem. Uw postdocs zijn eveneens welkom. Ik heb er intussen ook even de uurregeling van de treinen bijgenomen. U zou de trein van 8u57 in Gent St Pieters kunnen nemen. Deze komt aan in Leuven om 10u. Normaalgezien bent u dan tegen 10u30 op campus Gasthuisberg, hetzij per bus, hetzij per taxi. Ik stel daarom voor om de vergadering te laten starten rond 10u30. Kan u me bevestigen dat dit in orde is voor u? Dan reserveer ik een vergaderzaal en informeer ik de anderen. Dank en vriendelijke groet, Hilde -----Original Message----- From: Yves Van de Peer [mailto:yves.vandepeer@psb.ugent.be] Sent: donderdag 25 september 2008 16:56 To: Hilde Govaert Cc: 'Stein Aerts'; 'Wim Mandemakers'; 'Sébastien Hébert'; Smaragda Papadopoulou; 'Jos Tournoy'; Yves Van de Peer Subject: Re: Your availability for a meeting (2 hours) on 28 November Hilde Govaert wrote: > > Dear all, > > Gwendoline Degueurce is a candidate for a PhD-position. She will visit > Bart De Strooper in Leuven on Friday, 28 November. > > Bart asked me to arrange a meeting of 2 hours with Gwendoline and all > of you that day, to discuss a bioinformatics project on microRNA for > Gwendoline. > > Could you please inform me about your availability on 28 Nov. 2008 for > a meeting in Leuven at Campus Gasthuisberg? > > Thank you for your response. > Kind regards, > > Hilde > > > > Disclaimer: http://www.kuleuven.be/cwis/email_disclaimer.htm for more > information. > Fine with me (not too early please, I have to come by train). Yves PS. Would it be ok if I bring one or two postdocs? -- Yves Van de Peer, PhD. Professor in Bioinformatics and Genome Biology Group Leader Bioinformatics and Evolutionary Genomics VIB Department of Plant Systems Biology, UGent Ghent University Technologiepark 927 B-9052 Ghent Belgium Phone: +32 (0)9 331 3807 Cell Phone: +32 (0)476 560 091 Fax: +32 (0)9 331 3809 email: yves.vandepeer(a)psb.ugent.be http://bioinformatics.psb.ugent.be/ Disclaimer: http://www.kuleuven.be/cwis/email_disclaimer.htm -- Yves Van de Peer, PhD. Professor in Bioinformatics and Genome Biology Group Leader Bioinformatics and Evolutionary Genomics VIB Department of Plant Systems Biology, UGent Ghent University Technologiepark 927 B-9052 Ghent Belgium Phone: +32 (0)9 331 3807 Cell Phone: +32 (0)476 560 091 Fax: +32 (0)9 331 3809 email: yves.vandepeer(a)psb.ugent.be http://bioinformatics.psb.ugent.be/

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[Beg-sysbiol] Re: Hardware requerements
by Eric Bonnet 25 Sep '08

25 Sep '08

I would suggest to: 1/ replace the oldest IBM blade chassis (14 servers) with a brand new one. As we are using double-core cpus now, this would anyway increase the total number of cores available in the cluster. 2/ Buy an extra tornado-like machine (32 Gb RAM), especially useful for the sysbiol group, who is growing quite rapidly now.. Eric Kenny Billiau wrote: > Hi, > > IT has to compile a list of possible hardware requirements for our group. > > If we need more servers with more memory, an internal webserver, > personal development servers, dedicated blast servers, a bigger cluster, > more storage, regular backups, distributed ***** servers.. Tell us :) > > Or if you feel some systems are not up to our requirements and could use > more RAM, a bigger harddrive, more intuitive filesystem mappings, more > support, more or bigger monitors, laptops for everyone, etc .. Tell us ;) > > If you have any suggestions, improvements or demands you can send them > to Thpar and me. > > -Kenny >

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[Beg-sysbiol] at home this morning
by Vanessa Vermeirssen 23 Sep '08

23 Sep '08

Hi, Sien is still ill, so I will be working at home this morning. I will see you at lunch meeting. Vanessa

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[Beg-sysbiol] data integration paper C. elegans
by Vanessa Vermeirssen 19 Sep '08

19 Sep '08

This is the paper I was talking about... Vanessa Nat Genet. <javascript:AL_get(this, 'jour', 'Nat Genet.');> 2008 Feb;40(2):181-8. Epub 2008 Jan 27.Click here to read <http://www.ncbi.nlm.nih.gov/entrez/utils/fref.fcgi?PrId=3094&itool=Abstract…> Links <javascript:PopUpMenu2_Set(Menu18223650);> A single gene network accurately predicts phenotypic effects of gene perturbation in Caenorhabditis elegans. *Lee I* <http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Lee%2…>, *Lehner B* <http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Lehne…>, *Crombie C* <http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Cromb…>, *Wong W* <http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Wong%…>, *Fraser AG* <http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Frase…>, *Marcotte EM* <http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Marco…>. Center for Systems and Synthetic Biology, Department of Chemistry and Biochemistry, Institute for Cellular and Molecular Biology, University of Texas, 2500 Speedway, MBB 3.210, Austin, Texas 78712, USA. The fundamental aim of genetics is to understand how an organism's phenotype is determined by its genotype, and implicit in this is predicting how changes in DNA sequence alter phenotypes. A single network covering all the genes of an organism might guide such predictions down to the level of individual cells and tissues. To validate this approach, we computationally generated a network covering most C. elegans genes and tested its predictive capacity. Connectivity within this network predicts essentiality, identifying this relationship as an evolutionarily conserved biological principle. Critically, the network makes tissue-specific predictions-we accurately identify genes for most systematically assayed loss-of-function phenotypes, which span diverse cellular and developmental processes. Using the network, we identify 16 genes whose inactivation suppresses defects in the retinoblastoma tumor suppressor pathway, and we successfully predict that the dystrophin complex modulates EGF signaling. We conclude that an analogous network for human genes might be similarly predictive and thus facilitate identification of disease genes and rational therapeutic targets. -- ================================================================== Vanessa Vermeirssen, PhD Tel:+32 (0)9 331 38 10 fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, Ghent University Technologiepark 927, 9052 Gent, BELGIUM vamei(a)psb.ugent.be http://www.psb.ugent.be ==================================================================

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[Fwd: [Beg-sysbiol] is this something we can help with?]
by Nathalie Pochet 15 Sep '08

15 Sep '08

more info about the meeting...

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