From CSteffens at hess.com Fri Jun 1 12:49:31 2001 From: CSteffens at hess.com (Steffens, Clark) Date: Fri, 1 Jun 2001 11:49:31 -0500 Subject: [BiO BB] Job opportunities??? Message-ID: Does anyone know if there are any Bioinformatics companies in Houston? And also, what kinds of work do you do there? I have only had one year in the major and I still can't really figure out exactly what the career entails. Thanks, Clark Steffens From pbvanden at colby.edu Sat Jun 2 14:03:32 2001 From: pbvanden at colby.edu (Pierre Vanden Borre) Date: Sat, 2 Jun 2001 14:03:32 -0400 Subject: [BiO BB] Bio Undergrad Message-ID: I am a recent graduate with a molecular bio/biochem major and mathematics minor interested in the bioinformatics field. Having searched the internet for jobs, I have found that I would have been more employable if I had majored in computer science. My CS experience is limited to Java and HTML. I would like to learn Perl and other relevant languages but I am not sure how to do this. I could take programming training classes, but I would still lack experience with the application of what I have learned. I was wondering if anyone might have been in the same situation (only BS bio background) or if anyone has some advice that would help me plan my course of action. Thanks, Pierre From jchang at SMI.Stanford.EDU Sat Jun 2 14:26:56 2001 From: jchang at SMI.Stanford.EDU (Jeffrey Chang) Date: Sat, 02 Jun 2001 11:26:56 -0700 Subject: [BiO BB] Bio Undergrad In-Reply-To: Message-ID: Hi Pierre, > I am a recent graduate with a molecular bio/biochem major and mathematics > minor interested in the bioinformatics field. Having searched the internet > for jobs, I have found that I would have been more employable if I had > majored in computer science. That really depends on what you want to do. If you want to build tools for biology, then that's definitely true. You should beef up your background on tools of the trade such as perl, python, databases, ... However, if you want to do more algorithm development, your math background makes you extremely qualified for that. However, for this kind of work, you will almost certainly need a Ph.D., and should be looking to graduate programs. There are now many very good programs that can get you what you want, but that's the subject of another email. Jeff From dhillon_rs at rediffmail.com Mon Jun 11 15:54:19 2001 From: dhillon_rs at rediffmail.com (Rupendra Singh Dhillon) Date: 11 Jun 2001 19:54:19 -0000 Subject: [BiO BB] Please suggest me on what course should I join and where can I find that course. Message-ID: <20010611195419.31519.qmail@mailweb9.rediffmail.com> Hi all, I am to complete my bachelors in computer science this year. After this I want to go into a feild relater to biology and computers ( in terms of making bio-electronic interfaces, using/making biological components for enhanced computing e.g. making biological storage devices etc. ) I will be going for a masters soon. Moreover I also have a biology background since I had medicine during schooling. Previously I had bioinformatics in mind and hence I came apon bioinformatics.org and joined. After that I think ( if I am wrong please correct me since I have no detailed knowledge about this feild ) that bioinformatics is about using structures and mechanisms from the feild of biology to manage information in computer based systems. And so I think this is not the feild I want to go into. Please suggest me on what course should I join and where can I find that course. Rupendra Dhillon _____________________________________________________ Chat with your friends as soon as they come online. Get Rediff Bol at http://bol.rediff.com From varshney99 at yahoo.com Tue Jun 12 00:49:22 2001 From: varshney99 at yahoo.com (=?iso-8859-1?q?Varshney=20Gaurav=20K.?=) Date: Tue, 12 Jun 2001 05:49:22 +0100 (BST) Subject: [BiO BB] welcome at www.ebioinfogen.com Message-ID: <20010612044922.78976.qmail@web12302.mail.yahoo.com> Dear Researcher, eBioinfogen Innovatives, a budding Bioinformatics solution provider proud to be launch its new portal "eBioinfogen.com: A Biological Web Resources Navigator". The URL of this portal is http://www.ebioinfogen.com .You can access: 1. Pub med/Medline search, TOC for thousand of journals, Article finder, Impact factors etc. 2. Protocols (More than thousand protocols, divided into different categories and subcategories) 3. Build your own website, get 20 MB space for "http:// yourname.ebioinfogen.com." (No programming experience required, you can also copy your existing website) 4. Spam free E-mail service (yourname at ebioinfogen.com) 5. Forums: Discuss your issues in different subjects 6. 20 MB Free web drive. 7. On line Sequence Analysis program 8. Database of Biological Web Resources on Net 9. Job Search 10. Post Your Articles 11. Virtual Dissection and many more These are the few examples. You can access wealth of biological information and save your time. Don't rely on search engines they rely on your keywords. Log on to "eBioinfogen" and get accurate information. Looking forward for your visit at . Thanking you very much for your time. Gaurav K Varshney Promoter/Editor-in-chief eBioinfogen Innovatives Send your comments and suggestions to: admin at ebioinfogen.com / editor at ebioinfogen.com ____________________________________________________________ Do You Yahoo!? Get your free @yahoo.co.uk address at http://mail.yahoo.co.uk or your free @yahoo.ie address at http://mail.yahoo.ie From rehan-baig at usa.net Thu Jun 14 09:10:45 2001 From: rehan-baig at usa.net (rehan baig) Date: 14 Jun 2001 07:10:45 MDT Subject: [BiO BB] conform subscription in bio_bulletin_board Message-ID: <20010614131045.6856.qmail@nw175.netaddress.usa.net> ____________________________________________________________________ Get free email and a permanent address at http://www.netaddress.com/?N=1 From liza at egenetics.com Thu Jun 14 09:12:12 2001 From: liza at egenetics.com (Liza Groenewald) Date: Thu, 14 Jun 2001 15:12:12 +0200 Subject: [BiO BB] Vacation notice In-Reply-To: <20010614131045.6856.qmail@nw175.netaddress.usa.net> Message-ID: Hi there I will be on vacation until the 30th of June. If you have any queries regarding Electric Genetics or our products, please contact Tania Hide at , or phone us on +27 (0)21 959-3964. Thank you Liza From subbu_sv at yahoo.com Fri Jun 15 07:27:10 2001 From: subbu_sv at yahoo.com (=?iso-8859-1?q?venkatasubbarao=20saladi?=) Date: Fri, 15 Jun 2001 12:27:10 +0100 (BST) Subject: [BiO BB] need sugesstion Message-ID: <20010615112710.88580.qmail@web14004.mail.yahoo.com> Hi every one, I am a software prgrammer (with 3 plus years of Experiance in ISO 9001.SEI CMM Level 4 company and also overseas experiance in UK,Singapore,Malaysia etc) with biology background(BSC (Agri)) and strong hold on biotechnology,I came to know about the "BIO INFORMATICS" and I am very interested to shift in to it ,as it involves both biology-IT ,But the only thing which I am woorying about is the career oppourtunities in the field of " BIO INFORMATICS", sir pls let me know about the oppourtunities and also ,here in india one institute is offering some training in bioinformatics on MSI SOFTWARE(like INSIGHT,CERIES)onGenome ,DNA,Protein sequnce analysis,pls let me know how far it will be use ful to me to shift in to the field of bioinformatics,I will be obeliged to you for providing the above information With Regards Subbarao S.V Assoc.consultant, HCL infosystems Ltd, #43/44,Thapar House Monteith Road,Egmore Chennai-8 ____________________________________________________________ Do You Yahoo!? Get your free @yahoo.co.uk address at http://mail.yahoo.co.uk or your free @yahoo.ie address at http://mail.yahoo.ie From abelew at mail.wesleyan.edu Mon Jun 18 23:55:44 2001 From: abelew at mail.wesleyan.edu (Ashton T. Belew) Date: Mon, 18 Jun 2001 23:55:44 -0400 (EDT) Subject: [BiO BB] Schooling question Message-ID: Greetings, I graduated from Wesleyan University in 1998 as a Biology major. During my time at Wesleyan, I took up programming as a hobby; and started working there as a systems administrator/programmer for the university. I decided to stop last December in order to travel. While driving across Arizona, I decided I want to return to school. I have strong interest in Computer Science/Computing, Biology, Linguistics, and English. My question is, simply put: where should one look in order to attempt to find a fun and difficult program in Bioinformatics? Thus far, I have only poked around in google (thus finding bioinformatics.org) and have not found any criteria to help me decide upon a school. Thank you for your time, -Trey ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Ashton Trey Belew Phone: 860 983 1046 e-mail: abelew at wesleyan.edu http://abelew.web.wesleyan.edu/ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Surprise your boss. Get to work on time. From Joel.Dudley at DevelopOnline.com Tue Jun 19 12:36:29 2001 From: Joel.Dudley at DevelopOnline.com (Joel Dudley) Date: Tue, 19 Jun 2001 09:36:29 -0700 Subject: [BiO BB] Schooling question Message-ID: Trey - I am in the same boat as you. I received a degree in Microbiology from Arizona State and I am currently employed as a UNIX systems architect/Programmer in Tempe AZ. I have contacted Arizona State in regards to a masters program in Bioinformatics and the closest thing they had was bioengineering which focuses more on the kinematics of the human body and machine-body interfaces. I am more interested in pursuing the programming aspect, distributed protein modeling software, biological data mining, etc. I have begun to write some of the software on my own to gain experience, and the O' Reilly book, "Developing Bioinformatics Computer Skills", is a great resource. However I would really like graduate level instruction in Bioinformatics/Computational Biology. I don't want to leave the state so I am talking with professors at ASU to get graduate level instruction in Bioinformatics off the ground. It has been rough going right now but I hope something will happen if I bother them enough. I have a great job now, but bioinformatics is my passion so that's where I have to go, I suggest you do whatever it takes to follow your passion Trey. Good luck and let me know if you find a good program. - Joel Dudley -----Original Message----- From: Ashton T. Belew [mailto:abelew at mail.wesleyan.edu] Sent: Monday, June 18, 2001 8:56 PM To: bio_bulletin_board at bioinformatics.org Subject: [BiO BB] Schooling question Greetings, I graduated from Wesleyan University in 1998 as a Biology major. During my time at Wesleyan, I took up programming as a hobby; and started working there as a systems administrator/programmer for the university. I decided to stop last December in order to travel. While driving across Arizona, I decided I want to return to school. I have strong interest in Computer Science/Computing, Biology, Linguistics, and English. My question is, simply put: where should one look in order to attempt to find a fun and difficult program in Bioinformatics? Thus far, I have only poked around in google (thus finding bioinformatics.org) and have not found any criteria to help me decide upon a school. Thank you for your time, -Trey ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Ashton Trey Belew Phone: 860 983 1046 e-mail: abelew at wesleyan.edu http://abelew.web.wesleyan.edu/ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Surprise your boss. Get to work on time. _______________________________________________ BiO_Bulletin_Board maillist - BiO_Bulletin_Board at bioinformatics.org http://bioinformatics.org/mailman/listinfo/bio_bulletin_board From jeff at bioinformatics.org Tue Jun 19 13:16:15 2001 From: jeff at bioinformatics.org (J.W. Bizzaro) Date: Tue, 19 Jun 2001 13:16:15 -0400 Subject: [BiO BB] Schooling question References: Message-ID: <3B2F88DF.F862467@bioinformatics.org> Joel Dudley wrote: > > I don't want to leave the state so I > am talking with professors at ASU to get graduate level instruction in > Bioinformatics off the ground. It has been rough going right now but I hope > something will happen if I bother them enough. >From my personal experience, trying to get your graduate advisor/supervisor to switch to, or even accept, a new field may be next to impossible. A former advisor of mine was involved in biological molecular dynamics and modelling. Close enough to bioinformatics, right? That's what I thought, but I could not convince this person to accept a research project of mine that was more informatics-related (something which involved large-scale comparisons of structures between different organisms). This is primarily why I left that university. I want to warn you, not scare you off. When you first talk to a prof about joining their group, they'll act amazingly flexible, as if you could work on just about anything. But, once you're in the door, day one, they'll try to get you to switch to whatever they're working on in their lab. And the pressure will never cease. Eventually, they may confess that they aren't aren't able to advise you on your research topic. And, whether they get to that point of confession or not, it's true, they aren't able to, and you'll end up either (1) switching to whatever they're working on, (2) leaving in frustration, or (3) spending 10 or more years on your research before they'll let you go. Can anyone else attest to this? I know of many who can. My advise: if you want an education in bioinformatics, then at any cost, find someone who is actively involved in the field. And I don't mean someone who is doing something like bioinformatics. I would check that they either mention bioinformatics in their research statement on their web page or that they have publications in bioinformatics journals. Cheers. Jeff -- J.W. Bizzaro jeff at bioinformatics.org Director, Bioinformatics.org http://bioinformatics.org/~jeff "As we enjoy great advantages from the inventions of others, we should be glad of an opportunity to serve others by any invention of ours; and this we should do freely and generously." -- Benjamin Franklin -- From jacobs at genehack.org Tue Jun 19 19:35:36 2001 From: jacobs at genehack.org (John S. J. Anderson) Date: 19 Jun 2001 19:35:36 -0400 Subject: [BiO BB] Schooling question In-Reply-To: References: Message-ID: <87y9qoujp3.fsf@genehack.org> >>>>> On Tue, 19 Jun 2001 09:36:29 -0700, Joel Dudley said: Joel> I don't want to leave the state so I am talking with professors Joel> at ASU to get graduate level instruction in Bioinformatics off Joel> the ground. Consider the University of Arizona. I got my doctorate there, from the department of Molecular and Cellular Biology, and I can tell you that the department is very open to doctoral candidates crafting customized plans of study, and many of the advisors are more than willing to consider informatics-related projects. At least one student there is doing her minor in bioinformatics, mixing grad-level courses from the biological departments and the computer science side. Good luck, john. From selonline at hotmail.com Thu Jun 21 00:14:04 2001 From: selonline at hotmail.com (selvi subramanian) Date: Thu, 21 Jun 2001 09:44:04 +0530 Subject: [BiO BB] need sugesstion Message-ID: An HTML attachment was scrubbed... URL: From ngadewal at yahoo.com Thu Jun 21 08:10:19 2001 From: ngadewal at yahoo.com (nikhil gadewal) Date: Thu, 21 Jun 2001 05:10:19 -0700 (PDT) Subject: [BiO BB] need sugesstion In-Reply-To: Message-ID: <20010621121019.49520.qmail@web9501.mail.yahoo.com> Hi, I am working as a scientific officer in a Research Institute working on cancers. I am postgraduated in Microbiology and accomplished with Bioinformatics course. Thus my job is to apply my bioinformatics knowledge to the cancer field. I want some ideas i.e on which aspect of cancer...I can develop some databases, algorithm,sequence analysis etc. with regards, NIKHIL __________________________________________________ Do You Yahoo!? Get personalized email addresses from Yahoo! Mail http://personal.mail.yahoo.com/ From dsp at xtra.co.nz Fri Jun 22 07:35:09 2001 From: dsp at xtra.co.nz (Paul Calverley) Date: Fri, 22 Jun 2001 23:35:09 +1200 Subject: [BiO BB] Engineering and bioinformatics Message-ID: <3B332D6D.2E23EF01@xtra.co.nz> Hi, I'm starting a PhD from a Computer Systems Engineering and Electronic Engineering background. I'm currently investigating topics for the PhD. Does anyone know of any topics in bioinformatics that may be suitable to be tackled by an engineer ? Alternatively if you're looking for a PhD student to do some research for your company, and don't mind me working from the University of Auckland here in NewZealand, then perhaps you should make contact. I'm financially sponsored by my Dept. so I'm not looking for funding - just a great PhD topic/idea ! Thanks, p.calverley at auckland.ac.nz From indraneel at indialine.org Sat Jun 23 20:18:27 2001 From: indraneel at indialine.org (Indraneel Majumdar) Date: Sat, 23 Jun 2001 19:18:27 -0500 Subject: [BiO BB] Please suggest me on what course should I join and where can I find that course. In-Reply-To: <20010611195419.31519.qmail@mailweb9.rediffmail.com> References: <20010611195419.31519.qmail@mailweb9.rediffmail.com> Message-ID: <20010623191826.A12706@indialine.org> Hi, A field related to Biology and Computers is Bioinformatics. Bio-Informatics is Information Technology as applied to Biology. Computational Biology probably means the reverse. This is related to computers about as much as computers are related to information processing. You are probably looking for Bio-Electronics, another fascinating field of research. Bio-storage devices are already under test, and neuron controlled processor prototypes are already in research papers. A search for "bioelectronics" on google.com should get you loads of info. The Center for Biochemical Technology At New Delhi (probably close to where you live) is doing some work on the subject of your choice. Journals like the "New Scientist" and "Scientific American" also contain many non-technical articles on the subject. Even though any information processing hardware need not contain silicon-doped-crystals in it, the present state of the technology makes it imperative that any transition to purely biological / bio-optical based processing systems will have to pass through bioelectronics during the development process. Best wishes for your research, Indraneel On Mon, Jun 11, 2001 at 07:54:19PM -0000, Rupendra Singh Dhillon wrote: > Hi all, > > I am to complete my bachelors in computer science this year. After this I want to go into a feild relater to biology and computers ( in terms of making bio-electronic interfaces, using/making biological components for enhanced computing e.g. making biological storage devices etc. ) I will be going for a masters soon. Moreover I also have a biology background since I had medicine during schooling. > > Previously I had bioinformatics in mind and hence I came apon bioinformatics.org and joined. After that I think ( if I am wrong please correct me since I have no detailed knowledge about this feild ) that bioinformatics is about using structures and mechanisms from the feild of biology to manage information in computer based systems. And so I think this is not the feild I want to go into. Please suggest me on what course should I join and where can I find that course. -- http://www.indialine.org/indraneel/ From indraneel at indialine.org Sat Jun 23 20:34:52 2001 From: indraneel at indialine.org (Indraneel Majumdar) Date: Sat, 23 Jun 2001 19:34:52 -0500 Subject: [BiO BB] need sugesstion In-Reply-To: <20010615112710.88580.qmail@web14004.mail.yahoo.com> References: <20010615112710.88580.qmail@web14004.mail.yahoo.com> Message-ID: <20010623193452.C12706@indialine.org> Hi, On Fri, Jun 15, 2001 at 12:27:10PM +0100, venkatasubbarao saladi wrote: > Hi every one, > I am a software prgrammer (with 3 plus years of > Experiance in ISO 9001.SEI CMM Level 4 company and > also overseas experiance in UK,Singapore,Malaysia etc) > with biology background(BSC (Agri)) and strong hold That is excellent, now instead of spending the rest of your life doing only half of what you're capable of, probably you can shift to bioinformatics and really get some job satisfaction in a field that is still new and exciting. That is why I did. The payscale has not yet rocket-ed like pure IT, but it sure will, probably in the next 3 years. > on biotechnology,I came to know about the "BIO > INFORMATICS" and I am very interested to shift in to > it ,as it involves both biology-IT ,But the only thing > which I am woorying about is the career oppourtunities > in the field of " BIO INFORMATICS", sir pls let me > know about the oppourtunities and also ,here in india > one institute is offering some training in > bioinformatics on MSI SOFTWARE(like > INSIGHT,CERIES)onGenome ,DNA,Protein sequnce I'm not too sure of this either. AFAIK the fees being charged are quite high to justify joining, but then the software and equipment being used there costs a lot too. That does not mean that you need all that to learn. Open alternatives like `O' and `VMD' exist for us poorer people running Debian GNU/Linux. Probably the best answer would come by asking yourself: Did you go to an institute to learn computers (since you were an Ag student)? If not, probably you don't need to join one this time too. The going will be tough anyway, and you need to learn all the time, but then the rewards are much greater too. > analysis,pls let me know how far it will be use ful to > me to shift in to the field of bioinformatics,I will > be obeliged to you for providing the above information that's what mailing lists are for, shift to a more open world. best wishes, Indraneel -- http://www.indialine.org/indraneel/ From indraneel at indialine.org Sat Jun 23 21:12:47 2001 From: indraneel at indialine.org (Indraneel Majumdar) Date: Sat, 23 Jun 2001 20:12:47 -0500 Subject: [BiO BB] need sugesstion In-Reply-To: <20010621121019.49520.qmail@web9501.mail.yahoo.com> References: <20010621121019.49520.qmail@web9501.mail.yahoo.com> Message-ID: <20010623201247.D12706@indialine.org> Hi, Cancer bioinformatics work is being carried out in a few places like ISREC (Switzerland) and CGAP (NCBI). These mainly are generating, expression profiles, generalised sequence profiles, chromosome aberration database etc. There are however lots of cancer databases available on the net which are more suitable for browsing than for automated retrieval systems. http://tumor.informatics.jax.org lists some mouse tumour databases. Cancers are a specialised topic since the dissimiliarity of oncogenes and normal genes would be very low. Hence normal sequence search algorithms would probably not be able to detect them easily while at the same time removing false positives. This is just a guess but since you are working in the field you may wish to check this out. I guess that a weighing scheme might be developed specifically for carcinogenic sequences (based on already available data) which might not only be able to detect a new possible carcinogenic sequence but also detect an actual carcinogenic sequence a non-gene or a suppressed gene. Detection of this might actually be vital to treatment or prevention of the disease. Probably this would be most apparent in common cancers so you might wish to start with colon cancer or leukemia (which is often the last step). best wishes, Indraneel On Thu, Jun 21, 2001 at 05:10:19AM -0700, nikhil gadewal wrote: > Hi, > > I am working as a scientific officer in a Research > Institute working on cancers. I am postgraduated in > Microbiology and accomplished with Bioinformatics > course. > Thus my job is to apply my bioinformatics > knowledge to the cancer field. I want some ideas i.e > on which aspect of cancer...I can develop some > databases, algorithm,sequence analysis etc. -- http://www.indialine.org/indraneel/ From indraneel at indialine.org Sat Jun 23 21:28:56 2001 From: indraneel at indialine.org (Indraneel Majumdar) Date: Sat, 23 Jun 2001 20:28:56 -0500 Subject: [BiO BB] Schooling question In-Reply-To: <3B2F88DF.F862467@bioinformatics.org> References: <3B2F88DF.F862467@bioinformatics.org> Message-ID: <20010623202856.E12706@indialine.org> Hi, You're absolutely right, but there's a catch. To be able to pursue one's own topic one needs a guide who lacks ideas (in which case probably s/he lacks ability to guide too), or set up one's own lab (not impossible, but then you have a job with no salary), or get someone to sponsor you (by somehow proving that you're extremely brilliant when it comes to paying your creditors). Most often things end up in a compromise where you're happy doing what the guide asks you. Remember this is not like Mol Bio where you are nearly always unhappy doing what you do, and that too for more years. The compromise is reached since your guide too knows that you can leave any day and get a much higher paying job. Hopefully with some free time one can also work on one's own projects. On Tue, Jun 19, 2001 at 01:16:15PM -0400, J.W. Bizzaro wrote: > > I want to warn you, not scare you off. When you first talk to a prof about > joining their group, they'll act amazingly flexible, as if you could work on > just about anything. But, once you're in the door, day one, they'll try to > get you to switch to whatever they're working on in their lab. And the > pressure will never cease. Eventually, they may confess that they aren't > aren't able to advise you on your research topic. And, whether they get to > that point of confession or not, it's true, they aren't able to, and you'll > end up either (1) switching to whatever they're working on, (2) leaving in > frustration, or (3) spending 10 or more years on your research before they'll > let you go. maybe not so long, but it's nearly certain that you'll need to guide your guide at times, after all he's also doing the same `re'-`search' as you. Bioinformatics is easier, it's still so new that the guide can confess without feeling ashamed. > Can anyone else attest to this? I know of many who can. > I only know those who can, the better guides often find a better job. > My advise: if you want an education in bioinformatics, then at any cost, find > someone who is actively involved in the field. And I don't mean someone who > is doing something like bioinformatics. I would check that they either > mention bioinformatics in their research statement on their web page or that > they have publications in bioinformatics journals. and also, only apply via email. << This is very important! \Indraneel -- http://www.indialine.org/indraneel/ From indraneel at indialine.org Sat Jun 23 21:34:06 2001 From: indraneel at indialine.org (Indraneel Majumdar) Date: Sat, 23 Jun 2001 20:34:06 -0500 Subject: [BiO BB] php in bioinformatics? In-Reply-To: <000a01c0e9f1$81f23c20$112eeb82@mbioekol.lu.se> References: <000a01c0e9f1$81f23c20$112eeb82@mbioekol.lu.se> Message-ID: <20010623203406.F12706@indialine.org> Hi, yes, PHP is great, how else will you connect Apache to PostgreSQL? \Indraneel On Thu, May 31, 2001 at 06:48:20PM +0200, Dag Ahr?n wrote: > Hi, > I am a PhD student (soon to be finished) using PHP programming in bioinformatics. Does anybody of you use PHP in bioinformatics? -- http://www.indialine.org/indraneel/ From valb at vtek.com Sun Jun 24 10:56:50 2001 From: valb at vtek.com (Val Bykoski) Date: Sun, 24 Jun 2001 10:56:50 -0400 Subject: [BiO BB] Please suggest me on what course should I join and where can I find that course. References: <20010611195419.31519.qmail@mailweb9.rediffmail.com> Message-ID: <01c401c0fcbd$e7686190$d2befea9@pc300> Hi Rupendra, i understand what do you mean, and i think this is a great choice. it seems to me this area will explode in coming few years, and the key areas would be direct interface cell/silicon chip, direct diagnostics of cell state, electronic control of expression, and similar exciting projects. This would require an innovative design approach for silicon including engines for electronic handling cells, etc. i don't think things like biological computing and storage elements are of any serious interest - at least, as we know it now. some background in electronic engineering, chemical physics would be a great complement to yours. my best, /val val at vtek.com ----- Original Message ----- From: "Rupendra Singh Dhillon" To: Sent: Monday, June 11, 2001 3:54 PM Subject: [BiO BB] Please suggest me on what course should I join and where can I find that course. > Hi all, > > I am to complete my bachelors in computer science this year. After this I want to go into a feild relater to biology and computers ( in terms of making bio-electronic interfaces, using/making biological components for enhanced computing e.g. making biological storage devices etc. ) I will be going for a masters soon. Moreover I also have a biology background since I had medicine during schooling. > > Previously I had bioinformatics in mind and hence I came apon bioinformatics.org and joined. After that I think ( if I am wrong please correct me since I have no detailed knowledge about this feild ) that bioinformatics is about using structures and mechanisms from the feild of biology to manage information in computer based systems. And so I think this is not the feild I want to go into. Please suggest me on what course should I join and where can I find that course. > > Rupendra Dhillon > > _____________________________________________________ > Chat with your friends as soon as they come online. Get Rediff Bol at > http://bol.rediff.com > > > > > > _______________________________________________ > BiO_Bulletin_Board maillist - BiO_Bulletin_Board at bioinformatics.org > http://bioinformatics.org/mailman/listinfo/bio_bulletin_board > From valb at vtek.com Sun Jun 24 11:24:41 2001 From: valb at vtek.com (Val Bykoski) Date: Sun, 24 Jun 2001 11:24:41 -0400 Subject: [BiO BB] Engineering and bioinformatics References: <3B332D6D.2E23EF01@xtra.co.nz> Message-ID: <01ca01c0fcc1$cb65ada0$d2befea9@pc300> ----- Original Message ----- From: "Paul Calverley" To: Sent: Friday, June 22, 2001 7:35 AM Subject: [BiO BB] Engineering and bioinformatics > Hi, > > I'm starting a PhD from a Computer Systems Engineering and Electronic > Engineering background. I'm currently investigating topics for the PhD. > > Does anyone know of any topics in bioinformatics that may be suitable to > be tackled > by an engineer ? > Alternatively if you're looking for a PhD student to do some research > for your company, > and don't mind me working from the University of Auckland here in > NewZealand, then > perhaps you should make contact. I'm financially sponsored by my Dept. > so I'm not looking > for funding - just a great PhD topic/idea ! > > Thanks, > p.calverley at auckland.ac.nz > Hi Paul, I think a combination of electronic engineering and bioinformatics is indeed the future of what we know now as bioinformatics. i'm not sure there is a need in accumulation of huge genetic datasets, their data-mining, visualization, and painful figuring out "what all that does mean" and how to "design new drugs". The data needs to be USED immediately to change/control cell behavior. So it looks like that electronic and optical engineering will be critical in desig and implementation of the next-gen "engines" to directly sense and then modify cellular structures and functions. It may happen in 3-5 years. So your background, Paul, is a good starting point. Tell me more about your current experience, skills, and interests, and i'll be more specific in terms of the PhD topics. my best, val val at vtek.com From hzi at uol.com.br Mon Jun 25 01:27:49 2001 From: hzi at uol.com.br (Usuario Universo Online) Date: Mon, 25 Jun 2001 05:27:49 GMT Subject: [BiO BB] need sugesstion In-Reply-To: <20010623193452.C12706@indialine.org> References: <20010615112710.88580.qmail@web14004.mail.yahoo.com> <20010623193452.C12706@indialine.org> Message-ID: <20010625.5274900@siddhi.samsara.org> > > I'm not too sure of this either. AFAIK the fees being charged are quite > high to justify joining, but then the software and equipment being used > there costs a lot too. That does not mean that you need all that to > learn. Open alternatives like `O' and `VMD' exist for us poorer people > running Debian GNU/Linux. > best wishes, > Indraneel Can you explain what 'O' and 'VMD' are, briefly? Thank you, Henry L From jwester at sgi1.chemie.uni-hamburg.de Mon Jun 25 08:44:20 2001 From: jwester at sgi1.chemie.uni-hamburg.de (Jan-Christoph Westermann) Date: Mon, 25 Jun 2001 14:44:20 +0200 Subject: [BiO BB] need sugesstion References: <20010615112710.88580.qmail@web14004.mail.yahoo.com> <20010623193452.C12706@indialine.org> <20010625.5274900@siddhi.samsara.org> Message-ID: <3B373224.6818C6B1@sgi1.chemie.uni-hamburg.de> Usuario Universo Online wrote: >> >> I'm not too sure of this either. AFAIK the fees being charged are quite >> high to justify joining, but then the software and equipment being used >> there costs a lot too. That does not mean that you need all that to >> learn. Open alternatives like `O' and `VMD' exist for us poorer people >> running Debian GNU/Linux. > > Can you explain what 'O' and 'VMD' are, briefly? VMD: Visual Molecular Dynamics http://www.ks.uiuc.edu/Research/vmd/ jcw -- Jan-Christoph Westermann - jwester at sgi1.chemie.uni-hamburg.de Einigen wir uns auf: Informatik ist die Fortsetzung der Mathematik mit anderen Mitteln? Georg Siegemund in dtb From rkh at gene.COM Mon Jun 25 20:33:50 2001 From: rkh at gene.COM (Reece Hart) Date: Mon, 25 Jun 2001 17:33:50 -0700 (PDT) Subject: [BiO BB] free energy minimization routines!! In-Reply-To: <20010524042211.25790.cpmta@c009.snv.cp.net> Message-ID: On 23 May 2001 viswap_rri at 123india.com wrote: > Subject: [BiO BB] free energy minimization routines!! > Can anyone guide me where one can get molecular dynamics/monte carlo > algorithms or any other free energy minimization algos. for simulation of > cluster of lipids and other organic molecules. This'll seem like a non sequitur after so long a delay in responding... There are many free programs. I'd look into TINKER (http://dasher.wustl.edu/tinker/). Somebody already mentioned VMD in a different thread. You can also look into SAL at http://sal.kachinatech.com/Z/2/index.shtml. -- Reece Hart rkh at gene.com Genentech, Inc. 650/225 -6133(v), -5389(f) 1 DNA Way, MS 93 http://www.in-machina.com/~reece/ South San Francisco, CA 94080 GPG: 0x25EC91A0 From rob_kra at yahoo.com Wed Jun 27 07:31:46 2001 From: rob_kra at yahoo.com (robert kraus) Date: Wed, 27 Jun 2001 04:31:46 -0700 (PDT) Subject: [BiO BB] Interoperable Informatics Infrastructure Consortium (I3C) Message-ID: <20010627113146.18269.qmail@web14305.mail.yahoo.com> This consortium ( Sun, IBM, Apple, Oracle, GlaxoSmithKline ,Pfizer, Millenium ,Affymetrix, Europ?ischen Institut f?r Bioinformatik) are alleged to have presented a standard or working prototype or whatever in Jave and XML for Bioinformatics at a conference. http://www.bio.org/events/2001/event2001home.html In german: http://www.heise.de/newsticker/data/anm-26.06.01-000/ does anybody have more information about their actual presentation? How does it affect the biojava and bioxml projects? robert __________________________________________________ Do You Yahoo!? Get personalized email addresses from Yahoo! Mail http://personal.mail.yahoo.com/ From innomedical at home.com Fri Jun 29 12:22:24 2001 From: innomedical at home.com (Innovative Medical Recruiting) Date: Fri, 29 Jun 2001 11:22:24 -0500 Subject: [BiO BB] Business Development Opening Message-ID: <005201c100b7$ae999340$1fa20b41@stbrnrd1.la.home.com> Hello! I have an established oncology/genomics information client that is looking for an experienced Business Development Manager to cover the East Coast. This person should be based out of the Boston, MA or surrounding area, and should have extensive sales/business development experience calling on biotech, genomic, pharmaceutical, or contract research organizations (CRO's). Excellent base & bonus opportunities. I may be contacted by email at dale at innomedical.com. I would appreciate any help in locating candidates for this position. Sincerely, Dale Busbee, Owner Innovative Medical Recruiting, LLC www.innomedical.com -------------- next part -------------- An HTML attachment was scrubbed... URL: From liza at egenetics.com Fri Jun 29 12:32:13 2001 From: liza at egenetics.com (Liza Groenewald) Date: Fri, 29 Jun 2001 18:32:13 +0200 Subject: [BiO BB] Vacation notice In-Reply-To: <005201c100b7$ae999340$1fa20b41@stbrnrd1.la.home.com> Message-ID: Hi there I will be on vacation until the 30th of June. If you have any queries regarding Electric Genetics or our products, please contact Tania Hide at , or phone us on +27 (0)21 959-3964. Thank you Liza