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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

Postdoctoral Researcher Positions on Small RNA Biology in Cancer and Asthma

Postdoctoral researcher positions are available in the lab of Dr. Yohei Kirino at Computational Medicine Center (CMC)/Department of Biochemistry and Molecular Biology in Thomas Jefferson University (TJU). The lab uses originally-developed RNA sequencing/quantification tools (e.g., cP-RNA-seq: Nat Protoc 2016; Dumbbell-PCR: NAR 2015; FL-PCR: RNA Biol 2015), as well as biochemistry and molecular/cell biology, to investigate the biogenesis and function of small RNAs (e.g., hormone-dependent tRNA-derived RNAs: PNAS 2015) in the pathogenesis of cancer and asthma. For more information about the Kirino lab, please see the websites at http://www.jefferson.edu/university/research/researcher/researcher-faculty/kirino-laboratory.html and https://cm.jefferson.edu/staff-members/yohei-kirino/.

Energetic, inquisitive, and highly-motivated individuals with strong background in RNA biology and molecular/cell biology are encouraged to apply. Experience on bioinformatics analysis will be an advantage but not essential. Applicants should have a Ph. D. degree, a productive track record, and a high writing and communication skills. The successful applicant will have a unique opportunity to work in close collaboration within CMC (https://cm.jefferson.edu/) and with other research groups in TJU and UPENN.

Applicants should send 1) a cover letter with a description of past research experience, 2) CV, 3) a statement of research interests and career goals, and 4) contact information of 3 references to Dr. Yohei Kirino at Yohei.Kirino@nulljefferson.edu.

3 YEARS POSTDOCTORAL POSITION IN TRANSLATIONAL CONTROL RESEARCH

Laboratory of Dr. Juana Díez, University Pompeu Fabra, PRBB, Barcelona

RNA viruses are a major threat to human health. They also provide a fascinating window into cell biology since they interact intimately with the infected cell. Aims of the project are to decipher how emerging mosquito-borne viruses such as Zika virus efficiently translate their genomes in both mosquito and human translation machineries and how they modify the host gene expression program to their benefit.

THE INSTITUTE
Our group is integrated into the Biomedical Research Park of Barcelona (PRBB), one of the largest hubs of biomedical research in Europe. For more information please visit the web sites: http://www.prbb.org; http://www.upf.edu/virologyunit/

CANDIDATE REQUIREMENTS
– PhD in a relevant field (Translational control, RNA biology) with at least one publication in a reputable international journal.
-Fluency in spoken and written English.

The candidate should be highly motivated, self-driven and passionate about science. He/she is expected to set up work standards in research quality and reproducibility, to tutor PhD students, to be involved in grant writing and to be a team player.

CONDITIONS
3-year contract (estimated annual gross according to Spanish standards, 30.000€).
Starting date: April 2017 (or by agreement).

HOW TO APPLY
To apply please submit the following to juana.diez@nullupf.edu indicating in subject “postdoctoral position”:
1- A letter of interest that includes your laboratory experience, long-term career goals and data of availability to begin.
2- CV including the contact details of 3 referees.

Postdoctoral Position to Study Single Molecule Events in RNA Biology

The Stasevich lab at Colorado State University, in conjunction with the Parker lab at Univ of Colorado, Boulder, has one opening for a postdoctoral scientist to study single molecule events in RNA biology. This broadly defined research project would be jointly mentored by Dr. Roy Parker, a world-renowned expert in RNA biology at the neighboring BioFrontiers Institute at CU Boulder. The goal is to elucidate the dynamics of RNA in living cells, which could include transcription, splicing, translation, response to environmental cues and/or stress, and degradation. Work in this project would expand upon and apply some of the truly unique imaging technologies our lab has recently developed to monitor single mRNA translation events and protein post-translational modifications in vivo:
http://phys.org/news/2016-05-longer-lost-biochemists-gene-real.html

Ideal candidates will have a background in biophysics or RNA biology and the ability to communicate with biological scientists in other disciplines. The postdoc who fills this position will be offered a competitive salary with benefits. They will also have the unique opportunity to interact closely with multiple research groups spanning the CSU and CU systems. As the research topic is broadly-defined, the specific research direction will be somewhat flexible and dependent upon the interests and previous experience of the post-doc, meaning there is lots of room for creativity!
For more information about the Stasevich lab, please see our website at
http://sites.bmb.colostate.edu/stasevichlab/

To apply please send a C.V., cover letter, and contact information for three professional references to Tim Stasevich at tim.stasevich@nullcolostate.edu and Roy Parker at roy.parker@nullcolorado.edu.

Post Doctoral Researcher for a 3-Year Project to Work on RNA Modifications in Plants

The Department of Biology, University of Copenhagen, is recruiting a post doctoral researcher for a 3-year project to work on RNA modifications in plants. The project is jointly supervised by Associate Professors Jeppe Vinther and Peter Brodersen. The starting date is January 1st 2017 or as soon as possible thereafter. The groups are housed in Copenhagen Biocenter in central Copenhagen, Denmark (http://www.biocenter.ku.dk/).

The project aims to characterize epitranscriptomic changes during stress responses in the plant Arabidopsis thaliana by applying recently developed, in-house methodologies for detection of chemically modified nucleotides in RNA by next-generation sequencing (NGS). Some effort will also be devoted to further development of NGS-based methods to characterize RNA modifications.

We are looking for highly motivated individuals with a PhD degree in biochemistry or molecular biology. Candidates with some knowledge of bioinformatic analysis of next-generation sequencing data will be preferred, and experience in RNA biology/biochemistry is a clear advantage. Prior experience with plant molecular biology is not a formal requirement for this position.

Applicants must document their successful PhD studies by at least one first-author publication in a respectable international journal. If a manuscript is in review or in revision in a major journal, the applicant may also describe the work, and, if possible, enclose a copy of the submitted manuscript as well as documentation for its editorial handling at the journal. The position is open to all applicants regardless of nationality, and will be funded by a grant from the Novo Nordisk Foundation.

For further information on the project, please contact Peter Brodersen, e-mail pbrodersen@nullbio.ku.dk or Jeppe Vinther jvinther@nullbio.ku.dk.
Applications have to be submitted via the University of Copenhagen jobportal: ow.ly/6jTE305aCRm