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Latest announcements
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BACKGROUND:
Ginkgo BioWorks is a young company out of MIT with the mission of making biology easier to engineer. We engineer organisms to address fundamental challenges the world is facing today. We aren't trying to study biology, we are trying to build it - constructing, editing, and redesigning the living world. Our bioengineers make use of an in-house pipeline of synthetic biology technologies to design and build new organisms.
RESPONSIBILITIES:
You will be working closely with our biological engineers to write the code that provides the backbone for our synthetic biology pipeline. Work may include programming to control robotic DNA construction, automate measurement processes, design genes and genomes, or manage our process workflow for building organisms. It will depend what's most important once you start - this is a fast moving field and we're a young company.
REQUIREMENTS:
- You don't need previous biology experience: Ginkgo is a great environment for amazing programmers to learn to hack biology.
- Ginkgo's programming languages of choice are Ruby, Python, C, or DNA, but you must be someone who loves writing elegant code in any language.
- Most importantly, you should be passionate about engineering biology.
TERMS:
Applicants must be able to start within 6 months.
HOW TO APPLY:
Please visit: [link]
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BACKGROUND:
Sandia National Laboratories is the nation's premier science and engineering lab for national security and technology innovation. We are a world-class team of scientists, engineers, technologists, post docs, and visiting researchers all focused on cutting-edge technology, ranging from homeland defense, global security, biotechnology, and environmental preservation to energy and combustion research, computer security, and nuclear defense.
To learn more, visit:
California Website: http://ca.sandia.gov/casite/
New Mexico Website: http://www.sandia.gov/
REQUIREMENTS:
- Bachelors degree in Bioinformatics, Computer Science, Computer Engineering, or four years of relevant software engineering experience or education
- Ability to operate in a UNIX/Linux operating environment
- Fluency in object-oriented Perl, and one or more relational database management systems. Knowledge of one or more programming languages such as C++, C#, R, Java. Familiarity with web technologies such as HTML, CSS, PHP, Ajax
- Programming expertise in statistical analyses software packages, such as SAS, MATLAB, Mathematica and/or the R Project for Statistical Computing, languages and tools
PREFERENCES:
- Parallel and grid-based computing programming experience
- Ability to support production data management and software pipeline operation
- Ability to provide support to senior-level scientific staff
POLICY:
Sandia is required by DOE directive to conduct a pre-employment background review that includes personal reference checks, law enforcement record and credit checks, and employment and education verifications.
Applicants for employment must be able to obtain and maintain the appropriate DOE security clearance if required for a position. Applicants offered employment with Sandia are subject to a federal background investigation to meet the requirements for employment including access to classified information or matter.
Substance abuse or illegal drug use, falsification of information, criminal activity, serious misconduct or other indicators of untrustworthiness can cause a clearance to be denied by the DOE, rendering the inability to perform the duties assigned and resulting in termination of employment.
Sandia is a Department of Energy (DOE) national laboratory; as such, many of our jobs require a DOE security clearance, which requires U.S. citizenship. If this position requires a Department of Energy (DOE)-granted security clearance, U.S. citizenship and employee eligibility for clearance processing will be required at the time of hire.
If you hold dual citizenship and you accept a job offer for a position that requires a DOE-granted security clearance, you may be asked by DOE to renounce your foreign citizenship and retain only your U.S. citizenship.
LOCALE: Albuquerque, NM
COMPENSATION: DOE
HOW TO APPLY:
Visit http://tinyurl.com/233kmec and submit your resume.
DEADLINE: October 31, 2010
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BACKGROUND:
The HGSC Next-Generation Sequencing Informatics group is looking for a highly motivated individual with a strong computer science background who is excited by the computational challenges of high-throughput genomic sequencing.
With the rapidly advancing and improving next-generation DNA sequencing technologies, there is an ever-increasing data volume that stresses the computational resources used to process and analyze this data.
RESPONSIBILITIES:
Responsibilities include all aspects of NexGen sequence analysis; this consists of the actual sequencing instruments, data transfer pipelines, analysis pipelines and downstream analysis.
The candidate will be working with a group of four developers with the main objective of delivering high quality, stable, maintainable and scalable software that allows us to keep up with the dynamics of the NexGen sequencing field. Systems knowledge is a plus as the candidate will be interacting with our systems administration team.
The HGSC work environment is active and energized, with a strong team spirit and dedication to delivering the world-class scientific results with tight schedules and modest budgets. We are always looking for new ideas, methodologies and technologies that help us deal with the interesting problems we face on a daily basis.
REQUIREMENTS:
- A UNIX enthusiast with deep knowledge of UNIX/Linux at the user/programmer level
- Solid understanding of Computer Science & Software Engineering Principals
- Expert knowledge in at least one scripting language (preferably Ruby, Perl, or Python)
- Some C/C++ Experience
- High-performance Cluster Computing Experience (LSF or moab a plus)
PREFERENCES:
- Distributed programming experience
- Computational Genomics and/or Bioinformatics experience
- Developer/Maintainer of Open Source Project(s)
HOW TO APPLY:
Qualified candidates should submit curriculum vitae/resume via mail, e-mail or fax to:
BCM Human Genome Sequencing Center
Attn: Roxanne Reyna
One Baylor Plaza – BCM 226
Houston, Texas 77030
Email: rbeltran@bcm.tmc.edu
Fax: 713-798-5741
Our positions are processed through the Baylor College of Medicine Human Resources Department. You will also need to apply for this position by visiting the BCM employment website at http://www.medschooljobs.org.
POLICY:
Baylor College of Medicine is an Equal Opportunity, Affirmative Action, and Equal Access Employer.
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RESPONSIBILITIES:
A bioinformatics analyst position is available in a human population genetics and genomics laboratory at the Human Genome Sequencing Center at Baylor College of Medicine in Houston, Texas. The successful candidate will have the opportunity to work on projects related to medical re-sequencing and the genomics of human populations. Research topics in the laboratory include understanding the human genetic susceptibility to disease, exploring the effects of admixture and selection on population structure, and mutation dynamics. Projects require genomewide analyses of genetic diversity utilizing large datasets generated by next-generation sequencing and whole genome SNP genotyping.
REQUIREMENTS:
- A suitable candidate should have a degree in a quantitative field, such as statistics, computational biology, or computer science, with interest in genetics/genomics.
- Candidates with degrees in genetics or related fields with strong computational and statistical expertise are also encouraged to apply.
- A successful candidate will have expertise in scientific programming (preferably in C/C++, PERL), UNIX/Linux operating systems, and possession of excellent communication and writing skills.
COMPENSATION:
Salary is commensurate with education and qualifications.
HOW TO APPLY:
Applicants should submit a statement of research interests, curriculum vitae, and names, telephone numbers, and email addresses of three referees to:
Penelope E. Bonnen, Ph.D.
Department of Molecular and Human Genetics
Baylor College of Medicine
E-mail: pbonnen@bcm.edu
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BACKGROUND:
SAIC-Frederick, Inc., is a wholly owned subsidiary of Science Applications International Corporation (SAIC). As prime contractor for the National Cancer Institute’s research and development center in Frederick, MD, this national laboratory is dedicated to rapidly translating basic research into new technologies for diagnosing, treating, and preventing cancer and AIDS. SAIC-Frederick maintains a full suite of advanced technologies in areas such as nanotechnology, genomics and imaging; operates the federal government’s only drug and vaccine manufacturing facilities; operates the high-performance Advanced Biomedical Computing Center; and supports more than 300 clinical trials for patients in the US and around the world.
THIS POSITION IS AN AMERICAN RECOVERY AND REINVESTMENT ACT (ARRA) FUNDED POSITION.
RESPONSIBILITIES:
SAIC-F is seeking a Senior Scientist to provide leadership in bioinformatics and biostatistical analysis for ARRA National Cancer Institute (NCI) Programs. These NCI programs include The Cancer Genome Atlas (TCGA) (http://cancergenome.nih.gov), Therapeutically Applicable Research to Generate Effective Treatments (TARGET) (http://target.cancer.gov), and the Cancer Genome Characterization Initiative (http://cgap.nci.nih.gov/cgci.html). Goals of the analysis include assessing the technical quality of data, assessing the scientific quality of data, comparing newly generated data with existing data, and developing novel hypotheses about cancer biology, diagnosis, tumor progression, and therapies. The Senior Scientist will provide scientific and technical leadership for this analysis work and work closely with other scientists within SAIC-F and the Center for Biomedical Informatics and Information Technology (CBIIT). Some projects will be broadly defined and will require a high level of initiative and responsibility. For example, may be tasked with identifying mutations and copy number alterations that appear to be driving tumor progression or characterizing tumor subtypes in a given data set. Other projects will be more narrowly defined. For example, possible projects include computing the sequence read coverage for all exons in a given set of genomic sequence data. Several projects may be active concurrently.
REQUIREMENTS:
- In addition to education requirements, a minimum of five (5) years of competent, innovative research in a related field
- Must have significant experience with bioinformatics and biostatistics in the area of cancer research
- The ability to direct the work of other bioinformatics and biostatistical analysis
- An understanding of current method of DNA and RNA sequencing; experience in analyzing high-throughput genomic data, including genotype, genomic sequence and gene expression data
- Experience in applying algorithms for computing sequence homology, for mapping sequence reads to reference genomic sequence, and for detecting sequence variation
- Experience in correlating molecular and clinical measures and in applying algorithms for clustering and classifying samples by molecular measures
- Understanding of current methods of measuring gene and miRNA expression and alterations in genomic copy number and heterozygosity
- Must have outstanding oral and written communication skills and the ability to completely define an analytical approach for defined scientific questions.
- This position is subject to obtaining a Public Trust Clearance.
PREFERENCES:
- Experience directing the work of others and expertise in biostatistics, bioinformatics algorithms, and programming languages such as R or scripting languages such as Perl
- Experience in managing development and deployment of applications and services that are subject to the regulatory requirements in the clinical trials regulatory domain
- These regulatory requirements include 21 CFR Part 11, HIPPAA, FISMA, Section 508 of the Rehabilitation Act, and OMB Memorandum M-06-16.
HOW TO APPLY:
Please visit http://www.saic-frederick.com/careers for more information and to apply.
REFERENCE: Req ID 182207
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RESPONSIBILITIES:
The Bioinformatics Engineer will work on the curation and annotation of the M. truncatula genome sequence. Responsibilities will include design and maintenance of web pages providing access to Medicago genome sequence and annotation and associated data, including outreach to the users through a community annotation portal. The ideal candidate will have previous experience with large scale eukaryotic genomics at both sequence assembly and annotation levels, including familiarity with next generation sequence data sets.
REQUIREMENTS:
- Successful candidates will have at least a Bachelor’s or Master’s degree in Biology or Computer Science/Software Engineering (and a familiarity with the other discipline) with significant experience is large scale sequence analysis and genome annotation.
- Candidates will also have a demonstrated competence in deploying bioinformatics tools and techniques and in relevant technologies including scripting languages (Perl, Python, shell) and associated tools, web technologies (HTML, DHTML, XML, CSS, and JavaScript) and graphics tools (Photoshop, Image Ready, Fireworks or similar).
- Experience with relational database (Oracle, Postgres, MySQL, and related tools including SQL and PL/SQL) design, data warehousing is essential as is familiarity with a range of operating systems: UNIX and UNIX variants, Windows, Macintosh, and Grid technologies, including Sun Grid Engine.
- Strong written and verbal communication skills, excellent organization and time management skills, ability to meet schedules, the ability to collaborate across a multi-disciplinary team, and work independently are expected.
HOW TO APPLY:
JCVI offers an excellent working environment and a competitive benefits package. For more info or to apply, visit our web site at http://www.jcvi.org.
POLICY:
Equal Opportunity Employer M/F/D/V
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BACKGROUND:
SymBioSys is a consortium of computational and molecular biologists and (cyto)geneticists at the University of Leuven (Belgium) focusing on the detection of individual genomic variation, how it arises and leads to specific types of constitutional disorders and cancer. We develop innovative computational strategies for the analysis of next-gen sequencing data and biological networks, with demonstrated impact on actual biological breakthroughs.
Related SymBioSys Publications:
- Vanneste E et al. Chromosome instability is common in human cleavage-stage embryos. Nat Med. 2009;15(5):577-83.
- Vanneste E et al. What next for preimplantation genetic screening? High mitotic chromosome instability rate provides the biological basis for the low success rate. Hum Reprod. 2009; 24(11):2679-82.
- Le Caignec C et al. Single-cell chromosomal imbalances detection by array CGH. Nucleic Acids Res. 2006;34(9):e68.
RESPONSIBILITIES:
The candidate will be a key player in a work package focused on the development and application of massive parallel sequencing-based methodology to detect genetic variants in the genome of a single cell, with an initial emphasis on structural variant detection. We have as a consortium established expertise in single cell genomics by combining state-of-the-art microarray-based methods with novel bioinformatic and statistical approaches which led to the discovery of chromosome instability, a hallmark of cancer, in early human embryogenesis as well as to a number of very recent international collaborations with top researchers in the field of embryo-genetics, cancer-genetics and neuro-genetics. Part of these methods is now being evaluated in a clinical trial.
Specifically, the candidate will develop sequencing-based methodology using paired-end mapping and read depth strategies to detect copy number variants (deletions, duplications, amplifications), balanced structural variants (inversions, insertions, translocations) as well as other variants (retrotransposition, SNPs, mutations) in a genome of a single (human) cell and apply this ethodology to gain novel insight in genetic stability, the etiology of constitutional and acquired genetic variation, and tumour biology. This involves day-to-day collaboration with other postdocs who develop bioinformatic strategies for genetic variant detection and visualization based on massive parallel sequence analysis of genomic DNA extracted from blood or tumors.
The candidate will collaborate closely with researchers across the consortium and contribute to the reporting of the project. Qualified candidates will be offered the opportunity to work semi-independently under the supervision of a senior investigator, mentor PhD students, and contribute to the acquisition of new funding.
REQUIREMENTS:
- The ideal candidate holds a PhD degree in bioinformatics-genomics with a good understanding of genetics and DNA sequencing technology and has experience in molecular biology.
- The position necessitates good analytical, algorithmic and mathematical skills.
- Programming and (statistical) data analysis experience is essential.
- Good communication skills are important for this role.
- A three-year commitment is expected from the candidate.
PREFERENCES:
- Prior experience working with (Illumina) sequencing data and/or assembly / alignment of next-generation data as well as a PhD relating to the development and application of methods for genome-wide detection of genetic variation would be a distinct advantage, but is not required.
TERMS:
Start date is as early as practical.
COMPENSATION:
We offer a competitive package and a fun, dynamic environment with a top-notch consortium of young leading scientists in bioinformatics, human genetics, and cancer. Our consortium offers a rare level of interdisciplinarity, from machine learning algorithms to fundamental advances in molecular biology to direct access to the clinic.
LOCALE:
This research will be performed at the intersection of the Department of Human Genetics, the Department of Electrical Engineering and the Genomics Core Facility. You will be part of the Department of Human Genetics which is a vivid international research centre that studies key issues relevant to human health. The University of Leuven is one of Europe’s leading research universities, with English as the working language for research. Leuven is one of Europe’s most beautiful university towns, just outside Brussels, at the heart of Europe.
HOW TO APPLY:
Please send in PDF: (1) a CV including education (with Grade Point Average, class rank, honors, etc.), research experience, and bibliography, (2) a one-page research statement, and (3) three references (with phone and email) to Thierry.Voet@med.kuleuven.be, Cc Prof. Jan Aerts - Jan.Aerts@gmail.com and Prof. Joris Vermeesch - Joris.Vermeesch@med.kuleuven.be.
DEADLINE: October 15, 2010
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BACKGROUND:
SymBioSys is a consortium of computational scientists and molecular biologists at the University of Leuven, Belgium focusing on how individual genomic variation leads to disease through cascading effects across biological networks (in specific types of constitutional disorders and leukemias). We develop innovative computational strategies for next-generation sequencing and biological network analysis, with demonstrated impact on actual biological breakthroughs.
Related Publications:
- Conrad D, Pinto D, Redon R, Feuk L, Gokumen O, Zhang Y, Aerts J, Andrews D, Barnes C, Campbell P et al. Origins and functional impact of copy number variation in the human genome. Nature 464:704-712 (2010)
- Li H & Durbin R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25(14):1754-1760 (2009)
- Medvedev P, Stanciu M & Brudno M. Computational methods for discovering structural variation with next-generation sequencing. Nat Methods 6(11):S13-S20 (2009)
- Korbel JO, Urban AE, Affourtit JP, Godwin B, Grubert F, Simons JF, Kim PM, Palejev D, Carriero NJ, Du L et al. Paired-end mapping reveals extensive structural variation in the human genome. Science 318:420-426 (2007)
- Nielsen CB, Cantor M, Dubchak I, Gordon D & Ting W. Visualizing genomes: techniques and challenges. Nat Methods 7:S5-S15 (2010)
URL link:
[link]
RESPONSIBILITIES:
The candidate will be a key player in the work package that focuses on genomic variation detection based on next-generation sequencing data and visualization. This will include applying and improving existing algorithms and tools for the detection of SNPs and indels as well as structural variation (insertions, deletions, inversions and translocations) based on read-pairs, read depth and split reads. In addition, the candidate will develop standards and a methodology to visualize structural variation to make the sequencing results comprehensible to the end user and allow for visual pattern detection. These methods will be applied to specific genetic disorders in day-to-day collaboration with the human geneticists within the consortium.
The candidate will collaborate closely with researchers across the consortium and contribute to the reporting of the project. Qualified candidates will be offered the opportunity to work semi-independently under the supervision of a senior investigator, mentor PhD students, and contribute to the acquisition of new funding.
REQUIREMENTS:
- The ideal candidate holds a PhD degree in bioinformatics/genomics with a good understanding of genetics and DNA sequencing technology.
- The position requires good analytical, algorithmic and mathematical skills.
- Programming and (statistical) data analysis experience is essential.
- Good communication skills are important for this role.
- A three-year commitment is expected from the candidate.
PREFERENCES:
- Prior experience working with (Illumina) sequencing data, i.c. assembly and alignment of next generation data, as well as a PhD relating to the development and application of methods for genome-wide detection of genetic variation would be a distinct advantage, but is not required.
- Experience in data visualization - e.g. within R or using tools like Processing (http://processing.org) - would also be considered a plus.
TERMS:
Start date is as early as practical.
COMPENSATION:
e offer a competitive package and a fun, dynamic environment with a top-notch consortium of young leading scientists in bioinformatics, human genetics and cancer. Our consortium offers a rare level of interdisciplinarity, from machine learning algorithms to fundamental advances in molecular biology to direct access to the clinic.
LOCALE:
The University of Leuven is one of Europe’s leading research universities, with English as the working language for research. Leuven is one of Europe’s most beautiful university towns, just east of Brussels, at the heart of Europe.
HOW TO APPLY:
Please send in PDF: (1) a CV including education (with Grade Point Average, class rank, honors, etc.), research experience, and bibliography, (2) a one-page research statement, and (3) three references (with phone and email) to Dr Jan Aerts (jan.aerts@gmail.com), cc Dr Diether Lambrechts (diether.lambrechts@vib-kuleuven.be) and Dr Joris Vermeesch (Joris.vermeesch@uz.kuleuven.ac.be).
DEADLINE: October 15, 2010
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BACKGROUND:
SymBioSys is a consortium of computational scientists and molecular biologists at the University of Leuven, Belgium focusing on how individual genomic variation leads to disease through cascading effects across biological networks (in specific types of constitutional disorders and leukemias). We develop innovative computational strategies for next-gen sequencing and biological network analysis, with demonstrated impact on actual biological breakthroughs.
Related SymBioSys Publications:
- Nitsch D. et. al. Network analysis of differential expression for the identification of disease-causing genes. PLoS One. 2009.
- De Bie T. et al. Kernel-based data fusion for gene prioritization. Bioinformatics. 2007.
- Lage K. et al. A human phenome-interactome network of protein complexes implicated in genetic disorders. Nat Biotechnol. 2007
- Van Vooren S. et al. Mapping biomedical concepts onto the human genome by mining literature on chromosomal aberrations. Nucleic Acids Res. 2007
- Aerts S. et al. Gene prioritization through genomic data fusion. Nat Biotechnol. 2006. Application
URL link:
[link]
RESPONSIBILITIES:
The candidate will be a key player in a work package focused on network and kernel algorithms for the integration of heterogeneous biological data towards the identification of disease causing genes. Two research topics are available: (1) advanced kernel methods for the integration of heterogeneous biological data and (2) combining text mining with network analysis to develop a versatile search and discovery engine for disease genes. Those methods will be applied to specific genetic disorders in day-to-day collaboration with the human geneticists of the consortium.
The candidate will collaborate closely with researchers across the consortium and contribute to the reporting of the project. Qualified candidates will be offered the opportunity to work semi-independently under the supervision of a senior investigator, mentor PhD students, and contribute to the acquisition of new funding.
REQUIREMENTS:
- The ideal candidate holds a PhD relating to the development and application of machine learning or network analysis algorithms for the integration of biological data or the analysis of biological networks.
- A three-year commitment is expected from the candidate.
PREFERENCES:
- Expertise in kernel methods or text mining is a plus, as well as strong communication skills and interdisciplinarity.
TERMS:
Start date is as early as practical.
COMPENSATION:
We offer a competitive package and a fun, dynamic environment with a top-notch consortium of young leading scientists in bioinformatics, human genetics, and cancer. Our consortium offers a rare level of interdisciplinarity, from machine learning algorithms to fundamental advances in molecular biology to direct access to the clinic.
LOCALE:
The University of Leuven is one of Europe’s leading research universities, with English as the working language for research. Leuven is one of Europe’s most beautiful university towns, just outside Brussels, at the heart of Europe.
HOW TO APPLY:
Please send in PDF: (1) a CV including education (with Grade Point Average, class rank, honors, etc.), research experience, and bibliography, (2) a one-page research statement, and (3) three references (with phone and email) to Prof. Yves Moreau, c/o Ms. Ida Tassens – ida.tassens@esat.kuleuven.be.
DEADLINE: October 15, 2010
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BACKGROUND:
The Broad Institute was launched to pioneer a new model of collaborative biomedical science that would transform medicine. To accomplish these goals, we have built an amazing team of talented Broadies who work together to realize this transformation.
We are always looking for new Broadies to join our team and help us tackle important problems at the cutting edge of science.
The Broad community includes professional scientists from many disciplines, administrative staff, and students. We seek to cultivate an interdisciplinary, goal-oriented work environment that unleashes scientific creativity and empowers our people to pursue ambitious and critical projects.
RESPONSIBILITIES:
This position requires scientific knowledge, technical expertise, creativity and outstanding practical laboratory skills to design and execute projects within the Molecular Biology Research & Development of the Genome Sequencing and Analysis Program. Projects will focus on developing novel methods for multiple viral genome sequencing projects as part of a larger collaborative enterprise. Research will concentrate on, but is not limited to, optimization of sample preparation and library construction, technology development and pilot studies for determining the genome sequence of viruses from RNA and DNA templates using new sequencing technologies. The candidate will work collaboratively with the Broad’s viral genomics team, sequencing platform, and external collaborators to complete project goals. The successful candidate will possess a broad general knowledge of molecular biology and specific technical knowledge of molecular cloning techniques, and solid experience working with RNA. The ideal candidate will have experience working with RNA viruses. In addition, the candidate will adapt easily to changing needs and priorities of a fast-paced research environment, facilitate project completion, address technical problems, help determine the methods to be used in research, and summarize and present project results.
Characteristic Duties:
- Uses specialized technical knowledge, creativity and practical skills in molecular biology to plan, design and execute laboratory projects that support the overall research goals of the Genome Sequencing and Analysis Program
- Develops and uses qualitative and quantitative assays to define basic parameters of library construction and sample preparation steps. Will work directly with infectious viral samples in a BL2+ setting. Tests and optimizes novel approaches that have the potential to overcome current bottlenecks and limitations of library construction and sample preparation for next-generation sequencing instruments
- Carries out laboratory processes, analyzes results and addresses technical problems. Presents results to the Molecular Biology Research & Development group and viral genomics team, and participates in the design of follow-up experiments
- Coordinates with other research staff to facilitate the completion of pilot studies and monitors the progress of projects. When required works directly with external collaborators.
- Assists in implementing changes in protocols or methods and may assist with the training of lab personnel on new methodologies
- Consults scientific literature and collaborates with other researchers from the scientific community as needed
- Maintains lab records and complies with all safety, biohazard and radioactivity guidelines
REQUIREMENTS:
- Bachelor's degree in biology or related field required with 4 years of working experience, or Master's degree with a minimum of 2 years working experience required, or equivalent combination of education and experience.
- At least 4 years lab experience in Molecular Biology, Genomics, or a related field required.
- Solid technical knowledge and hands-on experience with molecular biological methods such as DNA & RNA purification, cDNA synthesis, enzymatic manipulation of DNA & RNA, PCR, sequencing, molecular cloning, and library construction
- Must have significant experience working with RNA.
- Strong organizational and time management skills required.
- Must be able to work independently as well as part of a team in a fast-paced environment.
- Excellent communication skills and the ability to interact professionally with all levels of staff required.
PREFERENCES:
- Experience with viral research is preferred.
- Experience with sequence analysis tools and genomics databases is a plus.
- Creativity, scientific curiosity, and the desire and ability to improve existing technology preferred.
COMPENSATION:
Our work transcends traditional academic boundaries, giving Broad employees and affiliates access to an unparalleled biomedical research community across the Harvard and MIT communities and beyond.
The Broad Institute is committed to providing its employees with a competitive compensation and benefits package. We recognize the need for our employees to have a balance between work and personal life. To that end, our benefit plans and options reflect our desire to promote an environment that supports the health, diversity, and general wellbeing of our employees.
All Broadies also have access to world-class research and state of the art technology and are fully supported in their professional development, pushing the envelope for further growth.
HOW TO APPLY:
Please apply via our website: [link].
REFERENCE: Position 378
POLICY:
The Broad Institute is an equal opportunity employer.
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RESPONSIBILITIES:
Conduct novel bioinformatics research to explore the sequence-structure-function-stability relationships using the machine learning approaches. Activities include analyzing and mining public and in-house protein data and discover structure and sequence patterns relevant to the biological problems under study. Also, developing novel data mining algorithms for large scale data mining projects. Duties include developing computer programs for biological data classification, regression and clustering analysis. Main focus will be in the area of proteomics.
REQUIREMENTS:
- PhD in bioinformatics or computer science
- 3 years exp in computer programming using at least 2 of the following languages: C, C++, Java, Perl
- Ability to perform bioinformatics or computational biology research, especially in protein sequence and structure data mining, as shown by as primary author of at least 3 peer reviewed publications in these fields
- 2 yrs exp in applying statistical and/or data mining techniques to research problems using R, Matlab, and Origin computing software packages
PREFERENCES:
- Evidence of ability to work independently with attention to detail
- Demonstrated ability to work successfully in a team-based environment
- Good Communication and writing skills
TERMS:
Full time (40 hours per week) - limited term 1 year with the option to renew
LOCALE: University of Kansas, Lawrence KS
COMPENSATION: $33,000 - $35,000/yr. plus benefits
HOW TO APPLY:
Go to https://jobs.ku.edu/, unclassified professional staff, position 00067308
DEADLINE: Sept 8, 2010
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RESPONSIBILITIES:
Montana State University (Bozeman) is seeking a graduate student (MSc or PhD) or postdoctoral candidate for bioinformatic studies of insect chemoreceptors (modeling receptor structure and function; genome assembly and annotation). For more information contact Kevin Wanner, kwanner@montana.edu.
REQUIREMENTS:
- Prior bioinformatics experience is essential.
PREFERENCES:
- Wet lab experience is desirable.
LOCALE:
Montana State University, Bozeman, Montana.
HOW TO APPLY:
Email CV and a short statement of research interests and career goals to Kevin Wanner, kwanner@montana.edu.
DEADLINE:
Applications will be collected until September 30, 2010.
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RESPONSIBILITIES:
This person will be responsible for developing imaging database applications to store microscopic images and developing other analysis tools as part of a team in support of data intensive biological research efforts.
REQUIREMENTS:
- MS in computer science, bioinformatics, or other closely related discipline
- Minimum 1 year experience in database development (Oracle, MySQL, MS-SQL, etc) for biomedical applications
- Minimum 1 year experience in relevant programming languages such as C, C++, Java, J2EE, PERL, R
- Minimum 2 years experience in the development of web-based resources for managing and reporting research information
- Established track record of bioinformatics or computational biology research as shown by at least 2 peer-reviewed publications or meeting abstracts in these fields
PREFERENCES:
- Strong verbal and written communication and interpersonal skills
- Evidence of ability to work independently with attention to detail
- Experience in data mining application as applied to biomedical research objectives
- Experience in the development of databases for biomedical applications
- Experience in systems software or algorithms
- Excellent resource implementation skills using C++, Java, Python and similar languages
- Knowledge of UNIX/Linus or Windows environments and APIs
- Demonstrated ability to work successfully in a team-based environment
TERMS:
Temporary, 6 months with possibility for extension - 40 hours/wk
LOCALE: KU Campus, Lawrence, KS
COMPENSATION: $2,500/mo
HOW TO APPLY:
Please visit: [link]
Please use the website listed above and not email.
DEADLINE: Sept 8, 2010
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RESPONSIBILITIES:
A PhD scholarship in applied digital image cytometry is available in the group of Associate Profes-sor Dr Daniel Wüstner, Department of Biochemistry and Molecular Biology, University of Southern Denmark.
We are seeking a candidate interested in characterization of intracellular transport of proteins and lipids using quantitative fluorescence microscopy and computational image data analysis. The project aims at development and implementation of new algorithms for automated analysis of quantitative fluorescence imaging data to characterize protein-sterol interactions and transport in living cells.
TERMS:
The position is to be filled by 15 October, 2010 or soon thereafter.
HOW TO APPLY:
Please see the full call, including how to apply, on http://www.sdu.dk/vacancies.
DEADLINE:
Application deadline is 17 September, 2010 at 12 o’clock noon.
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RESPONSIBILITIES:
We are seeking a computational biologist interested in the genomic regulatory code, to join the Laboratory of Computational Biology (Lab of Dr. Stein Aerts) at the Center for Human Genetics, University of Leuven, Belgium. Your research will focus on developing algorithms for the prediction of cis-regulatory elements and for the integrated analysis of cis-regulatory and next-generation sequence data with the goal of identifying regulatory variations underlying oncogenesis and developmental diversity. Particular focus will be on integrating genomic variation with transcriptional modules and gene regulatory networks and on the identification of genomic regulatory variations.
Context:
- You have the opportunity to apply your methods both on patient samples and on mammalian and Drosophila model systems. Depending on your interests and background, you can combine bioinformatics with wet-lab experiments, for which a lab technician will assist you.
- You will work in collaboration with several cancer research groups and Drosophila labs within the Department, for next-generation sequencing experiments and functional validations.
- You will have contacts with the Genomics Core Facility, hosting an Illumina HiSEQ2000 and a Roche 454 sequencer.
- You will be part of the Leuven SymBioSys Center of Excellence for Computational Systems Biology, where you will be surrounded by several other postdocs and students in a stimulating environment consisting of four bioinformatics research groups and four genomics labs.
Laboratory of Computational Biology: http://med.kuleuven.be/bioinformatics/
SymBioSys: [link]
Center for Human Genetics: http://med.kuleuven.be/cme/ and [link]
University of Leuven: http://www.kuleuven.be/english/
Relevant Publications:
See [link]
REQUIREMENTS:
- We are seeking a motivated and enthusiastic computational biologist, preferably with a proven track record in gene regulatory bioinformatics (e.g., prediction of enhancers, promoters, transcription factor binding sites, gene regulatory networks).
- PhD in Bioinformatics; PhD in engineering or computer science provided substantial insight in genetics; PhD in biological sciences provided substantial programming experience.
- Skills: genome informatics, statistics, programming.
PREFERENCES:
- Experience with transcriptomics, cis-regulatory evolution, or the analysis of next-generation sequence data is a plus.
HOW TO APPLY:
Highly motivated candidates can apply by sending a motivation letter, names and contact information for three references, publication list, and CV to stein.aerts@med.kuleuven.be.
Starting date: as soon as practically feasible.
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BACKGROUND:
FlyBase (http://flybase.org/) is an online database of Drosophila genes and genomes.
RESPONSIBILITIES:
FlyBase is looking for a qualified software engineer to undertake a project to deploy the InterMine and BioMart data management systems. The developer will be responsible for the web and database aspects of these technologies, which will be hosted at the Indiana University FlyBase site in Bloomington, IN. This includes the initial setup and configuration of these two systems, setting up and automating update cycles in sync with the existing FlyBase release cycle, evaluating the capabilities of each, aiding in the integration of these services with existing FlyBase reports and tools, and coordinating these efforts with other model organism databases (MODs). Loading and preprocessing of data for these systems will be performed at the Harvard University FlyBase site so close coordination with developers there will also be required.
REQUIREMENTS:
- BS/MS degree in Biology or related fields
- Other fields acceptable with sufficient biological experience
- 2+ years of software development experience
- Experience with the following technologies:
-- Perl programming
-- Java programming (knowledge of JSP a plus)
-- Linux development environment (system administration skills a plus)
-- MySQL and PostgreSQL databases
-- Apache web server
-- Tomcat Java web application server
-- InterMine and/or BioMart experience a plus
LOCALE:
Department of Biology at Indiana University Bloomington, IN, USA
COMPENSATION:
Salary commensurate with qualifications and experience; full benefits included.
HOW TO APPLY:
To apply send a cover letter, CV/resume, and contact information for 3 individuals willing to serve as a reference, to flybase.jobs [at] gmail.com using "FlyBase RA" in the subject line or send hard copy to 1001 East Third Street, Bloomington, IN 47405.
POLICY:
Indiana University is an equal opportunity/affirmative action employer.
DEADLINE:
Applications will be accepted until a suitable candidate is identified.
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RESPONSIBILITIES:
Do you have the ambition and motivation to take on the challenge of employing your knowledge of mathematics, statistics, and/or physics to make innovative discovery in structural bioinformatics -- a field where physical interactions rule biology and to produce a significant impact in future medicine through genome-scale data mining and inhibitor design?
We seek a highly motivated and capable individual to join the team at the Zhou laboratory of structural bioinformatics as a postdoctoral fellow at Center for Computational Biology and Bioinformatics, IU School of Medicine and Bioinformatics Program at IU School of Informatics.
The main area of our interest is bioinformatic and theoretical study of proteins and protein-ligand, protein-DNA/RNA interactions. (Please visit http://sparks.informatics.iupui.edu for details.)
REQUIREMENTS:
- Qualified candidates should have a PhD in Chemistry, Physics, Biology, or a related field.
- Experience with theoretical/computational biophysics, statistical mechanics, and/or computer simulations is a plus but not necessary. However, strong mathematical and programming skills are essential.
HOW TO APPLY:
Please send your CV with cover letter, and the names, addresses, and phone numbers of two referees who are familiar with your work. Email to yqzhou@iupui.edu with plain text file or pdf file is preferred. Only a STRONGLY motivated, creative, and hard-working person who wants to be successful should apply.
POLICY:
Indiana University is an equal employment opportunity/equal access/affirmative action employer and a provider of ADA services.
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RESPONSIBILITIES:
We are currently seeking a post-doctoral fellow for a position in the Center for Computational Proteomics within the Huck Institutes of the Life Sciences. The successful applicant will be engaged in multiple lines of computational biology/informatics, including but not limited to structural modeling, functional predictions, and deep evolutionary analyses of highly divergent sequences. A portion of the proposed work entails creating new applications for BLAST algorithms for the study of protein structure, function, and evolution. Using a System’s Biology approach, we are exploring a diverse set of physiological/pathophysiological systems such as respiratory syncytial virus, hepatitis, and sensory perception as well as basic science questions related to ion channels and signal transduction pathways. Experimental systems are available to validate computational predictions.
REQUIREMENTS:
- The ideal candidate will have a excellent communication skills, a background in computer science, a working knowledge of biology, and a desire to take part in interdisciplinary science.
- We are interested in candidates that enjoy working both independently and collaboratively within and across universities.
- Computer languages currently used in the lab include C++, Java, and Python.
COMPENSATION:
Salary is commensurate with experience.
HOW TO APPLY:
Interested applicants should submit their CV, a research statement, and 3 references via e-mail:
Dr. Damian B. van Rossum
dbv10@psu.edu
DEADLINE:
Applications will be considered until the position is filled.
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BACKGROUND:
Established in the mid-1970s, New England Biolabs (NEB) is a world leader in the production and supply of reagents for the life science industry. NEB offers the largest selection of recombinant and native enzymes for genomic research and continues to expand into areas related to proteomics and drug discovery. These ongoing efforts bring a growing range of high quality products to our customers which includes PCR and qPCR kits, protein expression systems (bacteria, mammalian cells and yeast (K. lactis)), protein modifying enzymes, markers, kits for siRNA, transfection reagents and a new line of Competent E. coli.
Housed in a new state-of-the-art facility, NEB’s USA headquarters includes a modern fermentation center and fully equipped laboratories for production, quality control, product development and basic research. At New England Biolabs, science has always been a priority and through this approach, NEB’s reagents have gained a world-wide reputation for setting the highest of standards for quality and value.
RESPONSIBILITIES:
We are inviting applications for a postdoctoral fellowship in the area of computational biology and bioinformatics. This position provides an exciting opportunity for developing emerging computational tools to complement our current efforts in DNA methylation analysis from various genomes. Primary responsibility includes developing efficient computational pipelines to analyze genomic sequencing reads from next-gen sequencing platforms.
REQUIREMENTS:
- Ph.D. in computational biology or related field
- A strong record of scientific publication
- Creative data visualization skills
- A positive attitude and a strong work ethic
- A strong background in the development of sequence analysis algorithms and efficient implementation
- Experience analyzing next-generation sequencing data
- The ability to work with multiple experimental groups in an interdisciplinary setting
LOCALE: Ipswich, Massachusetts
HOW TO APPLY:
Qualified candidates may apply via our online application system at http://www.neb.com.
New England Biolabs is an Equal Opportunity Employer M/F/D/V
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BACKGROUND:
The University of Melbourne Bio21 Molecular Science and Biotechnology Institute is a multidisciplinary research centre, specialising in medical, agricultural and environmental biotechnology. It is one of the largest biotechnology research centres in Australia, accommodating more than 500 research scientists, students and industrial participants.
The Victorian Partnership for Advanced Computing (VPAC) is an advanced computing and eResearch service provider, employing about 65 staff.
The Bio21 Institute’s Proteomics Core facility provides open access mass spectrometry to research groups from the University of Melbourne and surrounding research institutes in the Parkville precinct. The facility supports over 60 biochemists working on a huge variety of projects (cancer, immunology, Alzheimer’s, etc) that require computational and statistical support for proteomic data analysis, data management, and training.
RESPONSIBILITIES:
Bio21 and VPAC are seeking a bioinformatician to supplement our team supporting the proteomics researchers. This new role will implement informatics solutions to manage, search, and display proteomics datasets, and provide expert scientific and technical support to the national constituency of the Australian Proteomics Computational Facility, also in Parkville.
The successful candidate will have opportunities to identify, assess, and introduce new proteomic software tools in addition to becoming an expert to train and support researchers with applications.
Exposure to advanced users requiring more sophisticated bioinformatic assistance, such as with iTRAQ experiments, peptide quantitation, and MHC peptide analysis will assure a stimulating environment and professional growth in bioinformatics research.
The role has the potential to engage in collaborative work with research projects, contribute to scientific publications, supervise doctoral students, participate in grant funding opportunities, and presenting course work guest lectures to both graduate and undergraduate students at the University of Melbourne.
REQUIREMENTS:
- Applicants should have a first degree in a scientific or computational discipline and preferably a postgraduate degree (PhD or masters) or significant experience in bioinformatics or computational biology.
- The role requires relevant experience in a biomedical research environment, and superior oral and written skills to successfully interact with the broad group of research scientists and doctoral students.
- Knowledge of mass spectrometry, peptide fragmentation and sequencing, basic biochemistry or immunology, and an understanding of applications such as MASCOT, XTANDEM, OMSSA, MRMPilot, MultiQuant, ProteinPilot, and Swis-Prot would be advantageous.
COMPENSATION:
An attractive remuneration package will be negotiated commensurate with experience for an initial term of 3-years.
HOW TO APPLY:
For more information contact:
Dr Nicholas Williamson nawill@unimelb.edu.au
Dr Mike Kuiper mike@vpac.org
Applicants who are not Australian citizens or permanent residents must detail their visa status in their cover letter. Visa assistance may be provided for an outstanding candidate.
DEADLINE:
Applications should be sent to recruitment@vpac.org by 10 October 2010.
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