Bio Saga Blog - A Chronicle of Life Sciences & Informatics

After the immensely huge success of our PhD Assistance program last year, we decided to give back more avail to PhD aspirants this year withal. Students will be taken on first come basis. Only Master’s in life-science students can apply. Register soon to avail an Opportunity to get a fully funded PhD in USA. REGISTER HERE PhD Assistance Training Program Highlights of the program 2 compulsory Paper Publication in peer reviewed journal along with pub med citation 1 Review Paper publication Privilege of working under the eminent scientist from NIH,USA Special coaching for ‘Research Methodology’ subject by eminent scientist Introducing students to various PhD notification website, forum and blogs etc. Preparing a motivation letter /cover letter based on PhD openings Helping to draft a proper project proposal depending on PhD opening Application & Transcripts Procedure Preparing PhD oriented resume Providing appropriate reference/recommendation letter. Providing Exper...

At the Bio-IT World Conference last week, Intel unveiled a new website, dubbed Optimized Code, that offers access to versions of several popular open-source bioinformatics analysis tools that the company has optimized to run on Intel Xeon processors, with the aim of generating results faster and more efficiently than standard iterations of these solutions. The first set of applications that the company has released specifically for genomic analysis include optimized versions of  the Broad Institute's Genome Analysis Toolkit ; Blast algorithms for nucleotide- and protein-based sequence searching; BWA-ALN , software for mapping low-divergent sequences to a reference genome; and MPI-HMMER , protein sequence analysis software. The company has also released optimized code for AMBER and NAMD, both of which are used for simulating the molecular dynamics of biomolecular systems. The Intel website provides performance numbers for each of the optimized codes as well as directions for h...

PerkinElmer, Inc., a global leader focused on the health and safety of people and the environment, today announced that it has signed a definitive agreement to acquire CambridgeSoft Corporation, and has completed the purchase of ArtusLabs, Inc.  These acquisitions will enhance the Company's focus on knowledge management in laboratory settings by expanding its informatics and software offerings, enabling customers to rapidly access and share enterprise-wide data for faster, more informed scientific decisions. The purchase of CambridgeSoft is expected to close in the second quarter, subject to customary closing conditions, including the expiration or termination of the waiting period under the Hart-Scott-Rodino Antitrust Improvements Act. Do you wish to know more?

This is no Sci-Fi but reel to real! Yes we can in deed program the DNA for real Now!  Bioinformatics scientists have built two logic gates for what they hope will become a new programming language for drug design as well as chemical and agricultural product engineering. The accomplishment seems hardly noteworthy except that these logic gates are made of E. coli. The two computational switches are based on two strains of the common bacterium. Researchers are now working to assemble them to perform computations. This genetic programming software would resemble any other programming language, says Kevin Clancy, senior staff scientist for bioinformatics at Life Technologies Corp. The Carlsbad, CA, company is funding the work, which is being done by researchers at the UC San Francisco School of Pharmacy. Life Tech plans to commercialize the technology. The software would convert instructions into a DNA sequence to be inserted into a bacterial, yeast or mammal cell. "It allows you ...

Courtesy: B ioclues Job Reference: G586-10LL Genome Discovery Unit, The John Curtin School of Medical Research, ANU College of Medicine, Biology and Environment We are seeking a Genome Computational Specialist to support the work of researchers engaged in cutting-edge projects involving analysis of high throughput sequencing data. Location Canberra/ACT Term of Contract Permanent Grade ANU Senior Manager 1 (Information Technology) Salary Package $88,417 - $92,781 pa plus 17% superannuation Closing Date 3 January 2011 Position Overview The ANU's genomic strategies and expertise has positioned it as a key partner in a number of national and international genomics / phenomics research consortia. The ANU is underpinning this excellence in genomic biology by establishing a Genome Discovery Unit (GDU) for the analysis of high throughput sequencing data. The facility will be staffed by highly skilled personnel who will provide the core expertise for constructing and operating a h...

A manager or a senior bioinformatician is required. Qualifications:- A Master degree in biology, bioinformatics (or a related discipline), or equivalent experience in bioinformatics in the pharmaceutical or biotech industry.  An MS or Ph.D. is strongly preferred. Required Skills:-Strong technical, analytical, and problem  solving skills, Strong communication abilities, A dedication to software development best practices and methodologies Experience: - 2+ years experience developing software solutions in the pharmaceutical R&D or biotech sector, Demonstrated ability with  several of the following: Java, Java/J2EE,  .NET (VB, C#, ASP),  Sharepoint, Oracle, JDBC, SQL,  Unix/Linux, Windows,  Mastery of at least one programming language/platform. Company:- MNC Bioinformatics. Location:- Bangalore, Hyderabad and Pune. Salary:- 15-20 lacks. Further relevant information can be accessed from t...

Workshop: Developing Bioinformatics applications with Bioperl   Duration: 5 days, Registration Fee:   Rs. 2000 /-   Starting date: November 05 - 09, 2010   Workshop: Biological sequence analysis Duration: 3 days, Registration Fee: Rs. 1000 /- Starting date: November 26 - 28, 2010  Venue:The Bioinformatica Solutions,lucknow Fee should be deposited through bank draft in  the name of "The Bioinformatica Solutions"  payable at Lucknow.  Follow this link to apply http://www.thebioinformatica.com/Registration.htm  

CambridgeSoft's Business Partner in Hyderabad, India is hiring for multiple positions. Appropriate candidates, with a chemistry or biochemistry background, could apply. The following is a list of available positions: Lead Developer - ChemDraw product on a Java platform (Hyderabad, India) Developer - JAVA DEVELOPERS (Hyderabad, India) Lead Developer - Desktop - ChemBio3D (Hyderabad, India) Developer - Enterprise - Network Communication and Distributed Computing (Hyderabad, India) Developer - Desktop - User Interface (Hyderabad, India) Developer - Desktop - Numerical Methods (Hyderabad, India) Lead Developer - Enterprise - Inventory (Hyderabad, India) Lead Developer - Enterprise (Hyderabad, India) Developer - Enterprise - (C++) (Hyderabad India) Developer - Enterprise - E-Notebook Support Analyst (Hyderabad, India) Developer - Desktop - ChemDraw (Hyderabad, India) Lead Developer - Enterprise - E-Notebook (Hyderabad, India) Developer - Enterprise - Database Specialist (...

Job Title:  Java Developer - Bioinformatics Salary:  35000-45000 Per Annum Excellent benefits Location:  Surrey Description:  Java Developer, Permanent, Guildford, £35-45k + excellent benefits and package Is a leading software solutions company for the pharmaceutical industry. A new opportunity has become available for a Java Developer with Bioinformatics to join a dedicated team to help develop software solutions to accelerate the drug discovery process. Key responsibilities include: Designing and implementing new products; maintenance work on existing products; mentoring other developers; helping to evangelize technology and component use throughout the company. The successful candidate will be a Java developer with a strong understanding of Bioinformatics. The ideal candidate will also have a working knowledge of J2EE/ JBOSS, Java Swing, JavaScript libraries and SQL but this is a nice to have. Please contact Tom Hildreth for immediate consideration and...

Senior Bioinformatics Analyst Requirements: - PhD or equivalent experience in life science / biology. - 4+ years demonstrated success in working in the life sciences, preferably in an industry research settings. -In-depth understanding, analysis and processing of data from various post genomic technologies and their applications. - In-depth knowledge in gene expression (genotyping, chromosomal copy number, SNPs, gene signatures) and sequencing -Wide understanding of commercially available bioinformatics/clinical genomics tools and databases -Ability to handle complex / multi projects in rapidly changing environment. - Good knowledge on Perl, C / java and any relational databases. Responsibilities: - Analyzing and documenting project requirements. -Developing biocomputing algorithms for tools development and data analysis. -Performing biological analysis on data from various domains like gene expression, sequencing , molecular lab. -Co-ordination with sales team on projects to understan...

BioSLAX is a new live CD/DVD suite of bioinformatics tools that has been released by the resource team of the BioInformatics Center (BIC), National University of Singapore (NUS). Bootable from any PC, this CD/DVD runs the compressed SLACKWARE flavour of the LINUX operating system also known as SLAX . SLAX is becoming the live CD/DVD of choice because of its ability to modularize almost any application and plug it into the system on the fly. The system can also be installed to USB thumb drives or directly to the PC as a regular Linux using the BioSLAX installer provided. It consists of commonly used Bioinformatics Applications, Software and Algorithms. For Download, http://www.bioslax.com/downloads.shtml

Sciclips has recently launched a unique database of bioinformatics tools and software for reserchers. This database contains links to more than 2000 web-based bioinformatics and software tools for DNA, RNA, proteins, genomics, proteomics, drug discovery research and many more. This database is the largest online collection for bioinformatics tools and software that is freely available to the researchers. This one-stop extensive bioinformatics database will help researchers in retrieving, analysing the most relevant biological data and extracting information from them efficiently for genomics, proteomics and drug discovery and other areas of research. Bioinformatics Tools and Database Protocols

Several position http://www3.ocimumbio.com/about/careers/ http://www.mgrc.com.my/careers.shtml http://www.biobase-international.com/index.php?id=400 http://www.polyclonebio.com/opportunities.html http://www.genedata.com/company/careers/ch-gdp-2006.html http://www.biomatters.com/default,24,careers.sm http://www.atgclabs.com/Jobs.html http://www.clcbio.com/index.php?id=12 XTractor Premium - A Platform for discovery , knowledge sharing, analysis and modelling of published biomedical facts. The only Knowledgebase which provides "manually" annotated facts from PubMed on a weekly basis Innovative Features like Semantic Search , Concept Linking , Bibliographic search , Save, Export and Visualize Only Knowledgebase with daily updations from PubMed XTractor Premium now at an Special Introductory Offer. Subscribe now and save! Request for a Trial

CambridgeSoft's Business Partner in Kochi, India is hiring for multiple positions. The following is a list of available positions: Lead Developer - Desktop - ChemBio3D (Kochi, India) Developer - Enterprise - Network Communication and Distributed Computing (Kochi, India) Developer - Desktop - User Interface (Kochi, India) Developer - Desktop - Numerical Methods (Kochi, India) Lead Developer - Enterprise - Inventory (Kochi, India) Lead Developer - Enterprise (Kochi, India) Developer - Enterprise - (C++) (Kochi India) Developer - Enterprise - E-Notebook Support Analyst (Kochi, India) Developer - Desktop - ChemDraw (Kochi, India) Lead Developer - Enterprise - E-Notebook (Kochi, India) Developer - Enterprise - Database Specialist (Kochi India) Developer - Desktop – Core Chemistry Team (Kochi India) Developer - Desktop - Chemical Database (Kochi, India) All positions in Kochi, India are full time with our business partner. Details can be found online at: h...

CambridgeSoft's Business Partner in Kochi, India is hiring for multiple positions. If you know any appropriate candidates, with a chemistry or biochemistry background. The following is a list of available positions: Team Lead - coordinating the activities of small software development teams: http://www.cambridgesoft.com/careers/details/?Career=115 3D Team Leader : http://www.cambridgesoft.com/careers/details/?Career=228 Developer - Network Communications and Distributed Computing : http://www.cambridgesoft.com/careers/details/?Career=230 Developer Numerical Methods: http://www.cambridgesoft.com/careers/details/?Career=234 Senior Lead Developer : http://www.cambridgesoft.com/careers/details/?Career=225 Scientific Software Developer C++ : http://www.cambridgesoft.com/careers/details/?Career=14 Lead Developer E-Notebook : http://www.cambridgesoft.com/careers/details/?Career=81 E-Notebook Enterprise Support Analyst : http://www.cambridgesoft.com/careers/de...

Microsoft has signed an agreement to acquire Rosetta Biosoftware , a unit of Rosetta Inpharmatics, from parent company Merck for undisclosed consideration. Microsoft said that the deal will enable it to add genetic, genomic , metabolomic , and proteomic data management software into its own Amalga Life Sciences platform for "enhanced translational research capabilities." Merck will become a customer of the Amalga Life Sciences 2009 platform and provide "strategic input" to Microsoft on the evolution of new solutions that incorporate Rosetta Biosoftware technologies, Microsoft said. The Redmond, Wash.-based software giant launched the Amalga Life Sciences 2009 platform in April. "The newly combined offering will enable customers to improve the management and analysis of genomic, biological and research data , helping to bring lifesaving drugs and therapies to market faster and accelerate the realization of personalized medicine," Peter Neupert, corpora...

In a paper called "Metagenome Annotation Using a Distributed Grid of Undergraduate Students" I just love this title! It's nerdy and cute, all at the same time. Says Sandra Porter . The paper describes a class where students from Marseilles University investigate the function of unidentified genes from a Global Ocean Sampling experiment. All the sequences are obtained from the environmental sequence division at the NCBI . French researchers describe their strategy for teaching undergraduate-level bioinformatics using cutting-edge genomic data and a Web-based learning tool. The students then annotated real metagenomic sequences from the Global Ocean Sampling experiment. "In return for their much-needed help sorting out oodles of DNA data, the undergrads gain a practical knowledge of the work involved in doing bioinformatics and metagenomics, and, most importantly of all, they get to experience what it's like to do real research," says Karen James at the Be...

DNA is pretty straight forward. With its simple composition and linear structure, it easily lends itself to mathematical models. Not so with proteins. In fact, proteins are an order of magnitude more complex than DNA. It is proteins, not DNA, that carry out the cell's heavy lifting. However, with their intricately folded three-dimensional shapes determining a seemingly endless range of possible functions and their manifold interactions with other proteins and with DNA, the leg-work required to mathematically capture the protein universe seems absurd. That is why a team of Harvard Medical School researchers have decided to attack this issue from an entirely new angle. Rather than build a mountain range of proteomic data one grain of dirt at a time, they have developed a computer program that can take on the responsibility of assembling such a gargantuan model. "Through incorporating principles of engineering, we've developed a language that can describe biology in the same ...

goosh.org - the unofficial google shell ( http://goosh.org /). It is pretty neat and useful in its neonatal state itself, like to read a feed, you can type, for eg: r http://www.google.com/reader/public/atom/user/11136726768885096694/label/cbn-roll and gets default 4 latest feeds, or you can check out a ncbi accession by typing, for eg: NP_001108376 and get to the Fugu fish refseq link. The most useful thing is the fact that it it text based and quite easy to parse visually as well as via scripts. Another cool feature for me right now is the shell translation, like to get the english word for the norwegian word 'hvor', all I have to do is type: t no en hvor which correctly says: translating "hvor" from "no" to "en": "where" More discussion going on at http://tech.slashdot.org/article.pl?sid=08/06/02/222234&from=rss . Enjoy!

Integrative Visual Analysis Tool for Biological Networks and Pathways Already blogging on the topic Structured Digital Abstracts - Easier Literature Searching dicussing the inportance of networks in the form of interactions, and further in several others about visualization tools, here is one more. The essence of a living cell is adaptation to a changing environment, and a central goal of modern cell biology is to understand adaptive change under normal and pathological conditions. Because the number of components is large, and processes and conditions are many, visual tools are useful in providing an overview of relations that would otherwise be far more difficult to assimilate. Historically, representations were static pictures, with genes and proteins represented as nodes, and known or inferred correlations between them (links) represented by various kinds of lines. The modern challenge is to capture functional hierarchies and adaptation to environmental change, and to di...