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Thursday, 18 September 2014

PhD Fellowship in Bioinformatics and Evolutionary Genomics @ Institut de Biotecnologia i de Biomedicina (IBB) of the Universitat Autònoma de Barcelona (UAB)

PhD Fellowship in Bioinformatics and Evolutionary Genomics
A FPI fellowship to carry out a PhD degree in Bioinformatics and Evolutionary Genomics is available at the Bioinformatics of Genomic Diversity and the Comparative and Functional Genomics groups located at the Institut de Biotecnologia i de Biomedicina (IBB) of the Universitat Autònoma de Barcelona (UAB). The successful candidate will join a young, dynamic, and interdisciplinary team and will collaborate in the research of the group within the project “Understanding genome variation from nucleotides to phenotypes in Drosophila and humans”, funded by the Ministerio de Economía y Competitividad.
  • In particular, the PhD project will be focused on the development of models to estimate the action of selection on genome variation, including both SNPs and structural variants, especially inversions, and the integration of population genomics data with functional data to characterize the genomic determinants of evolution.


We are looking for motived individuals with high interest in science and a Master degree in an area related to Bioinformatics, Evolution, Genomics or Genetics.


  • Total duration of contract will be of 4 years with an annual salary of 16.422 €.


To express interest in the position, send an e-mail with a copy of your CV and contact information to Antonio Barbadilla ( and Mario Cáceres (
Official application should be done through the MINECO website:

Application deadline:

Please send expression of interest before September 21st 2014. Official application should be completed on September 26th 2014.

Additional information:

  1. Genomics, Bioinformatics and Evolutionary Biology group:
  2. Comparative and Functional Genomics group:

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Monday, 15 September 2014

Phd in Systems Neuroscience @ The University of Tübingen,Center for Integrative Neuroscience,Germany

The “Neurobiology of Vocal Communication” Lab of Steffen Hage at the Center for Integrative Neurosciences (CIN) at the University of Tübingen (Germany) is looking for highly motivated PhD students. We currently assemble a young, ambitious research team to study the neuronal basis of vocal communication.
Research in the lab aims to understand the neuronal mechanisms underlying vocal communication. The focus of our research is to understand, how audio-vocal integration mechanisms are modulating vocal production as well as vocal perception and how cognitive and motivational processes are involved in vocal behavior. We use combined psychophysical, neuroethological and neurophysiological methodologies to tackle our questions.

Science for all at the University of Tübingen

The ideal candidate has a strong background in biology/neurobiology and/or physics/engineering and/or mathematics/Bioinformatics and/or psychology. Profound programming skills in Matlab are required. Applicants are expected to be creative, communicative and capable of independent analytical thinking. High motivation and interest in neuroscientific research is mandatory. Experience in in vivo electrophysiology and the analysis of neurophysiological and neuroethological data is a big plus.

Applications should include a detailed CV, a brief statement of research experience and interests and names of at least two referees. Applications will be considered until the positions are filled.

For applications and informal inquiries please contact:

PD Dr. Steffen Hage
Tel.:  +49 (0)7071 29 88898
Adr.:Centre for Integrative Neuroscien Otfried-Müller-Str. 25
72076 Tübingen

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Free webinar: Informing end-to-end cancer drug development with bioinformatics on September 16, 2014 8:00 am Pacific, 11:00am Eastern.

free webniar
This event will highlight the innovative use of big data to inform cancer drug development and transform cancer clinical development.  The wealth of curated and well-annotated cancer genomic and clinical trial data within the Oncomine® Knowledgebase powers a broad variety of systematic bioinformatics analysis. Several of the top pharma companies have utilized our services and software to help identify and understand relevant biomarkers and their potential for efficient and effective drug development strategies.

A group of scientists has been assembled to cover topics such as:

  • Expanding the potential of your drug programs with portfolio prioritization and label extension opportunities
  • Selecting the right population for your clinical trial
  • Exploring combination therapies based on biomarkers of sensitivity and resistance

This event intends to bring together drug developers, from executives to research scientists, to learn about advances in cancer bioinformatics.

This webinar offers an amazing opportunity, as it is free to participants and there will be no out-of-pocket expenses for travel. However, participants will still benefit from interacting with a global community of like-minded colleagues without leaving the comfort of their office or home.

Webinar participants will be able to:

  •     Attend interactive live streaming video sessions
  •     Have their questions answered in real-time
  •     Chat live with peers and speakers
  •     Browse our exhibit booth for a spectrum of products

For Free Registration


Sunday, 14 September 2014

Three PhD positions in Bioinformatics & Systems Biology @ the Systems Biology & Biotechnology group,The University of Hong Kong

Three PhD positions for outstanding, highly motivated, and creative system biologists are available at the Systems Biology & Biotechnology group ( at The University of Hong Kong (HKU). We are looking for candidates to lead, (1) computational analysis of metagenomics data from human & mice samples in clinical settings, (2) model and algorithm development for yeast complex –omics data (from genotype to phenotype), (3) virtual ligand screening to identify drug-diet interactions. The fellows will have an opportunity to work close with collaborators from The Technical University of Denmark, the Center for Genomics Sciences of HKU and the Cancer Treatments Center of America. The exact topic for the thesis work will be discussed in detail during interview but you may indicate in your application which of the three positions you prefer.

Welcome to The University of Hong Kong


  • A strong interest in conducting collaborative research on the topics outlined above is paramount.
  • Candidates are expected to be interested in working at the boundaries of several research domains.
  • Master´s degree in Systems Biology, Computational Biology, Bioinformatics, Biophysics, Chemoinformatics, or a related discipline.
  • Knowledge in statistical methods in the context of biological systems.
  • Experience with programming (Python, Perl, C++, R).

How to apply:

Please send a cover letter, curriculum vitae, diploma and transcripts of records and contact information for at least two references to Assoc. Professor Gianni Panagiotou . Applications will be considered until 29th of November. Starting date for the successful candidates is 1st of April 2015.


The Times Higher Education (2011) ranked Hong Kong as having the best universities in the world when adjusted for population size and GDP. Amongst these, The University of Hong Kong is fortunate to have been ranked as Asia´s leading international university for a number of years, including the most recent World University Rankings survey from QS ranked amongst the top 25 universities in the world. Hong Kong is a metropolis rich in both Asian and Western cultures and traditions; a legacy inherited from the colorful past. The city was ranked, as having the most culturally integrated economy in the Globalization Index 2010, is one of the world´s safest cities according to a recent UN survey, and in 2012 was ranked as the world´s most livable city.

How to Join HKUx



Gianni Panagiotou Ofiice 7N-08, Systems Biology & Biotechnology Group
School of Biological Sciences
Kadoorie Biological Sciences Building
The University of Hong Kong
Pok Fu Lam Road, Hong Kong SAR, China

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Friday, 12 September 2014

Two PhD position( 3 to 3.5 years) in Bioinformatics @ RESEARCH CAMPUS MODAL,Freie Universität Berlin

Freie Universität Berlin is a leading research institution. It is one of the German universities successful in all three funding lines in the federal and state Excellence Initiative, thereby receiving additional funding for its institutional future development strategy.
Freie Universität can thus take its place as an international network university in the global competition among universities. Development and assessment of research projects takes place within various focus areas, research networks, and platforms for interdisciplinary collaborative research.

PhD position #1:MODAL-ML3

We are looking for exceptionally qualified students to complete a PhD (in 3 to 3.5 years) at the interface between applied mathematics, statistics and bioinformatics in the broad area of ANALYSIS OF COMPLEX PROTEOMICS MASS-DATA.
  • The focus of this project is the development and implementation of new methods for Proteomics data analysis using state-of-the-art in-memory database systems. In particular, the goal is to develop a fully functional analysis pipeline for early disease diagnosis.
The position is embedded into the newly established research campus MODAL which is focused on developing ground breaking and novel techniques for modeling, optimization and analysis of complex real-world data, i.e. performing high impact interdisciplinary research which can be applied in a variety of disciplines.


  • Candidates should posses a strong background in computational sciences (e.g. a M.Sc. in numerical mathematics, signal processing, and/or bioinformatics) and ideally solid experience with data analysis. Furthermore, candidates should have experience in software development, some experience from cross-disciplinary research and excellent communication skills. All applicants must be fluent in spoken and written English. Preference will be given to applicants with publications in the relevant areas.
Ideally, candidates also have experience in one or more of the following areas: Proteomics, analysis of very large data-sets, in-memory database technology, machine learning.


Expressions of interest should be sent through this application portal together with a short CV, a statement of courses and examination results and contact information for 2 references who have agreed to speak about you, your work, and your potential. All applications will be reviewed rapidly and promising applicants will be invited to an interview in Berlin.


Apply online


PhD position #2: MODAL-ML4

We are looking for exceptionally qualified students to complete a PhD (in 3 to 3.5 years) at the interface in between applied mathematics, statistics and bioinformatics in the broad area of PATTERN RECOGNITION IN COMPLEX MASS-DATA FOR EARLY CANCER DIAGNOSTICS
  • The focus of this project is the development and implementation of new and existing methods for mass-omics data analysis using state-of-the-art in-memory database systems. In Particular, the goal is to develop in internet-based analysis portal for pattern recognition and classification of complex omics mass-data.
  • The position is embedded into the newly established research campus MODAL Which is focused on developing development groundbreaking and novel techniques for modeling, optimization and analysis of complex real-world data, ie performing high impact interdisciplinary research Which can be of proving in a variety of Disciplines.


Candidates Should posses a strong background in computational sciences (eg a M.Sc. in numerical mathematics, signal processing, and / or bioinformatics) and Ideally solid experience with data analysis.Further More, shoulderstand candidates have experience in software development, some experience from cross-disciplinary research and excellent communication skills. All Applicants must be fluent in spoken and written English. Preference will be givenName to Applicants with publications in the relevant areas.
  • Ideally, candidates therefore have experience in one or more of the Following areas: analysis of very large biological data sets, in-memory database technology, machine learning, graphical user interfaces.


Expressions of interest shoulderstand be sent through this application portal together with a short CV, a statement of courses and examination results and contact information for two references who have Agreed to speak about you, your work, and your potential. All applications will be reviewed and proceed rapidly promising Applicants will be invited to interview at Berlin.


Apply online


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Thursday, 11 September 2014

Project Assistant @ Jamia Millia Islamia, New Delhi

jamia milia islamia
Project Assistant Position (@ Rs.10,000/pm Fixed) is available for one year ina research project funded by the Department of Science and Technology entitled, "Folding and stability of naturally truncated photosynthetic pigment,C- phycoerythrin from cyanobacterium Phormidium tenue", at Centre forInterdisciplinary Research in Basic Sciences, lamia Millia Islamia, New Delhi-110025 under' the supervision of Dr. Md. Imtaiyaz Hassan (PrincipalInvestigator).



  • Candidates having experience in Molecular Spectroscopy, Protein Folding and Bioinformatics will be preferred.

Interested candidate may appear in the walk in Interview conducted on September 16, 2014 (Tuesday) 11:00 AM in the Director's Office, Centre for Interdisciplinary Research in Basic Sciences, lamia Millia Islamia, New Delhi-110025.
Candidates are required to bring a set of Xerox copy of their recent CV and qualifying degree (certificate/mark sheet) along with original documents. NoTA/DA will be paid.

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Applications are invited for the posts of one Junior Research Fellow and one RA in the DBT funded project entitled “Plant parasitic nematode genome informatics - insilico resource development”. The project is for a period of three years.

Essential qualifications for JRF:

Essential qualifications for Research Associate:

  • M.Sc /MTech in Bioinformatics with three years experience or Ph.D in Bioinformatics with experience in proteomics, genomics and structural biology.
  • Knowledge of programming language, pearl and database – HTML, CSS, Java script.
  • NGS sequence assembly and analysis and algorithm designing.

Age limit:

  • 35 years maximum (5 year relaxation for SC/ST and women candidates)

Emoluments: JRF:

16,000 + 30% HRA. Res Assoc: Rs 22,000 + 30% HRA The post is purely temporary in nature and is co-terminus with the project. The appointment would be initially for one year and may be extended further upon satisfactory performance.
Interested candidates should send the duly filled application forms (format in the following page) so as to reach on or before 20.9.2014 along with all the relevant documents.

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The NIH Library's Bioinformatics Support Program

The NIH Library's Bioinformatics Support Program was developed to provide researchers with powerful tools to analyze and understand the biological significance of a variety of data. The program is conducted by an expert bioinformatics trainer, Dr. Medha Bhagwat, and consists of the following:

One-on-One Consultation

Often a question arises in the course of research which requires knowledge of computational or database resources. For example, a seemingly simple search, such as finding more information about a gene of interest, can turn into a need to access and understand publicly available microarray or next generation sequencing data. The NIH Library Bioinformatics Program provides consultation services to further research at NIH by solving such problems.
  • The program staff offers a depth and breadth of experience ranging from understanding the work and needs of a bench scientist to performing sophisticated data analysis and programming. The services also include tutorials for licensed tools provided by the library. Additional resources, such as those publicly available, are also covered.
Past consultations have covered a variety of subjects:
  • Using data from GEO (Gene Expression Omnibus) and SRA (Sequence Read Archive) to augment understanding of gene of interest
  • Taking advantage of the library's licenses for commercially available pathway software to show which differentially expressed genes in particular pathways were unique to each experiment factor
  • Displaying and integrating data using various genome browsers which allow the use of custom tracks

Whether a researcher is seeking advice or information, such consultations are readily available for individuals, labs, or groups. Topics include:

Additionally, tutorials are available for any of our tools and resources. To schedule a tutorial, or to request consultation services, please contact Medha directly at 301-496-2185 or by email.
image Dr. Yi Ding, a Clinical Center postdoc, and Dr. Medha Bhagwat, the NIH Library Bioinformatics Support Program Coordinator, discuss how a library tutorial with Medha was instrumental in Ding's successful cloning of a gene promoter sequence.

Online Bioinformatics Tutorials

The page provides links to free on-line bioinformatics tutorials, either generated by the NIH Library or other institutes.

  1. Bioinformatics Tutorial Series (BITS) A collaboration of the MIT Engineering and Science Libraries and Harvard's Countway Library
  2. Coffee Break: Tutorials for NCBI Tools A resource at NCBI that combines reports on recent biomedical discoveries with use of NCBI tools.
  3. Entrez Gene Tutorial This video tutorial shows researchers effective search techniques for gene information using the NCBI Entrez Gene database. This database is a gateway to gene reference sequences from genomes of interest to the NCBI RefSeq group.
  4. NCBI YouTube Short tutorials on NCBI resources.
  5. Online Lectures on Bioinformatics This series includes exercises and answers for an in-depth study of classic sequence analysis algorithms.
  6. UCSC Genome Bioinformatics
    Getting Help with the UCSC Genome Browser.

Bioinformatics Training

The NIH Library offers several bioinformatics courses that are available free to all NIH and HHS staff. Bioinformatics courses are usually held in the NIH Library Training Room unless otherwise noted. Registration is required to guarantee a seat and to receive any training materials associated with the class. ***New registration process: Registration for NIH Library Bioinformatics classes is managed by CIT using the HHS Learning Management System. Please log into this system before proceeding to register for classes. For assistance with registration, please contact CIT at 301.594.6248 or
  • Sign up for the NIH Library e-news to receive announcements about bioinformatics classes and training opportunities. Standard bioinformatics classes, course descriptions and exercises can be found on the Bioinformatics Training Page.

Analysis Tools and Databases

The NIH Library has secured licensing for a wide range of bioinformatics resources. The complete list and licensing information is below. The licenses are either floating (access is provided from any NIH computer) and/or static (access is provided from one of the NIH Library Bioinformatics Workstations). If you would like to recommend additional resources, please send your requests to Dr. Medha Bhagwat.

NIH Library Resources:

Search results from these sets are not comprehensive. Additional resources may be available from the NIH Library collections.

Bioinformatics Program Staff

Dr. Medha Bhagwat, Informationist has a PhD in biochemistry from the University of Maryland, College Park, and has conducted postdoctoral training at NIDDK focusing on the structure-function studies of bacteriophage T4 RNase H. Medha published several articles on her research, as well as book chapters on bioinformatics classes/protocols.
From 2001 to 2008 she taught at the NCBI Core-Bioinformatics Facility training the representatives from NIH institutes in the use of the NCBI bioinformatics tools. Medha also developed and taught several 2-hour mini-courses
She conducts tutorials on using bioinformatics resources and Tools for Data Mining,and other bioinformatics resources such as Biobase, DAVID, Ensembl, and the UCSC Genome Browser.
image Dr. Lynn Young has over twenty years of experience in the fields of computational biology and bioinformatics. She received her Ph.D. in physics from Purdue University where she studied vibrational modes of DNA. She worked in the field of structure-based drug design at NCI-Frederick and most recently worked in the Division of Computational Bioscience at the Center for Information Technology at NIH.
There she analyzed microarray data; developed web applications; led the development of the genomics component of the National Database for Autism Research (NDAR); and coordinated ontology development for NDAR. Lynn joined the NIH Library in August of 2010 to provide bioinformatics training, consulting, and programming.

Read more @ The NIH Library


Bioinformatics Algorithm Developer @ Sophia Genetics,Switzerland

We are looking for people who have a passion for bio-medical technology and an interest in solving complex challenges using machine learning. Individuals with integrity who instil confidence and can build trust with customers. Self-starters who instinctively push themselves and Sophia Genetics to new levels of performance. We prize intellectual ability over experience, with an aptitude to learn and challenge the status quo.
Sophia Genetics recently raised $13.75M in a Series B financing round led by Invoke Capital, Endeavour Vision and Swisscom. This investment aims to accelerate European adoption of clinical analytics for genetic diseases. These are exciting times of expansion and we are looking for bright and passionate individuals to join our team.

Job Description

Being supervised by the Chief Technology Officer, you will take the development role of re-engineering and optimizing the pipeline for genome sequence alignment and variant detection. This will involve choosing appropriate parallelization techniques for currently sequential operations, as well as the implementation and parallelization of bioinformatics algorithms.

Qualifications and Experience

You will have an MSc or PhD in Computer Science, Bioinformatics or equivalent and several years of experience developing applied numerical solutions.

You will be expected to show the following abilities:
  1. Good analytical and creative problem solving skills
  2. C/C++ proficiency including multithreading
  3. Solid background in algorithmic complexity and string, tree, indexing etc. algorithms
  4. Strong data analysis skills using R / Bioconductor.
  5. Good knowledge of parallelization techniques – MPI, Hadoop MapReduce, GPU solutions
  6. Comfortable with script languages such as Perl, Python
  7. Previous experience with Exome/WGS data analysis would be an advantage
  8. Some experience with JAVA / MySQL would be an advantage.
  9. A good command of English (the business language).
To apply please contact

Expires :November 09, 2014

Read more /Apply

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