Employment Opportunities

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Postdoc in Regulatory sRNAs

A postdoctoral position is available in the laboratory of Associate Professor Birgitte H. Kallipolitis at the Department of Biochemistry and Molecular Biology, University of Southern Denmark. The position is for two years, starting 1 January 2015 or soon thereafter. Application deadline: 02/11/2014

The laboratory of Birgitte H. Kallipolitis investigates the biological function and mechanism of action of small, regulatory RNAs (sRNAs) in bacteria. The research project will focus on gene regulatory networks comprising multiple homologous sRNAs in the human pathogen Listeria monocytogenes (for more details, see Sievers et al., 2014, Nucleic Acids Res. 42(14):9383-98). A variety of experimental methods will be employed, including RNA-seq, molecular genetics and biochemical analyses.

We seek a highly motivated and enthusiastic candidate with a PhD degree obtained within the last three years in Molecular Biology, Biochemistry, Microbiology or a related discipline. Previous research experience in RNA biochemistry and molecular microbiology is desirable. The ideal candidate should have displayed an ability to produce high quality research in peer-reviewed journals.

For further details, please contact Associate Professor Birgitte H. Kallipolitis ([email protected]).

Applications must be submitted electronically using the link provided on the SDU Webpage: http://www.sdu.dk/en/servicenavigation/right/ledige_stillinger.

Bioinformatics position available at Sloan-Kettering, New York City

We seek a motivated bioinformatician to be involved in our studies of gene regulatory networks. Our laboratory at Memorial Sloan-Kettering Cancer Center combines computational and experimental approaches to annotate and functionally elucidate small RNA pathways (e.g. miRNAs, siRNAs and piRNAs), mRNA processing pathways (e.g. alternative polyadenylation and circularization), and transcription factor networks (mostly regarding neural specification). Towards this end, we produce a great deal of small RNA, RNA-seq and ChIP-seq data, and analyze these with respect to the rich comparative genomic data available for Drosophila and mammals. There is a close exchange of ideas between dry and wet lab members to generate and test biologically-based hypotheses. Questions of ongoing interest include the mechanics of small RNA biogenesis, the evolution of small RNA genes and their function, the control of 3′UTR formation, how RNA circularization occurs and is regulated, and the mRNA/miRNA networks downstream of key neural transcription factors. We were also a core group of the NHGRI modENCODE consortium (http://www.modencode.org/) and continue with integrative analysis with other largescale datasets produced by consortium members.

Relevant candidates should have proficiency in a programming language (e.g. Java or C/C++) and a scripting language (e.g. Perl or Python), and experience with R and database systems. Strong experience with deep-sequencing data (e.g. Illumina, SOLiD, and/or third-generation methods) is essential. Postdoctoral fellows or BA/MS level candidates seeking experience before graduate school will be considered. Please send letter of inquiry, CV and references to [email protected]. Position is available immediately.

Recent Selected References

Dai, Q., A. Ren, J. O. Westholm, A. Serganov, D. J. Patel and E. C. Lai (2013). The BEN domain is a novel sequence-specific DNA binding domain conserved in neural transcriptional repressors. Genes and Development 27: 602-14.

Miura, P., S. Shenker, J. O. Westholm, C. Andreu-Agullo and E. C. Lai (2013). Widespread and extensive lengthening of 3′ UTRs in the mammalian brain. Genome Research 23: 812-825.

Okamura K., E. Ladewig, L. Zhou and E. C. Lai (2013). Regulatory RNAs are generated from select miRNA hairpin loops in flies and mammals. Genes and Development 27: 778-792.

Smibert, P., J.-S. Yang, G. Azzam, J.-L. Liu and E. C. Lai (2013). Homeostatic control of Argonaute stability by microRNAs. Nature Structural and Molecular Biology 20: 789-795.

Mohammed, J., D. Bortolamiol-Becet, A. S. Flynt, I. Gronau, A. Siepel and E. C. Lai (2014). Adaptive evolution of testis-specific, recently-evolved, clustered miRNAs in Drosophila. RNA 20: 1195-1209.

Garaulet, D. L., M. Castellanos, F. Bejarano, P. Sanfilippo, D. M. Tyler, D. Allan, E. Sanchez-Herrero and E. C. Lai (2014). Homeotic function of Drosophila Bithorax-Complex miRNAs mediates fertility by restricting multiple Hox genes and TALE cofactors in the central nervous system. Developmental Cell 29: 635-48.

Wen, J., J. Mohammed, D. Bortolamiol-Becet, H. Tsai, N. Robine, J. O. Westholm, E. Ladewig, Q. Dai, K. Okamura, A. S. Flynt, D. Zhang, J. Andrews, L. Cherbas, T. C. Kaufman, P. Cherbas, A. Siepel, and Eric C. Lai (2014). Diversity of miRNAs, siRNAs and piRNAs across 25 Drosophila cell lines. Genome Research 24: 1236-50.

University Professor of BIOCHEMISTRY

The University of Innsbruck invites applications for the position of an University Professor of BIOCHEMISTRY at the Institute of Biochemistry of the Faculty of Chemistry and Pharmacy. The position will be based on a permanent civil-law employment contract with the University.

Responsibilities include
• Representing the subject of “Biochemistry” both in experimental research and teaching with a main research focus on “Cellular Regulation”, for instance in the area of regulatory RNA.
• Offering a broad spectrum of courses in Biochemistry.
• Participating in the University’s research programme entitled “Molecular Biosciences”.

Eligibility requirements include a pertinent degree in higher education, a pertinent habilitation or equivalent qualification, publications in leading international peer-reviewed journals, involvement in international research.

The University of Innsbruck is committed to increase the percentage of female employees, especially in leading positions and therefore explicitly invites women to apply. In the case of equivalent qualifications, women will be given preference.

Applications must reach us at the latest by October 30th, 2014 and should include the usual documentation (esp. curriculum vitae, publication list, and description of current and intended research, samples of the five most important works). All documents have to be submitted in digital form (CD-ROM, e-mail, etc.). Hardcopy (paper) is optional. Please send the documents to: Leopold-Franzens-Universität Innsbruck, Fakultäten Servicestelle, Standort Innrain 52f, A-6020 Innsbruck ([email protected])

The basic salary is set down in the collective bargaining agreement for university employees. Profes-sors are in the remuneration group A 1. For the position the monthly salary is 4.697,80 Euro/month (14 x). Depending on qualification and experience a higher salary can be a topic in the negotiations with the rector. Beyond that the university offers attractive additional benefits (http://www.uibk.ac.at/universitaet/zusatzleistungen/).

The full, authoritative text in German (published in the official bulletin of the University of Innsbruck of August 6th, 2014) as well as additional information on the current status of the application process may be found at: http://www.uibk.ac.at/fakultaeten-servicestelle/standorte/innrain52f/berufungen_habilitationen/berufungen_index_2010.html

Postdoctoral Fellow in Computational Biology at Boston University Medical Center

We are looking for a post-doctoral fellow in Computational Biology and Transcriptome Analysis to lead a joint project between laboratories of Dr. Ruslan Afasizhev at the Department of Molecular and Cell Biology and Dr. Stefano Monti in the Section of Computational Biomedicine at the BU School of Medicine. The candidate will have the opportunity to work in a unique computationally-oriented environment backed by an advanced molecular biology laboratory and substantial resources within the Boston University Medical Campus and collaborators at Harvard Medical School and the Broad Institute. The NIH-funded project involves de novo sequencing, assembly and functional studies of mitochondrial genomes from trypanosomatids, which are unicellular parasites causing a wide spectrum of human diseases. In this context, the candidate’s role will be to develop and apply methods to analyze High-Throughput Sequencing (Pac Bio and Illumina platforms, DNA and primarily coding and non-coding RNA-sequencing) data for the identification and characterization of the molecular pathways contributing to mitochondrial gene expression, and their perturbation in various loss-of-function genetic backgrounds. The ideal candidate will have: an interdisciplinary background in bioinformatics & computational biology; advanced expertise in the analysis and interpretation of sequencing data and its integration with other “omics” data sources; good programming skills; and advanced knowledge of statistical and machine learning methods. The position would be for a minimum of two years.

Requirements: Qualified candidates should have:
• A Ph.D. in computational biology, bioinformatics, computer science, engineering, mathematics, physics, or related field.
• Ability to program in Python and R, with knowledge of MATLAB and/or Java a plus.
• Familiarity with Unix systems.
• Demonstrated applied bioinformatics/computational proficiency as evidenced by relevant publications in peer-reviewed journals.

Cotnact: [email protected]

Post-doctoral position in the Lambowitz lab at the University of Texas at Austin

A post-doctoral position is available in the Lambowitz lab at the University of Texas at Austin to carry out biochemical and structural analysis of thermostable group II intron reverse transcriptases. Thermostable group II intron reverse transcriptases are novel enzymes with beneficial properties and novel activities that open new methods for next-generation RNA sequencing, RNA structure analysis, and analysis of non-coding RNAs. The focus will be on analyzing structure-function relationships in these enzymes by combining in vitro mutagenesis and directed evolution with biochemical analysis and X-ray crystallography. Experience in protein purification and X-ray crystallography is desirable. Applications now until position filled.

Mohr, S., Ghanem, E., Smith, W., Sheeter, D., Qin, Y., King, O., Polioudakis, D., Iyer, V.R., Hunicke-Smith, S. Swamy, S., Kuersten, S., and Lambowitz, A.M. Thermostable group II intron reverse transcriptase fusion proteins and their use in cDNA synthesis and next-generation RNA sequencing. RNA, 19, 958-970, 2013.

Collins, K. and Nilsen, T. Enzyme engineering through evolution: thermostable recombinant group II intron reverse transcriptases provide new tools for RNA research and biotechnology. RNA 19, 1017-1018, 2013.

Enyeart, P.J., Mohr, G., Ellington, A.D., and Lambowitz A.M. Biotechnological applications of mobile group II introns and their reverse transcriptases: gene targeting, RNA-seq, and non-coding RNA analysis. Mobile DNA 5:2, 2014.

Katibah, G.E., Qin, Y., Sidote, D.J., Yao, J., Lambowitz, A.M. and Collins, K. Broad and adaptable RNA structure recognition by the human interferon-induced tetratricopeptide repeat protein IFIT5. Proc. Natl. Acad. Sci., USA, doi/10.1073.1412842111, 2014.

Eamil: [email protected]

Seeking a highly motivated and independent individual interested in working in one of two areas

We are seeking a highly motivated and independent individual interested in working in one of two areas: 1) advanced single-molecule techniques to study RNA structure, or 2) programmable biosensors for RNA detection and purification. Successful candidate is to start this Fall and no later than December 2014 The single-molecule projects are more engineering based, and involve further development and testing of the recently invented Centrifuge Force Microscope (CFM) to probe the structure of individual RNA molecules with the application of force. The biosensor project is more biochemistry based, and involves adapting a recently developed DNA nanoswitch platform to RNA applications including detection and purification.

Minimum Qualifications: Ph.D. in Biomedical Engineering, Biophysics, Biochemistry or related field from a college or university accredited by USDOE or an internationally recognized accrediting organization

Preferred Qualifications (depending on area of interest): Experience in single-molecule biophysics (optical tweezers, AFM, etc.); Hands-on engineering and prototyping experience; Experience with optics, image analysis, or programming; Experience in DNA nanotechnology.

The RNA institute is a vibrant new establishment focused on the RNA sciences and interdisciplinary approaches. We have an extremely collaborative and friendly culture, facilitating scientific and social interactions. To apply, please send a cover letter, a CV, and contact info for 3 references to: [email protected].

Postdoctoral position in systems biology

Principal Investigator / Institute:
Christine Vogel, Center for Genomics and Systems Biology, NYU Department of Biology

We are looking for a postdoctoral researcher to join our lab at the earliest convenience. Our lab uses system-wide approaches to investigate protein expression regulation in response to environmental stress. Our primary model organisms are yeast and mammalian cell lines. We emphasize interdisciplinary work, combining wet- and dry-lab approaches, as well as large-scale and targeted small-scale experiments.

The position is tied to a specific project, but work on own ideas and new directions are always welcome and part of our every day research life. The proposed project involves work with mammalian cell lines, several large-scale techniques (e.g. mass spectrometry based proteomics, next-generation sequencing), computational data analysis, and close interaction with our statistics collaborators. Expertise in one or more of the above areas is desirable.

Our lab is positioned at the Center for Genomics and Systems Biology. We are the primary users of an LTQ Orbitrap Velos mass spectrometer and have access to state-of-the-art sequencing, robotics, and microscopy facilities. The Center for Genomics and Systems Biology is part of the NYU Department of Biology with close links to the NYU Medical School, the Courant Institute, and other well-known universities in the city – offering a rich and active scientific environment. The Center is located in the heart of Manhattan near Washington Square Park – one of the most historical, cultural and liveliest areas in the big city.

Benefits such as medical/dental/retirement/tuition remission are available to qualified applicants, see http://www.nyu.edu/employees/benefit/ (code 103). Funding is available for at least two years. NYU provides visa support and (limited) post-doctoral housing.

To apply for this position, please send your CV and contact details of your references via email. Please also include a letter of interest describing your background, your career, and research interests. We are looking for someone to enrich our lab with scientific creativity and new skills.

Requirements: PhD in a biological discipline, preferably experience with tissue culture and large-scale data analysis
Job location: New York, NY
Info: https://sites.google.com/a/nyu.edu/vogel-lab/home
Contact: [email protected]
Application: Now until position is filled

NIH-funded postdoc position addressing the roles of RNA helicases in human cells

We are currently looking for a postdoc with experience in NextGen sequencing/bioinformatics and basic molecular biology techniques to fill an NIH-funded position addressing the roles of RNA helicases in human cells.  Prior experience with mammalian tissue culture is a plus. Please apply directly to Dr. Elizabeth Tran via email, [email protected], and include a CV, list of peer reviewed publications and 3 references.  All applicants should have a minimum of two first author papers in a peer reviewed journal.

Post-Doctoral position open in the laboratory of Dr. Paul F. Agris

Post-Doctoral position open in the laboratory of Dr. Paul F. Agris within the RNA Institute (SUNY). Applicants are sought with expertise in the area of structural biology by RNA-NMR; RNA interactions with proteins, peptides, small molecules and other RNAs. Three modern high field NMR instruments with cryoprobes, one designed especially for RNA are available. The RNA Institute is known for its structural biology of RNA and RNA complexes using various biophysical techniques.

Applicants should submit:

1) complete resume’,

2) names and contacts of three references and

3) a brief description of RNA research experience that includes those approaches/technologies with which the applicant has extensive experience.

The RNA Institute provides a unique research resource environment for some 54 principal investigators and ~300 researchers conducting RNA science and its applications to human health problems, technology development and drug discovery in New York’s Capital District. Albany has the cultural activities of a large city but within the environment of a small city atmosphere, ready access to the Adirondacks, Berkshires, the NY lake district, Boston, and NYC.

Contact:[email protected]

RNA Biologist – The Chemical Biology of G-Quadruplexes in RNA

Following the award of an ERC Advanced Grant to Professor Shankar Balasubramanian (http://www.ch.cam.ac.uk/group/shankar), we seek to appoint a postdoctoral RNA biologist to explore the structure, function and biology of four-stranded RNA G-quadruplex structures. This interdisciplinary project builds on our experience in the understanding of non-canonical G-quadruplex nucleic acid structures. We recently demonstrated the existence of G-quadruplex structures in the DNA of human cells (Nature Chem. 5, 182, 2013), and are now extending our studies to RNA G-quadruplexes (Nature Chem. Biol. 3, 218, 2007; NAR 2012, 40, 4727, 2012; Nature Chem. 6, 75, 2014).

The candidate will have a sound practical and intellectual background in RNA biology and structure, excellent skills in molecular and cell biology and technical expertise in RNA manipulation and analysis. Candidates are expected to be excellent communicators, independent thinkers, demonstrate an intellectual capacity for innovation and be able to collaborate effectively to address the goals of this major initiative. The postholder will be primarily based at our Cambridge Institute Laboratory. Applicants should possess (or be about to receive) a PhD in a relevant discipline.

The post is available immediately, with funds available for 2 years in the first instance.

To apply online for this vacancy, visit http://www.jobs.cam.ac.uk/job/4525

Please ensure that you upload a 2-page Curriculum Vitae (CV), a covering letter and publications list in the Upload section of the online application. If you upload any additional documents that have not been requested, we will not be able to consider these as part of your application.

For queries regarding applying online for this post, please contact Leanne Moden, PA to Professor Shankar Balasubramanian, email: [email protected].

Please quote reference MA03899 on your application and in any correspondence about this vacancy.

The Department holds an Athena SWAN bronze award for women in science, technology, engineering, mathematics and medicine.

The University values diversity and is committed to equality of opportunity.
The University has a responsibility to ensure that all employees are eligible to live and work in the UK.

Postdoctoral Scholar Positions

Postdoctoral scholar positions are available at the Nanobiotechnology Center of the University of Kentucky and the NCI Cancer Nanotechnology Platform Partnerships (CNPP) program directed by Dr. Peixuan Guo (http://nanobio.uky.edu/Guo/peixuanguo.html). Strong background in RNA chemistry, RNA conjugation, Genetics, or Cell Biology is preferred.

To apply, please contact Dr. Hui Zhang at email: [email protected]. The University of Kentucky is an Equal Opportunity and Affirmative Action Employer.

H3 Biomedicine Postdoctoral Program

The H3 Biomedicine Postdoctoral Program provides an environment for scientists to undertake innovative academic-focused research projects in a biotech industry setting. H3 Biomedicine offers a framework for scientists to design and execute their research plans and provide appropriate training with a goal to present research at major scientific conferences and publication of results in leading peer-reviewed journals.

We seek highly motivated and enthusiastic individuals to join the H3 Biomedicine Postdoctoral Program based at our facility in Cambridge, Massachusetts. Individuals will interact with a team of scientists working towards understanding the role of RNA splicing in cancer and identifying novel therapeutic approaches for the treatment of targeted patient populations. H3 Biomedicine provides a state-of-the-art research facility and interactions with scientists from multiple disciplines including bioinformatics and genomics, target discovery, structural biology, enzymology, drug discovery and chemistry.

Research Areas

H3 Biomedicine has built a world-class research effort that applies cancer genomics and next generation chemistry geared towards the identification of novel cancer medicines. A major area of research at H3 Biomedicine is in RNA biology and RNA splicing in cancer. We have pioneered methods to drug the spliceosome and apply this knowledge to modulating deregulated cancer-specific splice events. Our ultimate goal is the discovery and development of novel therapies for the treatment of genomically-defined cancer patients.

We seek to attract postdoctoral candidates interested in pursuing research in the following three areas:

•        Exploring the disease mechanisms of spliceosome mutations in cancer (e.g. SF3B1, U2AF1, SRSF2) and nodes for therapeutic intervention with small molecule splicing modulators
•        The structural basis for splicing modulation approaches and aberrant splicing in SF3B1 mutant cancers.
•        Discovery and validation of driver RNA splicing alterations in cancer and identification of target modulation strategies to enable precision medicine.

Program Highlights

•        Regular interactions with mentor, and academic external advisor as appropriate, to formulate and execute research plans
•        Regular presentations at Scientific Founders Meeting to the H3 Biomedicine senior scientists and our academic founders Stuart Schreiber, PhD and Todd Golub, MD.
•        Presentation/publication of research at major scientific conferences/journals
•        Potential for transition into full-time employment should appropriate positions be available at the end of the postdoctoral position


The applicant must have completed, or is anticipated to complete within the next 3 months, a Ph.D. in Biology, Cancer Biology, Molecular Biology, Structural Biology, Biochemistry or a related field. Previous research experience in the area of RNA biology/splicing, cancer biology or structural biology/crystallography is desirable. Candidates should have displayed an ability to produce high quality research in peer-reviewed journals

H3 Biomedicine Inc. is a privately-held, uniquely-structured oncology discovery enterprise whose sole mission is to become a prolific source of new drugs that treat more human cancers with greater success. H3 Biomedicine is applying the expertise of leading scientists to the integration of insights from cancer genomics with innovative capabilities in synthetic chemistry and tumor biology to pursue the most promising current opportunity in cancer therapeutics: patient-based, genomics-driven, small molecule drugs

Interested candidates may forward a CV to [email protected]