21. ONLamp.com -- Beginning Python For Bioinformatics An introduction to processing biological information with the Python language. http://www.onlamp.com/pub/a/python/2002/10/17/biopython.html

Sign In/My Account View Cart Articles Weblogs ... O'Reilly Money:Tech Conference February 6 - 7, 2008 New York, NY Listen Print Discuss Subscribe to Python ... Subscribe to Newsletters Beginning Python for Bioinformatics by Patrick O'Brien Bioinformatics, the use of computers in biological research, is the newest wrinkle on one of the oldest pursuitstrying to uncover the secret of life. While we may not know all of life's secrets, at the very least computers are helping us understand many of the biological processes that take place inside of living things. In fact, the use of computers in biological research has risen to such a degree that computer programming has now become an important and almost essential skill for today's biologists. The purpose of this article is to introduce Python as a useful and viable development language for the computer programming needs of the bioinformatics community. In this introduction, we'll identify some of the advantages of using Python for bioinformatics. Then we'll create and demonstrate examples of working code to get you started. In subsequent articles we'll explore some significant bioinformatics projects that make use of Python. A Bit of Background Because scientists have long relied on the open availability of each other's research results, it was only natural that they would turn to Open Source software when it came time to apply computer processes to the study of biological processes. One of the first Open Source languages to gain popularity among biologists was Perl. Perl gained a foothold in bioinformatics based on its strong text processing facilities, which were ideally suited to analyzing early sequence data. To its credit, Perl has a history of successful use in bioinformatics and is still a very useful tool for biological research.

22. Bioinformatics Program www.bioinformatics.utep.edu. bioinformatics Program at The University of Texas at El Paso bioinformatics@utep.edu. Terms of Use Privacy Statement. http://www.bioinformatics.utep.edu/

Home Contact Us Faculty Resources ... Upcoming Bioinformatics Colloquium Welcome to Bioinformatics Program Printable Brochure (3MB PDF) Your browser does not support inline frames or is currently configured not to display inline frames. Bioinformatics Program Vision and Mission Program Committees Faculty Homepages Research Programs ... Information Request Form Other Resources College of Science Registrar Admissions Graduate School ... Bioinformatics Research Poster Session Bioinformatics Program at The University of Texas at El Paso - bioinformatics@utep.edu Privacy Statement

23. The Brutlag Bioinformatics Group Homepage of a group at Stanford University who are interested in the problems of predicting biological function and structure from primary sequence. http://motif.stanford.edu/

24. SourceForge.net: Software Map sourceforge.net/softwaremap/trove_list.php?form_cat=252 Briefings in bioinformatics received an impact factor of 24.370 in the 2006 ISI Briefings in bioinformatics is a superb journal, and I find it to be an http://sourceforge.net/softwaremap/trove_list.php?form_cat=252

25. Bioinformatics Research Center: Home The bioinformatics Research Center (BRC) at North Carolina State University is one of the world s premier centers for education and research in http://statgen.ncsu.edu/

Degree Programs People Seminars ... Resources Home 2007 Cockerham Lecture Employment Opportunities: Senior Faculty Research ... Room Calendar Welcome to the NC State University Bioinformatics Research Center and Programs in Bioinformatics and Statistical Genetics The Bioinformatics Research Center (BRC) at North Carolina State University is one of the world's premier centers for education and research in bioinformatics, the field that integrates information science and statistics with the study of genomics. Established by the Board of Governors of the University of North Carolina System in 2000, the BRC is located on NC State University's Centennial Campus in Raleigh. The BRC has two important missions: Research: Our research focuses on the development of new computational and statistical tools for the analysis and interpretation of genomic data. Our research addresses both theoretical and practical issues in human, plant, and animal genetics. Education: The BRC is dedicated to providing outstanding educational and training opportunities for graduate students and genomic scientists. We offer graduate programs in bioinformatics and statistical genetics.

26. UCSC Genome Browser Home Provides genome browser, gene sorter, blat search function, and publications. http://genome.ucsc.edu/

Genomes Blat Tables Gene Sorter ... Contact Us About the UCSC Genome Bioinformatics Site Welcome to the UCSC Genome Browser website. This site contains the reference sequence and working draft assemblies for a large collection of genomes. It also provides a portal to the ENCODE project. We encourage you to explore these sequences with our tools. The Genome Browser zooms and scrolls over chromosomes, showing the work of annotators worldwide. The Gene Sorter shows expression, homology and other information on groups of genes that can be related in many ways. Blat quickly maps your sequence to the genome. The Table Browser provides convenient access to the underlying database. VisiGene lets you browse through a large collection of in situ mouse and frog images to examine expression patterns. Genome Graphs allows you to upload and display genome-wide data sets.

27. Pharmaceutical Bioinformatics & Computational Biology Glossary A bioinformatic study may also require peptide to peptide comparisons allowing common structural features of proteins to define the function a DNA fragment http://www.genomicglossaries.com/CONTENT/Bioinformatics_gloss.asp

You are here Biopharmaceutical glossary homepage/Search Evolving terminology for emerging technologies Suggestions? Comments? Questions? Mary Chitty mchitty@healthtech.com Last revised November 16, 2007 View a Printer-Friendly Version of this Web Page! Registration policy has details Mr. Ms. Mrs. Dr. Prof. First: Last: Title: Dept.: Company: Address: City: State: Zip: Country: Email: Opt-out of Email YES NO Telephone: Would you like to receive CHI event updates via fax? Yes No Fax: document.FrontPage_Form1.interest.value = 'BIN'; Applications Informatics Maps: Finding guides to terms in these glossaries Site Map Related glossaries include Applications: Functional genomics Informatics: Chemoinformatics Technologies Sequencing Biology: DNA Expression Proteins annotated databases: Databases may contain a combination of amino acid sequences, comments, literature references and notes on known post- translational modifications http://www.rdcormia.com/COIN79/b_chpt1.htm annotation: The annotation process identifies sequence features on the contigs - such as variation

28. Browsing Bioinformatics : Nature Precedings Date Received 16 January 2008 1156 UTC; Posted 16 January 2008; Subjects Molecular Cell Biology, bioinformatics; Tags http://precedings.nature.com/subjects/bioinformatics

Jump to main content Jump to navigation Log in Register ... Advanced search Search: All documents Manuscripts Posters / Presentations Bioinformatics documents (104 entries in total) get web feed Search within Bioinformatics: Top 5 tags in Bioinformatics: Evolution Recombination Influenza systems biology ... SBML votes The spread of antimalarial drug resistance: A mathematical model with practical implications for ACT drug policies Wirichada W. P. Pongtavornpinyo Date: Received 24 January 2008 05:15 UTC; Posted 24 January 2008 Subjects: Microbiology Pharmacology Bioinformatics Tags: Mathematical model artemisinin combination therapy antimalarial drugs malaria ... PDF 1 vote A Handy Script to Implement Genetic Models in R Wei Zhang Date: Received 23 January 2008 20:30 UTC; Posted 23 January 2008 DOI doi :10.1038/npre.2008.1537.1 Subjects: Bioinformatics Tags: This document has not been tagged. DOC PDF 0 votes Tendril, adhesive disc and super adhesive effect of climbing plant Wenli Deng Date: Received 23 January 2008 01:33 UTC; Posted 23 January 2008 Subjects: Biotechnology Bioinformatics Tags: adhesion mechanism microstructure Plant biomimics ... PDF 5 votes Virupaksha A. Bastikar

29. The International Society For Computational Biology Substantial discounts off registration fees to the world s most important bioinformatics conferences; Significantly discounted journal subscriptions http://www.iscb.org/

var title='ISCB'; The ISCB is a scholarly society dedicated to advancing the scientific understanding of living systems through computation NEW ISCB 2007 Accomplishments Report REMINDER FASEB Excellence in Science Award Call for Nominations REMINDER ISCB Elections Results Now Online REMINDER Registration Now Open for ISCB's REMINDER ISMB 2008 Toronto Calls for Participation/Submissions REMINDER Outstanding Student Abstracts Published in BMC Bioinformatics REMINDER Delegate Survey Results from ISMB/ECCB 2007 Now Available Substantial discounts off registration fees to the world's most important bioinformatics conferences Significantly discounted journal subscriptions exclusively for ISCB members Travel Fellowship opportunities to attend ISCB and affiliated conferences Jobs Board for posting of opportunities at member institutions Public affairs activities Educational resources Leadership opportunities For More information, visit the

30. SCPD - Programs - BioMedical Informatics Required Courses. BIOMEDIN214 Representations and Algorithms in Computational Biology. Electives. BIOMEDIN217 Translational bioinformatics (Bio Focus) http://scpd.stanford.edu/scpd/programs/certs/bioinformatics.htm

Jump To... Home Online Classroom Deadlines Academic Sched. All Offerings by Subject ProEd Sched. Faculty/TA Guidelines. Forms Site Index In 1923, Virginia Austin became the first woman to receive a degree in engineering from Stanford. Sponsoring Academic Department: Biomedical Informatics Develops an understanding of techniques for analyzing the vast amount of biological data from recent genomic research to explore new applications. Emphasizes molecular biology in addressing topics ranging from sequence, structure and function analysis to the context of algorithms, databases and visualization. Download certificate brochure in portable document format (pdf). Those interested in obtaining the Certificate must take BIOMEDIN214, one course from the Biology focus and one course from the Computer Science focus. In addition, they must obtain a grade of B or better in each course. Required Courses : Representations and Algorithms in Computational Biology Electives : Translational Bioinformatics (Bio Focus) : Biomedical Genomics (Biology focus) : Computational Structural Biology: Protein Simulation, Function and Prediction (Biology focus)

31. Forensic Bioinformatics DNA Consulting Services Forensic bioinformatics, headed by Dan Krane, reviews cases involving forensic DNA testing. We employ an automated analysis system to provide an objective http://www.bioforensics.com/

Home Introduction Staff Genophiler Overview Deliverables GenoStat Conferences Press Releases DNA in the News Testimonials Prosecution Resources Useful Links DNA Issues Download Articles Presentations Discovery Request 2850 Presidential Dr. Suite 150 Fairborn, OH 45324 Phone: (937) 426-9270 Fax: (937) 426-9271 help@bioforensics.com Forensic Bioinformatics reviews cases involving forensic DNA testing. We employ an automated analysis system to provide an objective review while making the results easy to understand. We provide full consulting and testimony services. We also continue to perform research to better understand and define issues pertaining to forensic DNA testing and interpretation. See Dan Krane, Bill Thompson, Marc Taylor, and others discuss LCN DNA testing on RTE News Prime Time. Click HERE and select the Wayne O'Donoghue story. Our sixth annual conference was held August 17-19th, 2007. For more information, visit our conference page HERE Find out the importance of utilizing a run-specific RFU threshold HERE . In conjunction, our LOD/LOQ baseline determination beta software has been released. Determine the level of background noise in your samples with our free software. Download it

32. What Is Bioinformatics? bioinformatics is defined here as an interdisciplinary research area that applies computer and information science to solve biological problems. http://www.binf.umn.edu/about/whatsbinf.php

Bioinformatics Home One Stop Directories Search U of M About Us What is Bioinformatics? Contact Info Faculty Positions Minor Program People Students Email List Join Archives Journal Club Symposium ... Home About Us What is Bioinformatics? What is Bioinformatics? Bioinformatics is defined here as an interdisciplinary research area that applies computer and information science to solve biological problems. However, this is not the only definition. The field is being defined (and redefined) at present, and there are probably as many definitions as there are bioinformaticians (bioinformaticists?). The following references are a snapshot of the moving target named bioinformatics. They begin with a few attempts at definition, then move to articles on training, funding, and career possiblities. Suggestions for additions to this list are welcome. The list began in 2000, and , and articles have been archived. Access to full text articles may be limited to those at the University of Minnesota. Jump to: Defining Bioinformatics Training, Funding, and Career Possibilities Defining Bioinformatics European Bioinformatics Institute Bioinformatics: An Introduction Google Defines Bioinformatics OneLook Dictionary Searches Defines Bioinformatics OneLook Dictionary Search for Bioinformatics Bioinformatics FAQ Wiki (July 6, 2007) -

33. Eastern Michigan Bioinformatics bioinformatics at Eastern Michigan is an exciting new interdisciplinary program that involves faculty from the departments of Biology, Chemistry, http://www.emich.edu/bioinformatics/

Eastern Bioinformatics Developing professional science skills Home Faculty Programs Applicant Resources ... Bioinformatics Partners EMU Sites EMU Home About EMU Future Students Students Athletics Contact EMU Search EMU Eastern Michigan University Ypsilanti, MI, USA 48197 University Information: 734.487.1849 Welcome to EMU Bioinformatics! Bioinformatics at Eastern Michigan is an exciting new interdisciplinary program that involves faculty from the departments of Biology, Chemistry, Computer Science and Mathematics in the College of Arts and Sciences, and the department of Management in the College of Business. The program was formally approved in March of 2004, and began its first official semester with just under 20 students. Our students come from backgrounds as broad as those of the faculty teaching in the program, which makes for a rich learning environment for all. Whether you are visiting as a prospective or current student, a prospective or current partner, or are just curious, welcome! If you cannot find what you are looking for please feel free to email bioinformatics@emich.edu

34. MBB 447b3 (747b3) Syllabus This course will provide an overview of bioinformatics, the application of computational Summer Jobs in bioinformatics. If you re really motivated, http://bioinfo.mbb.yale.edu/mbb447b-99/

Go to New Homepage for Fall 1999 Course Contents of Old Homepage follow below. Spring 1999 BIOINFORMATICS Brief Description Computational analysis of gene sequences and protein structures, on a large-scale. Topics include sequence alignment, biological database design, comparative genomics, geometric analysis of protein structure, and macromolecular simulation. [ Blue Book Entry Timing and Location To be offered in the half of the spring term as a "module." Meeting from 1:00-2:15 PM on Mondays and Wednesday, in Bass 205. (Some classes may also be held on Fridays.) First meeting: Bass 205, 1:00-2:15 PM, Monday 3/22/99. Instructor Mark Gerstein Department, Bass Yale University, New Haven, CT Phone: 203 432-6105, E-mail: Mark.Gerstein@yale.edu kathleen.tatham@yale.edu Class Handouts and Other Documents A synopsis of each of the lectures: http://bioinfo.mbb.yale.edu/mbb447-99/lectures.htm Detailed discussion of course assignments , mailing lists, survey, etc.: http://bioinfo.mbb.yale.edu/mbb447-99/todo.htm If you want to take or audit the course, you need to fill out the survey The course will follow a very similar progression to the bioinformatics course offered last spring (See, in particular

35. Bioinformatics At The NIH Welcome to the NIH bioinformatics Web Site Your Source of Information about Biomedical Computing at the National Institutes of Health http://www.bisti.nih.gov/

Text Only Hide Menu BISTI Home BISTIC Funding Charter ... Biositemaps Bioinformatics at the NIH Welcome to the NIH Bioinformatics Web Site - Your Source of Information about Biomedical Computing at the National Institutes of Health This Web Site - The Web site contains information on the BISTI Consortium , bioinformatics News and Events , a Calendar of related events, biomedical computing Symposia Funding Opportunities in bioinformatics, and General Information about the field. What is Bioinformatics? - Research, development, or application of computational tools and approaches for expanding the use of biological, medical, behavioral or health data, including those to acquire, store, organize, archive, analyze, or visualize such data. What is Computational Biology? - The development and application of data-analytical and theoretical methods, mathematical modeling and computational simulation techniques to the study of biological, behavioral, and social systems. ( Working Definition of Bioinformatics and Computational Biology - July 17, 2000

36. UCSD Bioinformatics Program Copyright©2001 Regents of the University of California. All rights reserved. Last modified Thursday, November 17, 2005. http://bioinformatics.ucsd.edu/

Home Graduate Program For Students Participating Departments ... Site Map Last modified Thursday, November 17, 2005

37. UCLA Bioinformatics Main web site for the UCLA bioinformatics program. http://www.bioinformatics.ucla.edu/

UCLA Bioinformatics Previous version of UCLA Bioinformatics is available at http://bioinfo.mbi.ucla.edu The LinkOuts Official Web Sites Bioinfo Plone Site: Previous Version of UCLA Bioinformatics Groups: Bioinformatics IDP IGERT: NSF-IGERT Bioinformatics Training Grant Courses: Bioinformatics Courses at UCLA ... Forum: Discussion Forum for UCLA Bioinformatics The Latest News Site News Previous Version of UCLA Bioinformatics Updated Blogs Thinking About Bioinformatics UCLA Bioinformatics This is a WordPress Mu powered site. You can: Login Create a new blog UCLA Bioinformatics is proudly powered by WordPress MU running on Bioinformatics.ucla.edu Create a new blog and join in the fun! Entries (RSS) and Comments (RSS)

38. O'Reilly Bioinformatics Conference 2003 An Interview with Lincoln Stein In this interview, Lincoln Stein talks about the bioinformatics technologies and tools he s most excited about. http://conferences.oreillynet.com/bio2003/

Home Registration Speakers Keynotes ... Jim Kent Researcher, UC Santa Cruz , 2003 Ben Franklin Award recipient Lincoln Stein Researcher, Cold Spring Harbor Lab Steven Brenner Assistant Professor and leader of a computational genomics research group at the University of California, Berkeley Francis Ouellette Director, University of British Columbia Bioinformatics Centre Alvis Brazma Microarray Informatics Group Leader, European Bioinformatics Institute James Gosling Co-inventor of Java; VP and Fellow, Sun Microsystems Stephen Wolfram Creator of Mathematica , author of A New Kind of Science Damian Conway Research Fellow, Monash University Feel Left Out? If you missed this year's Conference, but want to find out what was covered, download the presentation files Want to view BioCon conference sessions and events in iCal on Mac OS X? Here's how An Interview with Lincoln Stein In this interview, Lincoln Stein talks about the bioinformatics technologies and tools he's most excited about. Lincoln will deliver a keynote on Bioinformatics: Gone in 2012 Stephen Wolfram on Bioinformatics Biocon keynote speaker and A New Kind of Science author Stephen Wolfram chatted recently with Tim O'Reilly about his research, his new book, and its connection to bioinformatics. Don't miss Stephen's keynote on A New Kind of Science and Foundations For Theory in Biology An Interview with Jim Kent Benjamin Franklin Award recipient Jim Kent talks about the future of genomics, modeling biological processes, and open source bioinformatics in this interview on bio.oreilly.com. Kent will accept the annual Bioinformatics.Org award in a plenary session.

39. CSREES Funding Opportunity Animal Genome: Bioinformatics, NRI The bioinformatics program requests applications for the development of bioinformatic tools that will assist in functional genomics, annotation and http://www.csrees.usda.gov/fo/animalgenomebioinformaticsnri.cfm

You are here: Home Funding Opportunities / National Research Initiative - Animal Genome (C): Bioinformatics National Research Initiative - Animal Genome (C): Bioinformatics The Animal Genome program provides science-based knowledge and technologies to generate new or improved high-quality products/processes and to promote the efficiency of agricultural production systems. This information will also enhance protection and safety of the Nation's agriculture and food supply through development and delivery of information/technologies to genetically improve animals of agricultural importance. The Bioinformatics program requests applications for the development of bioinformatic tools that will assist in functional genomics, annotation and comparative genomics, in silico analysis, and use of genomic data in genetic improvement programs of agriculturally important animals. Applicants are strongly encouraged to read the entire Program Description section for current priorities and additional information relative to the program of interest. Please carefully review the RFA guidelines to ensure application acceptance. Special Notation More NRI Information Who Is Eligible to Apply 1862 Land-Grant Institutions 1890 Land-Grant Institutions 1994 Land-Grant Institutions City or Township Governments County Governments For-profit Organizations Other Than Small Businesses Hispanic-Serving Institutions Individuals Native American Tribal Orgs, not Federally recognized Tribal Governments

40. Libertas Academica - Open Access Journals And Text Books Evolutionary bioinformatics is an international, peerreviewed journal focusing on evolutionary bioinformatics. Read More. View factor. for this issue http://la-press.com/journal.php?pa=description&journal_id=17

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