Microbial Genomes Curator @ Computercraft Corporation--Maryland (US)

Microbial Genomes Curator @ Computercraft Corporation--Maryland (US). Submitted by Computercraft Corporation; posted on Saturday, March 17, 2012

RESPONSIBILITIES:
Computercraft seeks a microbiologist to work with a team of software developers and biologists on microbial genome analysis including pan-genome, protein clusters, phylogenetic tree and more. This is a technically challenging position requiring experience in genome sequencing and annotation. A background in comparative genome analysis such as alignments and tree building is a plus.

Our scientists work with genomic experts at the NIH's National Center for Biotechnology Information (NCBI) to create and enhance a suite of databases and tools available to researchers worldwide. Teamwork interaction and excellent organizational skills are essential for this detail-oriented position, as is scientific problem-solving with a results-oriented focus.

REQUIREMENTS:
* PhD in molecular biology, microbiology, or related field
* Experience in genome sequencing and annotation
* Familiarity with BLAST, genome browser, and genome assembly data
* Excellent verbal and written communication skills as well as organizational skills
* Strong interest in contributing to the development of public database resources

PREFERENCES:
Other Desirable Skills:
* Programming experience with LINUX/UNIX
* Scripting experience in PERL or related scripting languages

COMPENSATION:
Computercraft offers a competitive salary and an excellent benefits package including PPO health insurance with 100% company paid premiums, 401K program with matching, paid time off and holiday pay, life insurance, flexible spending and disability coverage. We offer an excellent work life balance with a standard 40 hour work week and the chance to work alongside accomplished scientists at NIH/NCBI.

HOW TO APPLY:
To apply for this position or learn about other Computercraft job opportunities, please visit the Careers section of our website: http://www.computercraft-usa.com/

POLICY:
Computercraft is an equal opportunity employer.

Bioinformatics position

Courtesy Bioclues

Are you a skilled bioinformatician? Do you have experience with analysis and integration 

of large data sets? Would you like to work with leading experts and constantly improve 

your skills? Then you may be Intomics’ next bioinformatician.

We are expanding our bioinformatics team and are seeking a skilled bioinformatician to 

help the team provide innovative solutions for our clients in the pharmaceutical industry. 

You will play an important role in implementing data mining strategies for projects in 

areas such as target identification, biomarker identification, disease systems biology, and 

translation research.

Our preferred candidate has the following profile:

• Bioinformatics or computational biology background
• Experience with large-scale data mining
• Strong experience with programming (e.g.  Perl,  Python,  Java),  databases (e.g. MySQL, PostgreSQL), and Unix
• Excellent communication skills and the ability to work in a team
• Strong reporting and documentation skills
• A PhD in bioinformatics or systems biology is an advantage, but not a requirement
• A solid understanding of basic molecular biology
• Experience with several large scale data types is further an advantage

We are offering an  exciting and challenging job, where you get the opportunity to 

develop your skills and qualifications. You will get to work with interesting projects  in 

close collaboration with our clients.  Intomics A/S offers  a competitive salary  and  a 

friendly working environment. Some traveling must be expected.

Applications should be submitted electronically before 31st of January 2011 by email to 

applications@intomics.com marked with “application-1182” in the subject header.

Enquiries about the position can be made to CEO Thomas S. Jensen, tel: +45 88807979 

or  skot@intomics.com. All interested candidates irrespective of age, gender, race, or 

religion are encouraged to apply.

EMBO Courses, Workshops & Conference Series

Practical Course - European Molecular Biology Organization

Bioinformatics & Comparative Genome Analyses

27 June - 09 July, 2011 |Institute Pasteur | Paris | France

About the Practical Course

In the context of large-scale genome comparisons, the main objectives of this general purpose practical course are to strengthen capacities of students in Bioinformatics and data analyses skills by introducing reviews on advanced fundamental algorithms used in Bioinformatics and their applications in genome studies. 

Theoretical presentations will be followed by practical sessions, so that the same speaker will ensure links between theory and practice.

Reviews on each suggested topic will include their corresponding research perspectives, aiming at helping young scientists to gain insights into ongoing research in this domain. 

The course topics will include theoretical and practical aspects in: large-scale genome comparisons, evolutionary analyses, sequence and genome alignments, orthologs prediction and classification, Genome data visualization and statistical methods needed in Genome Wide Association Studies. 

Lectures related to recent hot topics in Bioinformatics and Genome studies will be programmed. 

Practical sessions in a Linux environment will involve Unix shell and Perl scripting. Students are expected to be familiar with this environment. 

Similar previous course programmes can be found here: 

Who can attend the course:
The course is aimed at motivated Phd students and young researchers in academic Institutions with background in Mathematics, Statistics, computing or Biology and who are involved in Bioinformatics and Genome Analyses. The course is intense and active participation of the students is expected.

Do you wish to know more?

Application/Resource Developer Position @ Linguamatics

Linguamatics is currently seeking a talented post graduate with experience of natural language processing to work on leading edge text mining products.

You will be responsible for developing and maintaining resources for domain specific adaptation of real-time semantic search software based on Natural Language Processing. Working closely with application scientists and the development team, you will ensure that the combination of software and resources satisfies customer requirements. This will include developing linguistic patterns, and programs to transform domain specific terminologies into common formats and keep them up-to-date. You will be working on life science applications, and some knowledge of the Pharmaceutical or Healthcare industry would be useful.In addition to resource and application development, you will be expected to contribute to ongoing UK or EU funded research projects as part of the research and resource development team.

You will have strong communication skills and be able to work with other staff to get across ideas and issues and to respond to requirements. You must also enjoy working in a fast-moving start-up environment, which requires multi-tasking, flexibility and the ability to work in a small, highly motivated team.

Requirements

The ideal candidate will have the following skills and experience:

• Post graduate qualification in computational linguistics or related discipline, including a good understanding of grammar.
• Research experience, preferably in a commercial setting
• Good interpersonal and communication skills
• Attention to detail
• Strong programming skills, ideally with experience of Java or C and a scripting language such as Perl

Additionally, the following attributes would be advantageous:

• Research experience, preferably in a commercial setting
• Background in or experience of the Life Science sector
• Experience in using ontologies

Company Profile

Linguamatics is a leading provider of text mining solutions based on innovative use of semantic and natural language processing (NLP) technology. Our software is acknowledged as the leading solution in the pharmaceutical and biotech industry and has been adopted by most of the top pharmaceutical companies.

This is a challenging and exciting role in a young, growing company. If you think you have the right skills and experience, and are ready to make an outstanding contribution to the team and the success of our business, please send your CV with a covering letter by email to:

Sarah Mansfield
Linguamatics Ltd
St Johns Innovation Centre
Cowley Rd
Cambridge CB4 0WS, UK

Email: jobs@linguamatics.com

www.linguamatics.com

Bioinformatics Workshops @ Lucknow

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 

A comparison of common programming languages used in bioinformatics

The electronic version of this article is the complete one and can be found online at:http://www.biomedcentral.com/1471-2105/9/82

Abstract

Background

The performance of different programming languages has previously been benchmarked using abstract mathematical algorithms, but not using standard bioinformatics algorithms. We compared the memory usage and speed of execution for three standard bioinformatics methods, implemented in programs using one of six different programming languages. Programs for the Sellers algorithm, the Neighbor-Joining tree construction algorithm and an algorithm for parsing BLAST file outputs were implemented in C, C++, C#, Java, Perl and Python.

Results

Implementations in C and C++ were fastest and used the least memory. Programs in these languages generally contained more lines of code. Java and C# appeared to be a compromise between the flexibility of Perl and Python and the fast performance of C and C++. The relative performance of the tested languages did not change from Windows to Linux and no clear evidence of a faster operating system was found.

Source code and additional information are available from http://www.bioinformatics.org/benchmark/webcite

Conclusion

This benchmark provides a comparison of six commonly used programming languages under two different operating systems. The overall comparison shows that a developer should choose an appropriate language carefully, taking into account the performance expected and the library availability for each language.

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