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PhD position in RNA Genetics and Cancer

The newly established research group “RNA Biology and Pathogenesis” (Head: Jun.-Prof. Dr. Tony Gutschner) at the Martin-Luther-University Halle-Wittenberg, Germany, is seeking an exceptionally talented and highly motivated PhD student with an interest and experience in the area of molecular biology and cancer research, ideally in RNA biology or functional genomics.
The PhD position (13 TV-L, 65%) is available immediately and limited to three years.

The successful candidate will investigate the function of RNA-binding proteins (RBPs) in human tumors and characterize associated phenotypic dependencies. Specifically, the PhD candidate will (I) establish cellular models of cancer-associated RBPs by genome engineering using CRISPR/Cas9 technology and/or lentiviral gene and shRNA transfer; (II) extensively characterize these engineered cell lines phenotypically through, for example, assays for invasion, migration, anchorage independence, proliferation, apoptosis, and tumor growth in mice; (III) profile these cell lines functionally using CRISPR/Cas9 libraries to identify dependencies; and (IV) mechanistically characterize the most interesting RBPs and functional dependencies in detail in vitro and in vivo using biochemical, molecular and cell biology methods (e.g. Cloning, qRT-PCR, RNA-IP, Immunofluorescence).
This position provides an opportunity for the candidate to be creative and innovative, and to work on a challenging, multidisciplinary topic. We offer a close supervision and mentoring. The candidate will have the opportunity to present his/her results at conferences.

Applicants must hold a Diploma or Master’s degree in the field of life sciences (biology, biochemistry, molecular medicine, or related disciplines). The successful candidate is a highly motivated, creative, ambitious, and hard-working individual with excellent grades who is passionate about making a difference through cancer research. Strong communication skills, a reliable and accurate scientific working ethic, and the ability to work efficiently, independent as well as in a team, are required. An excellent written and oral command of English is essential. The ideal candidate has a solid background in the field of cancer biology and expertise in molecular and cellular biology, with specific focus on the techniques described above. Knowledge in statistics and bioinformatics would be advantageous.

Applications should consist of (I) a motivation letter mentioning the expected availability date, (II) a recent curriculum vitae incl. an overview of techniques and methods used in the past, (III) a list of publications, (IV) academic degrees and certificates, and (V) contact information of two individuals who could provide an evaluation of the candidate upon request.
Please submit your full application (in electronic form as a single pdf) with registration number 7-015/17-H in the subject line until March, 16, 2017 to Jun.-Prof. Dr. Tony Gutschner, E-mail: tony.gutschner@nulluk-halle.de

More information can be found on the website:
http://www.medizin.uni-halle.de/index.php?id=7456

The Martin-Luther-University Halle-Wittenberg is an equal opportunity employer. Disabled candidates with equal qualifications will be given preference. Women are strongly encouraged to submit an application.
The announcement takes place pending on fund availability and any possible budget restriction. Application expenses cannot be reimbursed by the Martin-Luther-University.

RNA biology of circadian clocks molecular mechanisms, physiological functions, implications for disease

Our group is seeking to recruit two new colleagues, a PhD student and a Postdoc, to investigate how regulatory mechanisms occurring at the RNA level impact on rhythmic gene expression, physiology and behaviour regulated by the circadian clock. We recently started to cover this broad topic with work on miRNAs (Du et al., eLife 2014) and on translation (Janich et al., Genome Research 2015; Castelo-Szekely et al., bioRxiv 060368) using mice and cultured cells as our experimental models.

The proposed projects will build on findings that we made in our work on rhythmic protein translation. They will entail a multidisciplinary mix of molecular biological, cellular and mouse genetics/behavioural approaches, in combination with state-of-the-art genomics (ribosome profiling) and bioinformatics techniques. Briefly, one of the projects will address how circadian rhythms are regulated by “upstream open reading frames” (uORFs), an emerging high-interest class of regulatory elements. The other project aims to unravel molecular mechanisms and physiological functinos of rhythmic translation in the liver. Of note, we are also open to new research ideas that collaborators wish to bring into the lab.

The Gatfield lab is hosted at the Center for Integrative Genomics (CIG) at the University of Lausanne (UNIL), a vibrant, well-funded institute with a focus on functional genomics and equipped with modern core facilities (see www.unil.ch/cig). It is embedded in the broader Lausanne research environment that includes two universities (UNIL, EPFL), the Swiss Institute of Bioinformatics, Ludwig Center for Cancer Research, university hospital, and a cluster of biotech companies flourishing in the larger lake Geneva area.
Through the Gatfield lab’s membership in the National Centre of Competence in Research RNA & Disease (http://www.nccr-rna-and-disease.ch), lab members benefit from networking and training opportunities throughout Switzerland, with access to other leading RNA research labs in Zürich, Bern, Basel and Geneva.
Full funding for the positions is available (max. 5 years), although application to personal, international fellowship programs will be encouraged. Envisaged start date: negotiable (earliest April 1st, 2017).

To apply, please send – as a single PDF file – a motivation letter describing why you are interested in joining our group, a CV (potential PhD students should include their Bachelors/Masters grades; post-docs should list their scientific publications), and contact details for 2 or more referees to david.gatfield@nullunil.ch

University of Colorado School of Medicine – RNA Bioscience Initiative Summer Internship Program

Hands-on, mentored research opportunities in RNA Biology, Chemistry, Biochemistry, Genomics, and Bioinformatics

The RNA Bioscience Initiative (RBI) at the University of Colorado School of Medicine in the Denver metro area offers a summer research internship program in the areas of RNA Biology, Chemistry, Biochemistry, Genomics, and Bioinformatics.  Interns are matched with one of the faculty from the biomedical research departments on the campus, including researchers studying the molecular bases of cancer, developmental biology, autoimmunity, and infectious disease.  Undergraduate students with a strong interest in RNA research are encouraged to apply for this program.  The program is especially intended for undergrads wishing to gain more research experience in advance of applying to graduate school.  Applicants may designate three preferred potential mentors from RBI faculty or they may contact an RBI faculty member ahead of applying and pre-arrange an internship (please note this on the application).

The RNA Bioscience Initiative was started with a $20 million dollar award from the University of Colorado Anschutz Medical Campus.  The mission of the RBI is to create and expand a vibrant center of discovery and innovation in RNA research, diagnostics and therapy. Our goal is to provide a fluid pipeline from basic to clinical RNA research at the Anschutz Medical Campus.

Important Information:

  • 10-week program. June 1-August 11. $4000 stipend.
  • Opportunities to work hands-on in the lab of a research mentor on one of a broad range of cutting-edge RNA research projects.
  • An orientation day to the RNA Bioscience Initiative and Internship Program.
  • Weekly RNA-related small group lunch seminars from core RBI faculty.
  • A short oral presentation at the end of the project to develop science speaking skills.
  • Spend the summer in Denver, CO, which offers a great balance of urban and outdoor activities.

Apply at: rnabio.co/summer-interns

RNA structural Biology

The Protein-Nucleic Acid Interaction Section (PNAI), the Structural Biophysics Laboratory (SBL) of National Cancer Institute (NCI), National Institutes of Health (NIH), seeks a postdoctoral candidate with training/expertise in structural biology/biochemistry or/and macromolecular X-ray crystallography. The candidate should have expertise and research experience in the structural biology or/and biochemistry of RNA or proteins, which includes: 1) Sample preparation and crystallization techniques, 2) Theory and practice of X-ray diffraction methods, and processing crystallographic data, and 3) Structure determination, analysis, and refinement. Applicants are expected to have a strong background in physical chemistry and/or physics with excellent analytical and computational skills. The ideal candidates should have a number of years of research experience in the relevant fields with strong problem-solving skills, be willing to work cooperatively with teams of structural biologists and biologists, and be self-motivated to conduct research independently.

The PNAI section operates a high-end in-house diffractometer and small angle X-ray scattering core facility, with regular access to synchrotron beamlines at the Argonne National Laboratory. We are well equipped with two crystallization robots, as well as a Rock Imager for efficient crystal detection, which includes UV-absorption, UV-fluorescence, and SONICC imaging. In addition, the SBL Biophysics Core Facility contains an array of instruments for biophysical characterization of solution and crystalline samples.

The PNAI section is currently at the forefront of developing, exciting, state-of-the-art technologies and methods for biomacromolecule structure determination, including application of X-ray free electron laser (XFEL) for RNA structural biology. We also apply various other biophysical tools to study the structure and dynamics of challenging RNA molecules of great biological significance. We are looking for an enthusiastic, talented and dedicated scientist to join our exciting research team. Salary is commensurate with experience and achievements. The NIH is dedicated to building a diverse community in its training and employment programs. DHHS, NIH, and NCI are Equal Opportunity Employers.

Email: wangyunx@nullmail.nih.gov

Applications Scientist to work on gene expression regulation at the ribosomal level

Immagina Biotechnology s.r.l. is looking for a highly motivated individual to join the Team as an Applications Scientist to work on gene expression regulation at the ribosomal level. We are seeking for a MSc/PhD who is energetic, enthusiastic, and enjoys collaborative and applied science.
This exciting and challenging role involves developing and delivering novel applications and protocols. Duties for this position include interdisciplinary scientific interactions with the University of Trento, The Bruno Kessler Foundation and the Institute of Biophysics of the National Research Council.

Responsibilities and Skills
The candidate will be engaged in an exciting area of a rapidly growing company. The successful candidate will have experience with:
• Molecular biology experiments (genetics, epigenetics, proteomics).
• Cloning, protein purification, gene editing, immunoprecipitation, RNA-seq, Pol-seq, Ribo-Seq.
• Sucrose gradient purification
• Cell culture techniques: mouse and human cell maintenance and differentiation
• Preparation of biological and chemical reagents and cell lines, including transduction with viral vectors, transfection, electroporation, etc
• Ability to work in a high-pace and dynamic scientific environment
• Excellent organizational and analytical skills
• Excellent inter-personal and communication skills / ability to build good working relations
• Proven ability to present and publish research data
• Proficiency in spoken and written English
Important but not essential are:
Analytical chemistry testing, including: HPLC, UPLC, UV, CE

Who we are
Immagina BioTechnology s.r.l is a start-up hosted in the Laboratory for Biomolecular Sequence and Structure Analysis for Health (LaBSSAH). Immagina has developed RiboLace™, an antibody-free technology for the characterization of native and active ribosomes.

Job ID No: 003

Contact: Dr. Massimiliano Clamer. @: mclamer@nullimmaginabiotech.com

The Deaconescu Lab at Brown University

The Deaconescu Lab at Brown University is seeking a motivated and energetic and postdoctoral. The laboratory’s interest is the interplay between DNA repair and other cellular processes including transcription and chromatin remodeling, and is focused on elucidating the function and mechanochemistry of nucleic acid-based motors using a combination of biochemical, biophysical and structural techniques. (e.g. X-Ray crystallography, small-angle X-ray scattering, transmission electron microscopy). For examples of work, please see Kutter et al. JMB (2016), Deaconescu et al., PNAS (2012), Szyk et al, Cell (2014), Szyk et al., NSMB (2012) and Deaconescu et al., TIBS (2013). A successful candidate should have the following qualifications: a Ph.D. in the field of Molecular Biology, Cell Biology, Biochemistry or related field; an established track-record of publications in peer-reviewed journals; solid experience in the biochemistry of nucleic acind-binding proteins, their purification from E.coli/yeast expression systems as well as their characterization using functional studies such as by isothermal titration calorimetry and fluorescence. Prior knowledge of crystallography is desired. Must be highly motivated and work independently as well as in a team. Excellent spoken and written English are required. New Ph.D. graduates are encouraged to apply. Salary and starting date are negotiable.

Interested candidates should send a CV, one page research experience summary and contact information for three references to alexandra_deaconescu@nullbrown.edu. Salary and starting date are negotiable. Please write Postdoctoral Candidate in the e-mail subject header

Post-doctoral Position in RNA editing at Boston University

Postdoctoral Scholar position is available in the laboratory of Prof. Ruslan Afasizhev at the Department of Molecular and Cell Biology, Boston University Medical Campus. Our NIH-funded program focuses on mechanisms of RNA processing in trypanosomes, including mitochondrial mRNA editing, mRNA stability, small RNAs biogenesis and translation. For more details, see recent publications listed below. Our collaborations extend into structural biology, mass spectrometry, drug design and bioinformatics. Required qualifications include strong background in molecular biology and biochemistry, and a record of peer-reviewed publications. Experience in RNAi, bioinformatics, RNA-Seq, ribosome profiling, protein purification, mass spectrometry and parasite genetics is desirable, but not required. This position is avaialbe immediately, carries a starting salary of $47,500, plus health insurance. Funding will be provided for up to three years although fellowship applications are encouraged. Boston University Medical Campus is in the vibrant South End area of Boston and offers a highly collaborative environment, unlimited networking possibilities, excellent core facilities and outstanding cultural and recreational opportunities. To apply, please send a letter of intent, CV and contact information of three references to ruslana@nullbu.edu.

Aphasizheva et al., Molecular Cell Biology, 2014.
Aphasizheva and Aphasizhev, Trends in Parasitology, 2015.
Aphasizheva et al., Molecular Microbiology, 2016.
Suematsu et al, Molecular Cell, 2016.
Rappa et al, Nucleic Acid Research, 2016.

Email: ruslana@nullbu.edu

Bioinformatics Fellows for the RNA Bioscience Initiative

The newly formed RNA Bioscience Initiative at the University of Colorado School of Medicine seeks to hire RNA Bioinformatics Fellows. The Bioinformatics Fellowships are unique, semi-autonomous postdoctoral positions at the Research Associate Level that provide informatics training with the goal of mastering the large skill set needed for RNA bioinformatics analysis. Fellows will develop and apply software for the analysis of a variety of RNA sequencing and other experiments to measure:

• the abundance of small and long non-coding RNAs
• the diversity of splicing mRNA isoforms in bulk and single cells
• RNA-protein interactions by RIP and CLIP-seq
• the production of nascent RNA transcripts using GRO-seq
• the stability of mRNAs after transcription
• mRNA translation by ribosomal profiling
• in vivo RNA polymerase II distribution

We anticipate hiring several fellows over the next 5 years who will share newly renovated, common space to maximize collegial interactions. The fellows will have the opportunity to interact with a variety of RNA informatics researchers on campus, and will support informatics analysis for the recipients of seed grants provided by the RNA Bioscience Initiative. The fellows will develop new visualization tools that enable interactive analysis of RNA sequencing data sets. In addition, the fellows will develop and help teach curricula (e.g., graduate level classes and week-long short courses) that promote the use of RNA informatics on the Anschutz campus. Our ideal candidates have a Ph.D. in biological or computer sciences, and wish to expand their training to become proficient in both disciplines. The positions will be for two years with the possibility to extend the fellowship for an additional year. Stipends will be above the NIH recommended pay scale. Toward the end of their tenure, Fellows will have the opportunity to develop collaborations with faculty in the School of Medicine and liaise with pharmaceutical and biotech companies to secure a stable long-term position in Informatics.

Applicants should submit a cover letter, curriculum vitae and the contact information for 3 people who will provide letters of reference.

Materials should be submitted at https://cu.taleo.net/careersection/2/jobdetail.ftl?job=07900&lang=en.

We will begin reviewing applications immediately and the search will remain open until the positions are filled.

The Maeder lab at Trinity University in San Antonio, TX

The Maeder lab at Trinity University in San Antonio, TX is currently accepting applications for a postdoctoral position to start as early as April 2017. The lab studies the molecular mechanism of pre-messenger RNA splicing. We are seeking candidates who are interested in RNA biology, biochemistry, molecular biology, and/or yeast genetics. This position is especially well suited to those interested in pursuing a tenure-track faculty position at a primarily undergraduate institution (PUI).

Trinity University, a private liberal arts institution in San Antonio, Texas, is well known for the quality of its undergraduate research program. Our rigorous coursework, access to state-of-the-art facilities, and intensive undergraduate research experiences prepare our students for the best post-graduate opportunities. Our laboratory is located in a brand new, state-of-the-art facility and is currently funded by grants from the National Institutes of Health and the Welch Foundation. A postdoc in this position will have the opportunity to build the skills necessary to succeed in a tenure-track position at a PUI. The postdoc will collaborate extensively on idea generation, project design, project implementation and manuscript writing. In addition, the postdoc will collaborate on student recruiting and training, and laboratory management. Depending on the expertise of the postdoc, formal teaching opportunities will be available in either the chemistry or biology departments in addition to mentoring of research students.

Qualified candidates will have a Ph.D. in Biochemistry, Molecular Biology or related fields at the time of employment. The successful applicant will have demonstrated good communication skills, an interest in both research and teaching, the ability and motivation to work independently and in small teams, and a proficient background in biochemistry, biophysics, genetics, and/or molecular biology.

This position is funded for two years and includes all benefits available to full-time contract staff at the university. Interested applicants should send an email to cmaeder@nulltrinity.edu including, as a single PDF file, a cover letter, CV, and list of references. Applications will be reviewed immediately until the position is filled.

The Motamedi Lab at the Harvard Medical School has vacancies for two highly motivated Postdoctoral Research Fellows

The Motamedi Lab at the Harvard Medical School (HMS) and Massachusetts General Hospital (MGH) Cancer Center has vacancies for two highly motivated Postdoctoral Research Fellows. The Fellow will have simultaneous academic appointments at HMS and MGH and contribute to ongoing research exploring the molecular mechanisms by which small and long non-coding RNAs contribute to the establishment of epigenetic states in response to stress and cellular dormancy using yeast and mammalian cells as models. These projects will explore mechanisms of RNAi-mediated silencing, RNA turnover, antisense transcription, and chromatin biology. The ideal candidates have (or will have) productive Ph.D. publication records, compatible with procuring external funding, with training in tissue culture, molecular biology, biochemistry, and/or cell biology. Because the Fellows will generate large scale genomic or proteomic datasets from yeast and/or human cells, previous experience with handling large datasets is a plus, but not required.

The laboratory is grounded in basic research and is working closely with the clinical researchers at MGH Cancer Center and HMS communities. The Cancer Center is composed of a vibrant milieu of world-class basic and clinical researchers, creating an exceptional environment for accelerating basic biology discoveries into clinical research.

See the cover story of the Dec 15th issue of Molecular Cell entitled “Survival in Quiescence Requires the Euchromatic Deployment of Clr4/SUV39H by Argonaute-Associated Small RNAs” for latest research (doi: 10.1016/j.molcel.2016.11.020).

Please email a one-page cover letter, CV, and contact information of three referees to:
Mo Motamedi, Ph.D.
Massachusetts General Hospital Cancer Center
Harvard Medical School
Room 7.212, 149 13th street,
Charlestown, MA
02129
mmotamedi@nullhms.harvard.edu

Post-doctoral position – miRNAs and non-coding RNAs – (BC:73476)

We are seeking a post-doc to join the project “microRNAs degradation dynamics in human cancer” funded by AIRC and coordinated by Dr. Francesco Nicassio at the Center for Genomic Science of [email protected] (https://www.iit.it/it/centers/cgs-semm), located in Milan and one of IIT’s national research nodes.

The candidate will join the “microRNAs and non-coding RNAs” team led by Dr. Francesco Nicassio, which exploits a combination of high-throughput genomic approaches, in silico analysis and sophisticated experimental models to deconvolute the modes and the mechanisms of transcriptome regulation by non-coding RNAs.

The Center benefits from state-of-the-art technological platforms in molecular/cellular biology and genomics; furthermore, it benefits from close ties with other IIT centers and surrounding institutions (IFOM and IEO), located at the Campus.

We are looking for a scientist with experience in the molecular biology, biochemistry and cell biology to be hired on AIRC funds to follow this proposal. He/She will be responsible for analysis of decay in human cancer cells by specific oncogenic lesions. He/she will exploit genome editing (CRIPSR/cas9), RNA labeling, next-generation sequencing, single molecule imaging and biochemical approaches to characterize the mechanistic details of miRNA degradation. Prior experience with microRNA biology and related approaches is preferred but not required. Candidates should have a PhD degree with or without post-doctoral experience and a background in molecular and cellular biology, gene regulation and cancer.

Project Background
Levels of miRNAs are frequently altered in human tumors with pathological consequences. Nevertheless, we still do not fully comprehend the causes of these alterations. Overall, the levels of miRNAs in cells are determined by the sum of two processes: biosynthesis, which generates new miRNA molecules, and decay, which clears old miRNAs. However, while the mechanisms controlling miRNA biogenesis have received much attention, very little is known about how miRNAs are turned over. We recently developed new tailored approaches to study miRNA decay dynamics in mammalian cells (Marzi, Ghini et al. Genome Res 2016). Our leading hypothesis is that mechanisms involving miRNA degradation contribute to miRNA regulation in cancer.

We propose to apply our approaches to models of human cancer in order to i) clarify the role of miRNA decay dynamics in the regulation of miRNA function and expression in human cancer and ii) investigate the critical mechanistic steps associated with this process.

Applications will be accepted until the position is filled but please apply by January 15, 2017.

Please submit a CV (max 3 pages), two reference letters (or referee name) and a very brief research statement (max 1 page) both to applications@nulliit.it and Francesco Nicassio (francesco.nicassio@nulliit.it) quoting “POST DOC SEMM 73476” in the subject field of your e-mail.

Please note that this position is contingent on budget approval

In order to comply with Italian law (art. 23 of Privacy Law of the Italian Legislative Decree n. 196/03), the candidates are asked  to provide their consent to allow IIT to process their personal data. We inform that the information provided will be used solely for the purpose of assessing candidates’ professional profile to meet the requirements of Istituto Italiano di Tecnologia. Data will be processed by Istituto Italiano di Tecnologia, with its headquarters in Genoa, Via Morego, 30, acting as the Data Holder, using computer and paper-based means, observing the rules on the protection of personal data, including those relating to the security of data. Please also note that, pursuant to art. 7 of Legislative Decree 196/2003, candidates may exercise their rights at any time as a party concerned by contacting the Data Manager.  Istituto Italiano di Tecnologia is an Equal Opportunity Employer that actively seeks diversity in the workforce.

Industrial Postdoctoral Fellowship on CRISPR-associated Enzymes

The RNA Biology Division of New England Biolabs (NEB) invites applicants for the position of Postdoctoral Fellow. Projects will be a part of a research program on CRISPR-associated enzymes. Research will be undertaken in a highly collaborative and academic environment where publication of results is expected.

Primary Responsibilities:

– Carry out original scientific research
– Be a creative, independent and productive scientist.
– Interact and collaborate with other members of the RNA Biology Division and other research divisions to further program and division goals.

Required Qualifications:

– Recent Ph.D. in Biochemistry, Molecular Biology or related field.
– Technical expertise in RNA manipulation and analysis.
– Technical expertise in standard molecular biology techniques.
– Experience with analysis of large datasets and high-throughput sequencing.
– Publication of original scientific work in high-quality journals.
– Demonstrated scientific communication in both formal and informal settings.

Preferred Qualifications:

– Expertise in enzyme purification.
– Expertise in design and analysis of enzymatic assays.
– Experience in database design, planning, and management.
– Excellent verbal and written communications skills.
– Strong work ethic, emphasizing both efficiency and quality of work.

This 3 year position is available immediately and offers exciting opportunities for broad research training, academic collaboration, and publications in peer-reviewed journals as well as participation in national and international conferences.

New England Biolabs is an Equal Opportunity/ Affirmative Action Employer of Minorities, Females, Disabled and Protected Veterans

Qualified candidates may apply online at www.neb.com

Gene Regulation in Yeast and Mammalian Cells

Two postdoctoral positions are available early 2017 in the laboratory of Lidia Vasiljeva funded by a Senior Research Fellowship from the Wellcome Trust at the Department of Biochemistry, University of Oxford (http://www.bioch.ox.ac.uk/), which is a part of the University of Oxford’s thriving scientific community. The laboratory is located in a new building providing interactive environment and various research facilities.

We are looking for highly motivated candidates with an interest in gene regulation in yeast and mammalian cells. The proposed projects will utilize state-of-the-art biochemistry and structural approaches combined with the functional genome-wide analysis to understand how transcription factors and chromatin modifiers regulate transcription of protein-coding and non-coding genes in yeast and mammalian cells. The structural study will be done as a part of existing productive collaboration with Jonathan Grimes laboratory at STRUBi (Oxford). Candidates trained in protein purification, RNA analysis, and mammalian cell culture are encouraged to apply. Basic knowledge of bioinformatics is beneficial. Applicants should have or will shortly obtain a PhD and are expected to be highly motivated, with excellent critical thinking skills and with good communication skills and have the ability to work as part of a team. The post is funded by the Wellcome Trust Senior Research Fellowship for 1 year in the initial instance.

Contact: lidia.vasilieva@nullbioch.ox.ac.uk