BOL: Related items

destruct

Jitendra Prajapati — Mon, 29 Feb 2016 17:34:59 -0600

Destruct is a tool for joint prediction of rearrangement breakpoints from single or multiple tumour samples.

More at https://bitbucket.org/dranew/destruct

Address of the bookmark: https://bitbucket.org/dranew/destruct

Pattern Searching in a Single Genome

Aasha — Mon, 07 Mar 2016 05:02:51 -0600

Pattern searching holds much importance for biologists , for the understanding of DNA ( and its functionality) can be more than a matter of satisfying curiosity , but also give answers to many issuess uchas medical conditions . However,there are a number of ways of searching with in a single chromosome.

Address of the bookmark: https://www.stats.ox.ac.uk/__data/assets/pdf_file/0018/5373/LintonFinalReport.pdf

Program Officer, Bioinformatics at Jhpiego

Tue, 29 Aug 2023 00:05:30 -0500

Jhpiego is a non-profit global health leader and Johns Hopkins University affiliate that is saving lives, improving health, and transforming futures. We partner with governments, health experts, and local communities to build the skills and systems that guarantee a healthier future for women and families. Jhpiego translates the best science and practices into moments of care that can mean the difference between life and death for women and families. The moment a woman gives birth; the moment a midwife helps a newborn to breathe. Through our partnerships, we are revolutionizing health care for the world’s most disadvantaged and vulnerable people. In India, Jhpiego works across various states in close collaboration with national and state governments, providing technical assistance in the areas of family planning, maternal and child health, strengthening human resources for health, and non-communicable diseases. These programs are funded by USAID, the Bill & Melinda Gates Foundation, the David & Lucile Packard Foundation, the Children’s Investment Fund Foundation (CIFF), , and other anonymous donors.

The Program Officer, Bioinformatics, operating under the Senior Advisor for Metagenomics & Lab Systems, will play a pivotal role in leveraging bioinformatics to advance the objectives of the Health Security and AMR program. This position offers a unique opportunity to contribute to cutting-edge genomics research and its application in public health.

More detail at https://jobs-jhpiego.icims.com/jobs/5440/program-officer-%e2%80%93-bio-informatics/job

Research Fellow Bioinformatics

Mon, 04 Apr 2016 05:41:21 -0500

Research Fellow Bioinformatics
Eligibility : BSc(Bio-Tech), MSc(Bio-Tech)
Location : Ludhiana
Last Date : 19 Apr 2016
Hiring Process : Walk - In
Punjab Agricultural University

Research Fellow Bioinformatics job opportunities in Punjab Agricultural University
Qualification : B.Sc. with minimum OCPA 5.00/10.00 basis or 50% marks. ii. M.Sc. in Biotechnology/ Molecular Biology/Molecular Genetics/Bioinformatics/Genetics/Plant Breeding/Plant Breeding & Genetics with at least 6.50/10.00 or 65% marks. iii. Ph.D. in the relevant field with minimum OCPA 6.50/10.00 or 65% marks
Pay Scale : Rs.24000/-
Application Fee : A Bank Draft of Rs. 200/- in favour of Comptroller, Punjab Agricultural University, Ludhiana

How to apply
Walk in Interview will be held on 26.09.2016 at 11:30 a.m. in the office of the Director, School of Agricultural Biotechnology. No separate information for interview will be sent. No TA/DA will be paid for attending the interview. Candidate Should apply with detailed bio data to this office latest by 19.04.2016

More at http://web.pau.edu/index.php?_act=manageAllBanner&DO=viewAllBanner

REAPR: a universal tool for genome assembly evaluation

Jitendra Prajapati — Wed, 06 Apr 2016 18:26:31 -0500

REAPR is a tool that evaluates the accuracy of a genome assembly using mapped paired end reads, without the use of a reference genome for comparison. It can be used in any stage of an assembly pipeline to automatically break incorrect scaffolds and flag other errors in an assembly for manual inspection. It reports mis-assemblies and other warnings, and produces a new broken assembly based on the error calls.

The software requires as input an assembly in FASTA format and paired reads mapped to the assembly in a BAM file. Mapping information such as the fragment coverage and insert size distribution is analysed to locate mis-assemblies. REAPR works best using mapped read pairs from a large insert library (at least 1000bp). Additionally, if a short insert Illumina library is also available, REAPR can combine this with the large insert library in order to score each base of the assembly.

http://www.sanger.ac.uk/science/tools/reapr

Address of the bookmark: https://genomebiology.biomedcentral.com/articles/10.1186/gb-2013-14-5-r47

Desai Lab

Thu, 21 Apr 2016 10:21:07 -0500

Evolutionary Dynamics and Population Genetics

Natural selection and other evolutionary forces lead to particular patterns of evolutionary dynamics, and they leave characteristic signatures on the genetic variation within populations. We use a combination of theory and experiments to study the dynamics and population genetics of natural selection in asexual populations such as microbes and viruses.

We use both theory and experiments to study evolutionary dynamics and population genetics, particularly in situations where natural selection is pervasive.

http://desailab.oeb.harvard.edu/home

Painless package development for R

Abhi — Tue, 03 May 2016 05:31:06 -0500

Devtools makes package development a breeze: it works with R’s existing conventions for code structure, adding efficient tools to support the cycle of package development. With devtools, developing a package becomes so easy that it will be your default layout whenever you’re writing a significant amount of code.

Before you get started be sure to check out:

Address of the bookmark: https://www.rstudio.com/products/rpackages/devtools/

SLURM

Jit — Wed, 04 May 2016 05:13:21 -0500

SLURM workload manager software, a free open-source workload manager designed specifically to satisfy the demanding needs of high performance computing.

This page is a HOWTO guide for setting up a SLURM installation, currently focused on a CentOS 7 Linux OS. Please send feedback to Ole.H.Nielsen /at/ fysik.dtu.dk.

See the SLURM homepage (also https://computing.llnl.gov/linux/slurm/).

Address of the bookmark: https://wiki.fysik.dtu.dk/niflheim/SLURM

Scientists post at Monsanto

Wed, 11 May 2016 07:58:44 -0500

Sustainable agriculture is at the core of Monsanto. We develop technologies that enable farmers to produce more crops while conserving natural resources. Monsanto scientists are conducting research and development (R&D) to revolutionize plant breeding and biotechnology.

Monsanto is seeking a very talented Genomics Scientistto become an integral member of our Global Pipeline Analytics team with a focus on quantitative genetics. The ideal candidate will have familiarity with modeling and analysis of genetic data sets using a variety of statistical techniques.

Major Responsibilities:
- Provide guidance on experimental design for genomic-related experiments
- Familiarity with analysis of the following methods: GWS, QTL, eQTL, RNA-Seq
- Provide written and oral presentations of methods, results, conclusions, and recommendations to peer and management groups.
- Ensure timely delivery and clear communication of results
- Develop strong and successful collaborations among various Monsanto enabling teams.

Required Skills:

- PhD degree in Statistics, Biostatistics, Statistical Genetics, Quantitative Genetics, Breeding, Bioinformatics or a related field with 2 years of experience
- Working knowledge and experience with one of the following quantitative languages:R, Python, Perl, SAS
- Background in Windows and Linux operating systems
- Very strong problem solving skills will be required to work well as a member of a dynamic team
- Strong verbal and written communication skills.
- Demonstrated ability to deliver timely results and be results oriented.
- Extensive knowledge of quantitative genetics and experimental design.
- Demonstrated track record of solving challenging and complex problems.

Desired Skills/Experience:

- Excellent communication skills, with the ability to summarize complex concepts in language understandable by scientists from a variety of disciplines.
- Experience in agronomy and/or plant breeding in vegetables or row crops.

Please apply to
https://jobs.monsanto.com/job/st-louis/genomics-scientist/769/2081771

Sample BINC question paper 2016 - part2

Radha Agarkar — Fri, 13 May 2016 03:42:56 -0500

Download the sample question paper for BINC 2016 - paer II