From bathina.sekhar from gmail.com Mon Nov 3 01:33:46 2008 From: bathina.sekhar from gmail.com (bathina.sekhar@gmail.com) Date: Mon Nov 3 11:21:55 2008 Subject: [Bio-software] Re: CFP/Bursary Awards- eCheminfo Community of Practice InterAction Meeting/India 08 References: Message-ID: <4ff79cd1-9dec-4c0e-a965-4ac4b7609ee2@v22g2000pro.googlegroups.com> On Sep 11, 9:55 am, Robby wrote: > I am posting details for the eCheminfo Community of Practice > InterAction Meeting in December 2008 in Hyderabad, India.  Please note > that the deadline to apply for bursaries is September 19, 2008. > > Latest Advances in Drug Discovery Modelling & Informatics > > eCheminfo Community of Practice InterAction Meeting > December 19-20, 2008 > International Institute of Information Technology, Hyderabad, India > > Pre-Conference Workshop - Drug Discovery Design Methods & > Applications  (December 15 – 18) > > Conference Link:http://echeminfo.colayer.net/COMTY_hyderabadconference > > Themes: Cheminformatics, Bioinformatics, Medicinal Chemistry, Drug > Discovery Innovation, Structure-based Drug Design, Screening, Docking, > Structural Biology, Predictive Toxicology, Predictive ADME > > Conference Sessions: Biophysical Simulation Applications, Neglected > Diseases Applications, Drug Discovery Informatics, Predictive ADME/ > Toxicology > > We invite contributed papers from members of academic, government > research and commercial organizations on areas of new research and > innovation involving drug discovery research informatics. The work > presented should involve innovative new method development or > application to drug discovery problems and involving methods from > computational chemistry, computational biology, cheminformatics or > bioinformatics. Studies including experimental work in medicinal > chemistry, screening, experimental toxicology, pre-clinical > evaluation, lead optimisation and translational medicine are welcome. > > Abstracts (300-500 words) should be submitted to echeminfo -[at]- > douglasconnect.com by 19 September 2008, and be accompanied by a short > biography of the presenting author (300-500 words). Abstracts approved > by the scientific organizing committee will be selected for scheduling > on the conference program and in meeting poster sessions. Authors will > be notified of acceptance as soon as a review of submitted materials > takes place and at the latest by 30 September 2008. > > Bursary Awards > Bursary Awards will be used to support the attendance of a selection > of academic young investigators at the meeting. Applicants can be > working in any area of research related to drug discovery at the > postdoctoral, graduate student and senior undergraduate levels. > > To apply for the bursary please send an email with a) your abstract > and biography (300-500 words each), b) your CV of 1-2 pages, c) a > short description of your interests and career motivations related to > drug discovery (300-500 words) to echeminfo -[at]- douglasconnect.com > by 19 September 2008. The recipients of the bursary awards will be > selected based on an evaluation of the quality and innovation of the > described research and the potential positive impact of attendance at > the meeting on their research and career progress. Authors will be > notified of acceptance by 30 September 2008. > > Speakers > > *Conference Sessions:* > Biophysical Simulation Applications, chaired by V.N. Balaji (Jubilant > Biosys) > Neglected Diseases Applications, chaired by Avadhesha Surolia > (National Institute of Immunology) > Drug Discovery Informatics, chaired by G.R.Desiraju (University of > Hyderabad) > Predictive ADME/Toxicology, chaired by Kas Subramanian (Strand > Genomics) > > *Invited Speakers* include Chandra Verma (Bioinformatics Institute > A*STAR, Singapore), Sreedhar Rao (Ranbaxy), Chandrika B-Rao (Piramal > Life Sciences), Vellarkad N. Viswanadhan (Jubilant Biosys), R. > Narayanan (Tata Consultancy Services), Johann Gasteiger (Molecular > Networks, Germany), Jeff Wiseman (Locus Pharmaceuticals, USA), Indira > Ghosh (JNU, New Delhi, India), Barry Hardy (Douglas Connect, > Switzerland), Dhananjay Bhattacharyya (Saha Institute of Nuclear > Physics, India), Ismael Zamora (Pompeu Fabra University and Lead > Molecular Design, Spain) > > Scientific Advisory Board: > Johann Gasteiger, Molecular Networks, Germany; Barry Hardy, Douglas > Connect, Switzerland; Christoph Helma, inSilico Toxicology, Germany; > Anton Hopfinger, University of New Mexico, USA; Jeff Wiseman, Locus > Pharmaceuticals, USA; P.Balaram, IISC, India; Tanjore Balganesh, > AstraZeneca, India; D. Balasubramanian, L. V. Prasad Eye Institute, > India; M. K. Bhan, Secretary, DBT, India; Davinder S. Brar, GVK > Biosciences, India; Samir Brahmachari, Director General, CSIR, India; > Dr. Gowrishankar, CDFD, India; Seyed Hasnain, VC, HCU, India; Rajendra > Prasad, JNU, India; S. Purohit, CDAC, India; T. Ramasami, Secretary, > DST, India; Lalji Singh, CCMB, India; M. Vijayan, IISC, India; J. S. > Yadav, IICT, India; K. Lalitha, UoH, India; S. Mande, CDFD, India; Dr. > Narayanan, TCS, India; C.K. Mitra, UoH, India; J.A.R.P Sarma, GVK > Biosciences; R. Sankaranarayanan, CCMB; Narahari Sastry, IICT > > Pre-Conference Workshop - Drug Discovery Design Methods & > Applications  December (15 – 18) > Virtual screening, structure-based drug design, lead optimisation and > predictive ADME/toxicology supporting decision making in drug > discovery – a Hands-on eCheminfo Workshop > > Bursary award available > > Co-organised in Partnership by IIIT Hyderabad , JNU NewDelhi , > Seascape Learning, and Douglas Connect > December 15-18, 2008; IIIT Hyderabad, Hyderabad, India > facilitated by Barry Hardy > Work through in detail and discuss practical examples, methods and > emerging techniques with leading modelling experts! > Virtual Screening & Docking, Structure-based Drug Design, Ligand > Optimisation & Library Design > Structure Search, Similarity and Property Estimation, Data Mining, > Analysis & Visualisation, Pharmacophore Modelling for Lead > Identification, Fragment-based Drug Design, Predictive ADME, QSAR- > based Predictive Toxicology > Please visithttp://echeminfo.colayer.net/comty_hyderabadworkshop08 > > For further information and questions on the Conference program, > please contact Dr. Barry Hardy at: barry.hardy -[at]- > douglasconnect.com, Tel:  +41 61 851 0170 . For international > registrations, please contact Nicki Douglas, nicki.douglas –[at]- > douglasconnect.com, Tel:  +41 61 851 0461 > If you are located in India, please contact Sunil Chawla at: sunil - > [at] -seascapelearning.com, Tel:  +91 981 0305 923  or Om Prakash at > Tel: +91 971 7040 656  to complete your registration and payment in > Rs. For more information, please visithttp://seascapelearning.com/echeminfo_reg.html > > Rob Reedijk > eCheminfo Community of Practice Hi Robby i followed this link to get more info on the conference. it says that the event is in December 09 . is this correct as my assumption is that it is going to be in Dec 08. Pl clarfiy !!! i live in hyderabad and run a pre-clinical CRO by name Clintox Bioservices thanks sekhar From stevet from bio.fsu.edu Mon Nov 3 15:56:23 2008 From: stevet from bio.fsu.edu (Steve Thompson) Date: Mon Nov 3 16:40:18 2008 Subject: [Bio-software] Other: Re - GCG non-support In-Reply-To: <46B83135.7050107@ebi.ac.uk> References: <46B1AEA8.2040308@ebi.ac.uk><20070802081845.D3246@epsilon.bio.fsu.edu><46B2F2E3.4020305@ebi.ac.uk><20070803131050.H7747@epsilon.bio.fsu.edu><1186251135.996351.149470@g12g2000prg.googlegroups.com> <46B721F0.8050407@ebi.ac.uk> <7930EE6CD7CA354D93B444D0433C061103A8C70D@NIHCESMLBX6.nih.gov> <46B83135.7050107@ebi.ac.uk> Message-ID: <20081103121427.E74728@epsilon.bio.fsu.edu> Hi Peter - I'm picking back up on an old thread from summer 2007 re. the Acclerys GCG 'retirement.' Since that time several developments, only a few positive in my opinion, have clarified the situation. One - my online petition at www.petitiononline.com was very successful (http://bio.fsu.edu/~stevet/Accelrys_petition.pdf) in gathering signatures, almost 200 in a month, and in fostering international exposure, as the BioInform article from April 2008 attests (http://bio.fsu.edu/~stevet/BioInformGCG.pdf). But Accelrys remains committed to not releasing any GCG code, due to exhorbiant and without profit legal expense. So be it and understood - we tried. Two - Accelryrs did distirbute the 'perpetual' licenses to all valid license holders that were entitled to it, as I announced in this forum April 2008, and they worked great, even across multiple nodes in a cluster. Thany you Accelrys. However . . . Three - We (FSU) upgraded our Linux cluster that supports GCG and many other bioinformatics tools to CentOS version 5. Unfortunately, almost half of the GCG package now fails due to unresolvable library conflicts (as I warned would happen - unfortunately sooner than I had hoped). Our systems operations folk initially thought they could fix this but the solution has remained ellusive. The affected programs are all the oldest 'legacy' programs in the package, although some longtime GCG pragrams like Pearson's FastA package remain viable. Four - SeqLab continues to operate just fine, but without access to many of the analytic tools of the package, its usefullness is quite impacted, though I still think it's one of the best multiple sequence alignment editors around. This is where you come back in Peter. It may seem odd to ask, but the need is actually larger now that so much of the package no longer works in an Enterprise (or CentOS) Linux version 5 environment. I'm sure that I am not alone in this situation. So here goes - I've asked it many time before, and I've begun to do the work myself starting with PlotCon, but has anybody built SeqLab extension configuration files to launch EMBOSS programs? Cheers - Steve Steven M. Thompson A C T G stevet@bio.fsu.edu \-/ http://bio.fsu.edu/~stevet/cv.html /\ /--| FSU SCS / BioInfo 4U /---/ |--/ Florida State University School of \-/ Computational Science /\ /--\ 1st floor DIRAC 150G |---\ Tallahassee, Florida \---\ 32306-4120 \--| 850-644-4490 \-/ /\ 2538 Winnwood Circle /--\ Valdosta, Georgia /---| 31601-7953 |--/ 229-249-9751 From Rowley.Fearon from za.nampak.com Thu Nov 6 04:55:01 2008 From: Rowley.Fearon from za.nampak.com (Rowley.Fearon@za.nampak.com) Date: Thu Nov 6 11:22:56 2008 Subject: [Bio-software] method validator software Message-ID: <664833B015403F41BD36E03D16A66C740BA5E5@MSG3-ZAJNB01.acacia.nampak.com> Hi, I have personally used your free "Method Validation Software" for a couple of years until my hard drive crashed. Would it be possible to send me a copy of your "Method Validation Software" even if it is the old version? Thanking you in anticipation Kind Regards, Rowland Fearon Quantity is what you can count. Quality is what you can count on. Quality is a journey not a destination ________________________________ Rowland Fearon Divisional Quality Manager - Nampak DivFood Tel : +27 11 249 5422 Fax : +27 11 249 5341 Cell : +27 83 635-7777 E-mail : Rowland.Fearon@za.nampak.com _________________________________________ "Privileged or confidential information may be contained in this message. If you are not the addressee indicated in this message you may not copy or deliver this message to anyone. In such case, you should destroy this message and kindly notify the sender by reply e-mail. Opinions, conclusions and other information in this message that do not relate to the official business of the Nampak Group of Companies are neither given nor endorsed by it." Privileged or confidential information may be contained in this message. If you are not the addressee indicated in this message you may not copy or deliver this message to anyone. In such case, you should destroy this message and kindly notify the sender by reply e-mail. Opinions, conclusions and other information in this message that do not relate to the official business of the Nampak Group of Companies are neither given nor endorsed by it. From glennskii from gmail.com Tue Nov 11 14:17:14 2008 From: glennskii from gmail.com (Glenn Meyer) Date: Tue Nov 11 17:05:29 2008 Subject: [Bio-software] inbreeding coeffient calculation Message-ID: <23586b490811111117m69e1ba25x3d3aa4478af23241@mail.gmail.com> hello, i ran into a posting of yours on the net concerning inbreeding coeficiants. you were asking about an algorythm. did you accomplish what you set out to do? i am a major contributor to data on this php site about the whippet dog-breed's geneology. www.thewhippetarchives.net we already have over 60,000 whippets in the system and the database continues to grow. i live in Poland (but i'm origianally from the states), and the founder of this site is from Austria. She and I would really like to add an inbreeding coefficient calculator to this site. The site is programmed in PHP. She has been working on this but still seems to have not figured it out completely yet. do you maybe know who we should talk to about help? thanks, glenn -- ++++++ glennSKii Meyer +++++++ +++++++ Sopot, Poland ++++++++ +++++++ gadu:2607637 ++++++++ ++++++ Skype: glennskii +++++++ www.glennskii.fan.pl www.theglennskiis.com www.automatik.fan.pl www.myspace.com/glennskii www.myspace.com/mcglennskii www.youtube.com/glennskii www.myspace.com/zywesrody http://glennskii.digart.pl http://community.webshots.com/user/glennskii www.myspace.com/monkeyfunks