BOL: Related items

Bioinformatics Algorithm Demonstrations and Tutorials

Jitendra Narayan — Thu, 29 Aug 2013 09:23:51 -0500

Abstract

This project presents demonstrations of selected computer science algorithms important in bioinformatics, implemented in the spreadsheet program Microsoft Excel. Spreadsheets provide an interesting platform for demonstration of algorithms, since various steps of the calculations can be exposed in a manner that is easily comprehensible to users with little programming experience. The algorithms demonstrated include two approaches to approximate string matching (dynamic programming and Shift-AND numeric approximate matching), Hierarchical Clustering (used in phylogenetic studies and microarray analysis of gene expression), a Naive Bayes Classifier for simulated microarray gene expression data, and a simple Neural Network. These demonstrations are designed to serve as instructional aids in bioinformatics courses.

Tutorial @ http://www.cybertory.org/downloads/bae/BioinformaticsAlgorithmsInExcel.zip

One of the best resource for online bioinformatics learning is https://stepic.org/Bioinformatics-Algorithms-2 Enjoy the online learning.

Reference : cybertory

" Please add your favourite bioinformatics algorithms and tutorial links below in the comment section, for the benefit of bioinformatics and computational biology community ".

Address of the bookmark: http://www.cybertory.org/downloads/bae/BioinformaticsAlgorithmsExcelDoc.pdf

Uni Computing Bergen Norway

Tue, 03 Sep 2013 18:40:50 -0500

Info on Uni Computing (Webpage: http://www.bccs.uni.no/) :

Uni Computing (formerly Uni BCCS) is a department of Uni Research, affiliated with the University of Bergen.

5 groups in this lab works on computational resources, methods, algorithms, and software.

Following two bioinformatics groups are:

The Computational Biology Unit (CBU) provides education and research in bioinformatics focused on functional genomics.

The Computational Ecology Unit (CEU) is basically deal with population fluctuations, behavioural patterns and the ways life cycles emerge.

4273π: Bioinformatics education on low cost ARM hardware

Jitendra Narayan — Mon, 02 Sep 2013 07:02:43 -0500

Are you teaching bioinformatics at universities and found it complicated by typical computer classroom settings. As well as running software locally and online, students should gain experience of systems administration. Hmm don't worry there is one new OS for the rescue. 4273π, an operating system image for Raspberry Pi based on Raspbian Linux. It provides an attractive, general-purpose computing environment, within which the course 4273π Bioinformatics for Biologists is embedded.

Though far slower than current desktop and laptop computers, the Raspberry Pi is notably faster than the Cray 1 supercomputer, a marvel of computer speed in its day. The Raspberry Pi approach includes all the benefits of the laptop approach, above, but at lower cost. In addition, the Raspberry Pi is a new and exciting computer system, which in itself can add interest to the course.

As the Raspbian operating system, Raspberry Pi firmware and hardware and 4273π Bioinformatics for Biologists teaching material develop, further releases of 4273π will be made available. It is anticipated that there will be a minimum of two releases per year during the next four years.

4273π is a means to teach bioinformatics, including systems administration tasks, to undergraduates at low cost.

Descriptive paper @ http://www.biomedcentral.com/1471-2105/14/243

Image source: BMC Bioinformatics

The Minerva Research Group for Bioinformatics (Janet Kelso)

Wed, 09 Oct 2013 12:57:45 -0500

The focus of this group is to use computational approaches to gain an insight into genome evolution in primates.

PNAS papers:
http://www.pnas.org/search?author1=Janet+Kelso&sortspec=date&submit=Submit

Jobs:
http://www.eva.mpg.de/genetics/bioinformatics/jobs.html

Contact:
Kelso Group
Department of Evolutionary Genetics
Max Planck Institute for Evolutionary Anthropology
Deutscher Platz 6
04103 Leipzig
Germany
Email: kelso@eva.mpg.de

Huber Lab

Mon, 09 Sep 2013 21:57:03 -0500

The Huber group develops computational and statistical methods to design and analyse novel experimental approaches in genetics and cell biology.

Future projects and goals

Large-scale systematic maps of gene-gene and gene-environment interactions by automated phenotyping, using image analysis, machine learning, sparse model building and causal inference.
DNA-, RNA- and ChIP-Seq and their applications to gene expression regulation: statistical and computational foundations.
Cancer genomics, genomes as biomarkers, cancer phylogeny.
Image analysis for systems biology: measuring the dynamics of cell cycle and of cell migration of individual cells under normal conditions and many different perturbations (RNAi, drugs).

More @ http://www.embl.de/research/units/genome_biology/huber/index.html

Computational Methods for the Analysis of the Diversity and Dynamics of Genomes

Sat, 09 Nov 2013 20:19:02 -0600

The German-Canadian international research training group

"Computational Methods for the Analysis of the Diversity and Dynamics of Genomes"

has currently open positions for graduate students, to study at Simon Fraser University (Vancouver, Canada) and
Bielefeld University (Germany), starting in the fall 2014.

This international graduate program is a close cooperation of:

Bielefeld University, Germany: Graduate progam "DiDy"
Simon Fraser University (SFU), Vancouver, Canada: Graduate program "MADD-Gen"

The available positions include six PhD positions at Bielefeld University, as well as PhD and MSc positions at SFU.

Application deadline: December 31st, 2013
Webpage: http://wiki.techfak.uni-bielefeld.de/didy/Announcement

Asst. PROF IN BIOINFORMATICS at JAIPUR NATIONAL UNIVERSITY

Thu, 12 Sep 2013 07:18:02 -0500

JAIPUR NATIONAL UNIVERSITY, SCHOOL OF LIFE SCIENCES (SIILAS CAMPUS) URGENTLY REQUIRES

Asst. PROF IN BIOINFORMATICS.

QUALIFICATION: AS PER UGC

DESIRABLE: 1 YEAR EXPERIENCE IN ACADEMICS

CONTACT immediately

Prof D.S.Bhatia
Director
9351288070

Last date within 7 days of the publication.

Find more @ http://jnujaipur.ac.in/downloads/AdvtDec2012.jpg

Bioinformatics job in Genotypic Tech, India

Mon, 07 Apr 2014 08:20:54 -0500

Genotypic Technology, the first Genomics Company of India is poised to become the next generation life sciences company. We are hiring professionals for our high end Genomics Labs (Molecular Biology/ Microarray/NGS) and Bioinformatics groups.

Apply to Genotypic Technology if you are a PhD in Life Sciences/ Molecular Biology/ Biotechnology/ Human Genetics/ Bioinformatics with minimum 4-5 years post doctoral experience as well as publications in peer reviewed journals.

Source: http://www.genotypic.co.in/Careers/2/Current-Openings.aspx

Research Associate@ School of Computational and Integrative Sciences under Jawaharlal Nehru University

Fri, 22 Nov 2013 19:06:44 -0600

School of Computational and Integrative Sciences under Jawaharlal Nehru University, New Delhi invited applications for filling up 4 posts of Research Associates (RA) and Junior Research Fellow (JRF) (2 posts each) purely on temporary basis, liable to be terminated at any time without prior notice or ceased/withdrawn by the funding agency. The vacancies are for a Department of Biotechnology, Government of India funded project entitled "Computational Core for Plant Metabolomics" (Project ID: 632) being administered by Prof Indira Ghosh. Interested candidates should send their applications till 13 December 2013.
Important Dates
Last Date for receipt of applications: 13 December 2013
Vacancy Details
Total Vacancies: 4 posts
Type of recruitment: Temporary
Sl. No.: 01
Name of the Post: Research Associate
No of Posts: 1 post
Remuneration: Rs. 23000 + 30%
Qualifications: PhD in Bioinformatics / computational biology / Biophysics / Physical Chemistry / Computer Science. Computational experience, proven by paper published, is a necessary qualification.
Sl. No.: 02
Name of the Post: Research Associate
No of Posts: 1 post
Remuneration: Rs. 23000 + 30%
Qualifications: PhD in Computational Biology / Bioinformatics & related subjects. Computational experience, proven by paper published, is a necessary qualification.
Sl. No.: 03
Name of the Post: Junior Research Fellow
No of Posts: 1 post
Remuneration: Rs. 12000 + 30%
Qualifications: M. Sc. / B. Tech. preferably in Computational Biology /Bioinformatics and related fields with experience in Website designing & maintenance of Database.
Sl. No.: 04
Name of the Post: Junior Research Fellow
No of Posts: 1 post
Remuneration: Rs. 12000 + 30%
Qualifications: M. Sc. / MCA / B. Tech. preferably in Computational Biology / Computer science with experience in Programming in Java / Python, C++ etc & designing of Database.
Selection Procedure: Selection will be done on the basis of candidates’ performance in the Interview.
Candidates short-listed / selected for Interview will be informed through email only.
How to Apply: Interested eligible candidates should send their applications, in the prescribed format, along with their current CV by post to “Prof Indira Ghosh, Project Investigator, Hall#6, School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi-110 067” so as to reach the concerned authority by 13 December 2013.
Name of the post applied for’ must be superscripted on the envelope containing the application.
NOTE: For the post of Research Associates, only those candidates who have submitted thesis are eligible to apply. However, salary will be provided as per DBT / DST guidelines (i.e. candidates who have qualified NET /BET / BINC will have higher pay scale).
Candidates interested to register for PhD may not apply for JRF.
More @ http://www.jnu.ac.in/Career/currentjobs.htm

15 highly motivated Early Stage Researchers (ESRs)/PhD positions

Sun, 25 Jan 2015 05:23:53 -0600

The MiND programme looking for 15 highly motivated Early Stage Researchers (ESRs), researchers with a BSc or MSc degree within the first four years (full-time equivalent) of their research career

All applications sent before 2nd of February 2015.

http://www.mind-project.eu/career