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An exciting opportunity for a PhD student has arisen in the areas of population genetics. This is a structured four-year PhD project, supported by Science Foundation Ireland.
The aim of the project is to describe human genetic diversity in the Irish population, and in doing so, outline fine-scale population structure across the island. The project will have strong links to genetic mapping of disease genes, as understanding fine-scale patterns of diversity in a population can inform on study design. The project will involve fieldwork across Ireland, laboratory work in a well-resourced and supportive environment and opportunities for training in the generation, manipulation and analysis of next-generation sequence datasets.

This Is RCSI

Research will be carried out between the Royal College of Surgeons in Ireland and University College Dublin, under the supervision of Dr. Gianpiero Cavalleri and Dr. Sean Ennis. This is a four-year project starting during the 4th quarter of 2014 or earlier. Aside from your project work, your development will be further supported via the structured PhD programme at RCSI which offers a variety of generic training opportunities. Fees will be covered in full (for EU students) and you will receive a stipend of EU18,000 per annum.

The successful candidate will:

  • Have a minimum of an upper second-class honours Undergraduate degree in genetics, bioinformatics, computer science, statistics or related undergraduate science degree.
  • Experience in LINUX and/or R computational environments is desirable but not essential.
  • Be highly motivated and have the initiative to work independently when required.
  • Have strong communication and organisational skills.
Any questions related to this post should be directed to Dr. Gianpiero Cavalleri ([email protected]).
Candidates should, referencing position PhD-structure, email a CV and cover letter outlining their suitability for the position to: Gillian Murphy at gillian[email protected].
The closing date for applications is Friday 10th October 2014.
imageDr. Gianpiero Cavalleri
Gianpiero Cavalleri BSc, Phd
Gianpiero is a B.Sc. graduate of Trinity College Genetics Department and completed a Ph.D. in human genetics at University College London in 2006. Prior to his arrival at RCSI, he worked at the Institute for Genome Science and Policy at Duke University, North Carolina. Gianpiero was appointed as a Biomedical Research Lecturer at RCSI in 2008.Read more




Contact details:

Address: Molecular and Cellular Therapeutics,
Royal College of Surgeons in Ireland,
123 St. Stephen's Green,Dublin 2
Telephone: +353 1 809 3825
Fax: +353 1 809 3778
Email: [email protected]
Current position: Biomedical Research Senior Lecturer

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We are looking for

An emerging area of common interest to the five 'Food Chairs' constituting the Food Science cluster of Wageningen University is to develop a system approach within the food science domain in relation to the overarching agri-food challenges. These challenges can be addressed by a system approach, including its dynamics. Areas of particular interest are Food Digestion Dynamics and Food Production Dynamics. The former envisages the understanding of food and its digestion as one system. The latter is on understanding the food and its production chain as one system.

Student life at Wageningen University

The specific work in the PhD project will concern the building of a systems dynamics approach for food safety microbiology by linking quantitative risk assessments with omics data. Phenotypic behaviour including adaptive stress response and survival, transfer and growth of pathogenic organisms in foods are coupled with transcriptome and genome data. Impact of food-relevant stresses on phenotypic diversification and convergent evolution will be assessed for selected foodborne pathogens.
  • Food Safety System Dynamics aims to address the fate of food microorganisms as they move throughout the food chain, explicitly including interdependencies and feedback loops down to a molecular level, unravelling the interdependencies between different stages in the food chain and on different levels of scale. It specifically studies quantitatively the fate of these organisms, and on the other side tries to understand the mechanisms of the overarching behaviour.

We ask

For this position we request a prospective PhD student, who has an MSc-degree or equivalent in (food) microbiology, biotechnology, Bioinformatics or in food science & technology and a genuine interest in quantitative microbiology and statistics. The project requires a dedicated, creative individual, with broad academic skills. The project will start as soon as possible.

We offer

  • We offer you a temporary position for a period of 1.5 years with extension of 2.5 years after successful evaluation.
  • Gross salary per month € 2083,-  in the first year rising up to € 2664,- per month in the fourth year.
  • We not only offer a competitive salary but also good (study) leave and a pension of the ABP Pension Fund.

More information

For more information about this position, please contact Marcel Zwietering, Chair Food Microbiology telephone number +31 317482233
For more information about the contractual aspects, please contact Rob van Meegen, HR-advisor, telephone number +31 3174 85466
Interested?
You can apply online at http://www.wageningenur.nl/en/Jobs/Vacancies.htm until  October 6th, 2014.

We are

The Food Microbiology group is one of the five groups constituting the Food cluster domain at Wageningen University and Research centre.The Agrotechnology & Food Sciences Group is part of Wageningen UR where fundamental and applied sciences complement each other. As an important international player, we carry out top-level research and work alongside authoritative partners within the international business world as well as the government on 'Healthy food in a biobased society'. We have a crucial role in innovations within the market. Entrepreneurship and professionalism are what define us. In short, we are an interesting, international employer of stature.

Wageningen University Lipdub


Wageningen University and Research centreDelivering a substantial contribution to the quality of life. That's our focus - each and every day. Within our domain, healthy food and living environment, we search for answers to issues affecting society - such as sustainable food production, climate change and alternative energy. Of course, we don't do this alone. Every day, 6,500 people work on 'the quality of life', turning ideas into reality, on a global scale.Could you be one of these people? We give you the space you need.

Apply Online For PhD Food Safety System Dynamics

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PhD position in Molecular Biology

The Department of Molecular Biology, which is part of both the Faculty of Science and Technology and the Faculty of Medicine, has about 200 employees. The department’s main tasks are research, postgraduate and undergraduate education and interaction with society. For more information, www.molbiol.umu.se
The project will be part of MIMS (www.mims.umu.se), which is the Swedish node in the Nordic EMBL partnership in Molecular Medicine and hosted with the multidisciplinary Umeå Centre for Microbial Research (UCMR, www.ucmr.umu.se).

This is Umeå University!

  • Umeå University is dedicated to providing creative environments for learning and work. We offer a wide variety of courses and programmes, world leading research, and excellent innovation and collaboration opportunities. More than 4 300 employees and more than 32 400 students have already chosen Umeå University. We welcome your application!

Molecular mechanisms involved in persistent bacterial infections

  • Persistent infections by bacteria are a major cause of antibiotic overuse in animals and humans and increasing evidence indicate that development of antibiotic resistance is promoted during persistency. This thesis project aims to reveal mechanisms involved in establishment of persistent infections. The ultimate goal is to identify new bacterial targets that can be explored for development of new antibiotics. The studies will focus on bacterial stress responses using the enteropathogen Yersinia pseudotuberculosis as a model pathogen. The work involves mutagenesis and phenotypic characterization of bacteria, RNA-seq, bioinformatics analyses and animal infection models.

Admission requirements

  • Applicants must hold or anticipate receiving within the next months a University degree equivalent to a European University Master degree in the field of biomedicine, molecular biology, biochemistry or tumor biology (240 ECTS credits) of which 60 should be on an advanced level (Master level).
  • The position requires a minimum of 30 credits in chemistry with at least 7.5 credits in Biochemistry, 45 ECTS credits in the major areas of biology or molecular biology with at least 7.5 in genetics and 22.5 in microbiology, physiology or cell and molecular biology. In addition, it is required that at least 45 ETCS credits are at advanced level in cell and molecular biology, including independent work of at least 15.
  • Qualified are also those who completed eight semesters of medical or dental program, including medical chemistry, cell and molecular biology, genetics, physiology, microbiology and independent work and those that have acquired substantially equivalent knowledge in Sweden or abroad.
Applicants need to be skilled in both oral and written communication in English, be able to work independently as well as in collaboration with others and be highly motivated. Applicants should have a true interest in the field of molecular infection biology and be willing to take on a scientific and technical challenge. Prior hands-­on experience in molecular biology, microbiology and bioinformatics is highly desirable and experience from previous experimental work with bacterial pathogens is considered a particular merit. Practical experiences from work with bioinformatic analyses of gene expression and handling of mice are merits.

Application

  • The assessments of the applicants are based on their qualifications and their ability to benefit from the doctoral-level education they will receive.
  • The application should include an introductory letter with a statement of research interest why you are interested in the position, CV and copies of degree certificates including documentation of completed academic courses and their grades, contact information to two persons willing to act as references and copies of thesis work and publications.

Salary/type of position

  • PhD positionThe salary successively increases during the 4 years according to a stipulated scale.

Information

Contact person: Prof Maria Fallman ([email protected])
Applications must be written in English. Documents sent electronically should be in MS Word or PDF format.
Union information is available from SACO, +46-(0)90-786 53 65, [email protected], SEKO, +46-(0)90-786 52 96, [email protected] and ST, +46-(0)90-786 54 31,[email protected].
  • Your complete application, marked with reference number AN 2.2.1.5-1019-14, should be sent to [email protected] (state the reference number as subject) or to the Registrar, Umeå University, SE-901 87 Umeå, Sweden to arrive October 9, 2014 at the latest.

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Job title:Interdisciplinary PhD in Systems Biology, Bioinformatics, and Immunology (SIB - group M. Delorenzi, CHUV group D. Zehn)
We consider applications for an interdisciplinary PhD in the area of systems biology and bridging bioinformatics, transcriptional networks identification and molecular regulation of immune responses during acute and chronic infections.

Specifically the projects involves:

  1. Analysis of molecular data (mRNA and or NGS)
  2. Building co-expression networks, identification of hub genes, and key transcription factors
  3. In vivo validation of identified candidate genes

Welcome to the University of Lausanne



Start date Open
Employment fraction Open
City Lausanne
Application deadline mid December 2014 (earlier=better)
Job reference BCF-JobAd-Sept2014-PHDimm
Initial Duration Open

The project will be performed in close collaboration between the bio-informatics laboratory of M. Delorenzi and the immunology oriented laboratory of D. Zehn. The project aims to unravel and verify the molecular mechanisms underlying T cell dysfunction in chronic infections and the failure of the immune systems to clear certain pathogens. Comprehensive training in bio-informatics analysis will be provided and sophisticated state of the art techniques will be used to in vivo investigate the function of candidate molecules in immune effector cells in models of infection. Candidates will join the PhD program “Cancer and Immunology” of the University of Lausanne and the SIB PHD training network (http://www.isb-sib.ch/training/sib-phd-training-network.html).

Profile requirements

  • Enthusiastic interest for trans-disciplinary research (medicine, molecular biology, genomics, computing-programming, statistics)
  • Good knowledge and proven skills in one or more of these fields.
  • Good English speaking and writing skills.

Additional skills of interest

  • Knowledge in molecular biology and / or immunology
  • Skills in biostatistics / data analysis methods
  • Experience in the use of R software.
  • Experience in software development.Salary & Benefits
Salary: Approx. 45k CHF (40 k€) per year.

Additional information

  • SIB is a not-for-profit organization that offers excellent bioinformatics infrastructure.
  • The CHUV is the hospital of the University of Lausanne.
  • Lausanne offers a very stimulating environment with many research institutions and a
  • The position will open opportunities for careers in basic or applied research in academia and in the private sector.

Application

The application should include:

  1. a cover letter, with summary of motivation and research interests;
  2. a full curriculum vitae including a commented description of past activities; names and full contact information of at least one reference person.
  3. Please also indicate if you are currently authorized to work in Switzerland (and the type of visa, if available).
Please submit applications by e-mail with Subject line: “BCF-JobAd-Sept2014-PHDimm” to the address below. Please note that the mail might be processed automatically and the body of the mail might be disregarded. Please submit all files in pdf format attached to the mail as a compressed / zipped directory named “BCF-JobAd-Sept2014-PHDimm-YourFamilyName”. Thank you.
Job contact person Dr. Mauro Delorenzi Group leader BCF - Bioinformatics Core Facility
SIB Swiss Institute of Bioinformatics &
Ludwig Center for Cancer Research (University Lausanne)
E-mail: [email protected] http://www.isb-sib.ch/
image Dr. Mauro Delorenzi
Head Bioinformatics Core Facility (BCF)
NCCR molecular oncology program at ISREC
E-mail:   [email protected]
Phone: +41-21 692 4097 & +41-21 692 5857






Address 1 Address 2
c/o Swiss Institute Bioinformatics (SIB)
Quartier Sorge, Btiment Gnopode, Office Room 2021
CH-1015 Lausanne, Switzerland
Phone: (group) +41-21 692 40(91-98)
Fax: +41-21 692 4055
Directions: Local Map and Ways
SREC (Swiss Institute of Experimental Cancer Research)
Boveresses 155, Office Room D208
CH-1006 Epalinges, Switzerland
Phone: (group) +41-21 692 5857
(secretary: Anne-Marie Rodel) +41-21 692 5939
Fax: +41-21 652 6933
Directions: Local Map and Ways

Interdisciplinary PhD in Systems Biology, Bioinformatics, and Immunology


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Open Position: PhD position at the interface of epigenetics and stroke research
We are looking for a highly motivated PhD student with keen interest in applied epigenetics and excellent communication skills in English. Ideally, applicants have a Masters degree or equivalent in Biochemistry or Cell Biology.
Furthermore, a track record in Bioinformatics is of advantage.

LMU Munchen - Munich University

In a project funded as part of the new DFG Excellence Research Network “, Munich Cluster for Systems Neurology (SyNergy)” the Adolf-Butenandt-Institute for Physiological Chemistry (www.ladurnerlab.de), led by Prof. Dr. Andreas Ladurner, and the Institute for Stroke and Dementia Research (www.isd-muc.de), led by Prof. Dr. Martin Dichgans, plan to study the role of the stroke-relevant HDAC9 locus in gene regulation and protein acetylation. The aim of the project will be to identify the roles of HDAC9 in regulating gene activity in the mouse using functional genomics.
  • The Adolf-Butenandt-Institute for Physiological Chemistry is interested in the epigenetics of metabolic and environmental adaptation, and has particular expertise in chromatin plasticity using structural, cell biological and genomic approaches. The ISD is a new research institute bridging the traditional barriers between academic medicine and basic science. A major research field is to characterize risk loci associated with stroke and dementia in a genome-wide scale and to address their function with cell biological and genomic approaches.
This PhD position will be in an international, dynamic and “open-door” atmosphere, with access to state of the art laboratory facilities and structured training as part of the Graduate School for Systemic Neuroscience (GSN) (www.gsn.unimuenchen). Salary is according to the German TV-L scale. The position is initially limited for one year, but subject to a satisfactory first year PhD assessment, is expected to be extended until completion of the doctoral dissertation. Disabled persons will be preferentially considered in case of equal qualifications.
To find out more about the project, please send a cover letter, Motivation Letter, CV and two Letters of Recommendation as a merged PDF file to Prof. Dr. Andreas Ladurner at ([email protected]) and Prof. Dr. Martin Dichgans at ([email protected]).

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The international PhD College SPIN – Signal Processing in Neurons announces 8 PhD fellowships in Neuroscience. The program is funded by the Austrian Science Fund (FWF) and is jointly run by Innsbruck Medical University and the University of Innsbruck including 12 departments.
SPIN was set up to allow multidisciplinary interaction at the interface of molecular and clinical neuroscience. Our aim is to reach a new level of understanding of the fundamental integrative processes that govern the signaling within and between nerve cells under normal and pathological conditions. Training in SPIN is designed to enable young researchers to reach a level of excellence that will allow them to compete for the most attractive post-doc positions in academic and industrial environments. In order to obtain a PhD at our institution, students must carry out an experimental study and complete the courses in the PhD curriculum.

SPIN Graduate School for Neuroscience: Be part of it!

Key Points:

  • duration of degree: 3 years
  • degree: PhD (Doctor of Philosophy)
  • program language: English
  • entry requirements: life sciences, BIOINFORMATICS, chemistry, pharmacy, psychology or human medicine graduate
  • recruitment procedure: written application, personal interview

Benefits:

  • individual supervision and monitoring (students have their individual thesis steering committee)
  • a highly structured SPIN-specific educational program
  • laboratory rotations in the participating institutions
  • funded research exchange with international laboratories
  • retreats and social activities
  • guaranteed salary as suggested by the Austrian Science Fund (currently € 1.996,90 gross per month) for the proposed 3 years, health insurance and social benefits
  • state-of-the art facilities and resources
  • personal and career development

Application

Please submit the following documents by email (as a single, named document in PDF format using "lastname_firstname.pdf") to the following address: [email protected] until October 31st, 2014:
  1. an informal statement that gives insight into your qualifications and interest in specific areas
  2. CV
  3. certificates of your Masters degree (with indication of credit system)
  4. two letters of recommendation
PhD students are selected on the basis of their application materials and a personal interview at Innsbruck Medical University. We invite applications from highly qualified and motivated students of any nationality and we are looking forward to your application for a PhD fellowship in our program.

For further information go to www.neurospin.at or get in touch at [email protected].

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C A L L  F O R  E X P R E S S I O N  O F  I N T E R E S T  F O R  A N  E X T E R N A L  C O L L A B O R A T O R

The Biomedical Research Foundation of the Academy of Athens, under the framework of the research project entitled “iMODE-CKD - Clinical and system –omics for the identification of the molecular determinants of established Chronic Kidney Disease”, which is coordinated by Principal Investigator Dr Antonia Vlahou and funded from the European Commission, is announcing a call for interest for the following position.

Description of Position

1. Specialty: Bioinformatics

Work field:

  1. Extract and collection data- Data mining
  2. Statistical analysis of existing data
  3. Setting up a server

Deliverables :

  1. Extract and analyze publicly available and proprietary datasets and key publications relevant to CKD progression
  2. Generate a CKD progression relevant database.
  3. Perform initial statistical analysis of existing data for the identification of CKD progression associated clusters.

Employment period: 12 months

Minimum Requirements:

  1. BSc in Biology or Computer Science
  2. MSc in Bioinformatics or Systems Biology
  3. Excellent Knowledge of English language
  4. Experience in fields related to Molecular Biology, proteomics and mass spectrometry

B. Procedure and selection criteria

  • The candidates will be evaluated according to the following evaluation procedure and the top 3 candidates will be invited for an interview.
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Important:

Candidates must meet the following criteria:

  1. Researchers must not have resided or carried out their main activity (work, studies, etc.) in Greece for more than 1 year in the past 3 years; Short stays such as holidays and/or compulsory national service are not taken into account
  2. Researchers must have a degree that in their country gives access to a PhD
  3. Not having registered in a PhD program.

To apply, please:

A. Mail or submit in person (office hours: 9.30 – 16.30) the following documents in a closed envelope with the indication “Application for the call of interest with reference number to the address below:
Biomedical Research Foundation, Academy of Athens Secretarial Department
Attn: Personnel Department
Soranou Efessiou 4, 115 27 Athens

B. Via e-mail the following Documents mentioning as subject “Application for the call of interest with reference number …./….-….-2014" to the following address: [email protected].

Necessary Documents:

  • Application for the Expression of Interest
  • Curriculum Vitae
  • Legible copies of degrees
  • Contact details for references

Application Deadline: 22/10/2014

The application is considered filed timely if the envelope is properly addressed and postmarked no later than the deadline of the call.The results will be published on the website of BRFAA (www.bioacademy.gr). The candidates have the right to:
  • File a complaint within 5 calendar days following the date that the results have beenpublished on BRFAA’s website.
  • Gain access to the application files of other applicants, within 5 calendar days following the date that the results have been published on BRFAA’s website, with a written request to BRFAA, under the conditions laid down in the ref:Γ/ΕΞ/4163-1/06.07.2012 decision of the Hellenic Data Protection Authority
  • This call of interest does not commit BRFAA to enter into a partnership with any of the applicants and does not create any right of expectation.

This call of interest is published on the website of BRFAA.

Position Opportunities : Call of Interest for an External Collaborator 

Application for the Expression of Interest


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The Laboratory of Glia Biology is looking for an enthusiastic PhD student to join the team by the beginning or middle of 2015.

Background:
To date, the majority of CNS studies have focused on understanding the function of neurons – which are traditionally viewed as the computational units of the brain. However, the vast majority of cells in the mammalian CNS are actually astrocytes. It is now becoming increasingly obvious that astrocytes are involved in all aspects of CNS function, from initial formation of synapses through to the active modulation of information transfer at these structures. Therefore, breakdown in astrocyte function is inevitably involved in both acute and chronic neurological conditions, such as stroke and cancer.

VIB Department of Plant Systems Biology

The project:

  • Our group believes that astrocyte function is best understood by taking a ‘bottom-up’ approach, in which function is set by the transcriptional status of individual cells, or distinct subpopulations of cells, in the brain. Functional analysis of our own astrocyte expression data, supplemented by integration of publically available data sets, will yield astrocyte (subtype) specific networks, that will lead to a better understanding of (differential) astrocyte function in both the healthy and diseased CNS (with a particular emphasis on cancer).

Profile

​Candidates must have, or expect to obtain, a first class honors degree (or equivalent) in bioinformatics or a related subject. A strong interest in neuroscience is required.

We offer

  1. The project will be conducted in the lab of Matthew Holt. The group has a strong international track record in studying the molecular basis of CNS function. The scientific excellence of the group was recently recognized with a prestigious ERC grant. As a result, we expect to offer a renewable contract, a competitive salary and benefits (although candidates will also be expected to apply for their own external funding).
  2. The VIB Center for the Biology of Disease is an international research department with a strong emphasis on neuroscience. Researchers have access to high-end technologies (including a state-of-the-art sequencing core) and technical support in a new, purpose-built research institute. Translational research is encouraged by close proximity to the University Clinic.
  3. A good knowledge of English is sufficient for all communications, both within and outside the institute. Situated in the heart of Europe (close to Brussels and with excellent transport links), the position is ideally suited to international candidates.

How to apply?

Motivated and interactive individuals, with a strong interest in applying viral vectors to neuroscience questions, are advised to apply online.
Please add the contact details of 2 referees in the appropriate field of the online application form.

Apply Online

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Postdoctoral position in multi-scale systems biology at GRIB (IMIM-UPF)
The candidate will contribute to the development of a multi-scale modeling framework aiming to predict cellular function from genotype by combining models with high-throughput data sets. The methodology will follow an integrative strategy based on the hierarchical decomposition of biological systems into their constitutive modular parts such as at molecular, cell, network, tissue, organism, and population. Duties will involve the development of algorithms and protocols for modeling genotype/phenotype relationships in drug design, with a focus on overcoming toxicity and resistance mechanisms through multi-scale systems biology approaches. This project is oriented towards technology transfer and will be carried out through ongoing collaboration with biotech and pharma companies.

¡Bienvenidos a la Pompeu Fabra!: Welcome to the Pompeu Fabra !

We seek candidates to apply for a senior postdoctoral position at the Research Programme on Biomedical Informatics (GRIB) in the 3rd call of the TECNIOSPRING fellowship programme co-financed by the EU through the Marie Curie Actions and the Catalan Government.

Qualifications

  • The successful candidate will have a Ph.D. in computer science, engineering, chemical or biological sciences. Essential qualifications include good programming skills and experience with biological model simulation. Additional skills include experience with bioinformatics or chemoinformatics demonstrated though publications, strong collaborative skills and ability to work and communicate in a team environment is also required.
  • Candidates should have at least four years of postdoctoral experience or eight years of equivalent experience, including one year experience in applied research or technology transfer and some experience in the scientific management of other researchers, both in a research centre or a private company. This call is open to all nationalities and aims to attract research taIent from abroad so it is mandatory that candidates should not have worked or lived in Spain for more than twelve months in a two years period before the call.
The successful applicant will have a two year contract with an annual gross salary of 44.000 Euros and full social security coverage. She/he will work in a stimulating and multidisciplinary scientific environment and will receive training in the field of technology transfer and in a wide range of soft skills related to project management, dissemination, etc…The job position complies with theCharter and Code for the Recruitment of Researchers.

Bioinformatics studies cancer from a genomic point of view

About the GRIB

The Research Programme on Biomedical Informatics (GRIB) is a joint research programme of IMIM-Hospital del Mar Research Institute and Universitat Pompeu Fabra (UPF) located in Barcelona (Spain). We carry out fundamental research and technological developments on the application of advanced information technologies and computational methods in health and life sciences. GRIB has a wide experience in the participation and coordination of international research projects and a long tradition of collaborations with the pharmaceutical and biotechnological industry.

How to apply:

Interested applicants should submit a motivation letter describing relevant experience, an updated CV and contact information for at least two referees toPablo Carbonell, [email protected].
Application deadline is October 15th, 2014.

More information about the TECNIOSRPING call at

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The post-doc will develop and implement computational algorithms and a system to study computationally derived gene regulatory networks, in conjunction with existing public database of signaling pathways such as Pathway Commons. The post-doc will also assist in developing grant proposals, based on the outcomes of aforementioned research, in addition to publishing research results.
In addition, the post-doc will co-mentor students (high school, undergraduate and/or graduate students) in related research.

Translational Genomics Research Institute (TGen)

The Seungchan Kim lab (Biocomputing Lab) at TGen focuses on development and application of computational methods to analyze high throughput genomic and transcriptomic data.

Our research incorporates statistical and computational tools to study cancer biology, focusing on:

    1. identification of biomarkers and/or therapeutic targets for cancers,
    2. molecular classification of cancers, and
    3. understanding and mathematical modeling of genetic regulatory networks, with the special focus on contextual genomic regulation.

Detailed Description

  1. Develop a system to archive computationally derived gene regulatory networks (cGRNs) from public data such as TCGA and ICGC.
  2. Develop algorithms to analyze archived cGRNs.
  3. Develop algorithms to identify condition-specific GRN.
  4. Mentor students (high school, undergraduate and/or graduate students) in related research
  5. Collaborate with other scientists within and outside the institute.

Job Requirements

  1. Ph.D. in bioinformatics, computational biology, or computer science with experience related field of research.
  2. Strong programming skills  C/C++ or Java.
  3. Experience with public genomic database such as TCGA is required.
  4. Experience in database system, especially noSQL, is desired.

Read more/Apply online:

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Project: The source of genomic innovation in the human pathogen Acinetobacter baumannii
Employment: Contract duration is 36 months.
Wanted: We are looking for two talented and highly motivated students that enjoy working in a team.
Project outline: Taking the lead in the arms race against their host’s immune system is characteristic for all successful pathogens. The multi-drug resistant Acinetobacter baumannii strains have proven increasingly successful in coping with this challenge. Preliminary results indicate that this success is tightly linked to A. baumannii’s high genetic flexibility both with respect to modifying existing information and with respect to mining its environment for novel genetic information. The DFG research group 2251/1 “Adaptation and persistence of the emerging pathogen A. baumannii” is dedicated to address the precise nature underlyingA. baumannii pathogenicity from different starting point.

Students about the Goethe - University Frankfurt

  • Our project represents the bioinformatics backbone of the research group and has two main objectives. In a broader evolutionary analysis, we will assess the role of natural competence for the acquisition of A. baumannii pathogenicity related factors and for general bacterial evolution. Software development for establishing function-aware phylogenetic profiles of large protein sets will be a central work package. In a complementary approach, we will use comparative genomics to identify the genetic basis of A. baumanniivirulence. To this end, we will complement publicly available genome sequences of A. baumannii with in-house determined sequences of selected clinical strains. We will then trace the evolutionary origins of virulence factors in a phylogenomic network of bacterial diversity. The results from both objectives will then be integrated in a web-accessible database that distributes information to all project partners.
General information: The successful candidates will be supported by the DFG Research Group 2251/1 Adaptation and persistence of the emerging pathogen Acinetobacter baumannii(http://www.bio.uni-frankfurt.de/51172482). The PhD student will be trained in state-of-the art bioinformatics methods of evolutionary sequence analysis and comparative genomics. Complementary competence will be acquired by joint projects with the biological and medical project partners within the research group.

Eligibility:

  • Applicants must fulfill the eligibility criteria for participating in a German PhD program.
  • Researchers can be nationals of any country within or outside of the EU.
  • Good knowledge of the English language (fluently speaking and writing) is essential.

Requirements:

  • We expect very good programming skills in at least one of the following programming/scripting languages: Java, Perl, Python, C, C++, or R. Experience in the handling and analysis of high-throughput sequence data in an functional and evolutionary framework is highly desired. For at least one candidate excellent knowledge in the set-up and maintenance of relational databases is required.
Application: Please send your application in electronic format to Prof. Dr. Ingo Ebersberger ([email protected]), Goethe University, Institute for Cell Biology and Neuroscience, Dept. for Applied Bioinformatics, Max-von-Laue Strasse 13, 60438 Frankfurt am Main. Applications will be accepted until the position is filled. Earliest starting date is October 2014. Please include the following documents into your application:
  1. CV
  2. Copies of all university degree(s) and school certificates (if possible, including university Grade Point Average scores)
  3. A letter of motivation (1 page) outlining your qualification for the project
  4. Two letters of reference
  5. A list of publications (if available)
  • The Goethe University advocates equality of opportunity for men and women and therefore expressly encourages women to apply. Persons with severe disabilities will be given preferential consideration in case of equal qualifications.

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PhD scholarship in Protein and Proteomics Studies of Proteolytic Degradation of Pig Bristle by Microbial Consortia
A PhD position is available with the Enzyme and Protein Chemistry group at the department of Systems Biology, Technical University of Denmark (DTU) in the project “Keratin2Protein: Novel approach to protein recovery from slaughterhouse waste through microbial conversion”. The research is conducted in collaboration with Department of Biology, University of Copenhagen, the Section for Sustainable Biotechnology, Aalborg University and Danish industry partners.

Come to DTU

You can read more about Enzyme and Protein Chemistry at

http://www.bio.dtu.dk/english/Research/Research-groups/Enzyme-and-Protein-Chemistry


Responsibilities and tasks

  • The potential to convert biological residual resources into new alternative high value products is especially important in Denmark and Europe due to serious protein deficit. The project aims at significant protein food chain gain and production of high value products through waste utilization. 
  • The PhD candidate will focus on keratin degrading systems to discover and characterise proteolytic reactions conferred by microbial consortia at the protein and proteome level by using advanced mass spectrometry techniques as well as production and characterisation of recombinant target proteases.
  • The successful candidate is a talented highly motivated and self-driven person who enjoys working with different techniques and disciplines in an international environment and in collaboration with industry. Fluency in English and good communication skills are required.

Qualifications


  • Candidates should have a master's degree in engineering or a similar degree with an academic level equivalent to the master's degree in engineering.

Approval and Enrolment

The scholarships for the PhD degree are subject to academic approval, and the candidates will be enrolled in one of the general degree programmes of DTU. For information about the general requirements for enrolment and the general planning of the scholarship studies, please see the DTU PhD Guide.

Assessment

  • The assessment of the applicants will be made by Prof. Birte Svensson assisted by project collaboration partners.

We offer

We offer an interesting and challenging job in an international environment focusing on education, research, public-sector consultancy and innovation, which contribute to enhancing the economy and improving social welfare. We strive for academic excellence, collegial respect and freedom tempered by responsibility. The Technical University of Denmark (DTU) is a leading technical university in northern Europe and benchmarks with the best universities in the world.

Salary and appointment terms

The salary and appointment terms are consistent with the current rules for PhD degree students. The period of employment is 3 years.

Further information

Further information may be obtained from Professor Birte Svensson, +45 4525 2740, [email protected] or Associate Professor Per Hägglund, +45 4525 5503, [email protected]
Please do not send applications to this e-mail address, instead apply online as described below.
You can read more about the Department of Systems Biology on www.bio.dtu.dk

Application

  • Please submit your online application no later than 8 October 2014.
  • Applications must be submitted as one pdf file containing all materials to be given consideration. To apply, please open the link "Apply online," fill in the online application form, and attach all your materials in English in one pdf file. The file must include:
  1. A letter motivating the application (cover letter)
  2. Curriculum vitae
  3. Grade transcripts and BSc/MSc diploma
  4. Excel sheet with translation of grades to the Danish grading system (see guidelines and excel spreadsheet here)
Candidates may apply prior to obtaining their master's degree, but cannot begin before having received it.
All interested candidates irrespective of age, gender, race, disability, religion or ethnic background are encouraged to apply.
  • Department of Systems Biology represents a large concentration of academic biotechnological research in Denmark, including protein and enzyme chemistry, food biochemistry, bioinformatics, systems biology, molecular biology, fermentation technology, physiology and genetics of industrial microorganisms and medical microbiology. The department hosts senior and junior faculty members and post-doctoral fellows, PhD students and technical/administrative personnel, around 260 in total. In addition to bachelor, master and PhD education, collaborative research and innovation together with national and international universities and industries is given high priority at the department.
  • DTU is a technical university providing internationally leading research, education, innovation and public service. Our staff of 5,700 advance science and technology to create innovative solutions that meet the demands of society; and our 10,000 students are educated to address the technological challenges of the future. DTU is an independent academic university collaborating globally with business, industry, government, and public agencies.

Read more

http://www.bio.dtu.dk

Apply Online

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