BOL: Related items

Junior Research Fellow at Rajiv Gandhi Centre for Biotechnology, Thiruvananthapuram

Mon, 07 Nov 2016 10:27:06 -0600

Adv. # 22/ 2016
Applications are invited from suitable candidates for one position of Junior Research Fellow in a DST funded bioinformatics research project entitled "Major gene influxes in microbial genome evolution" in the Laboratory of Dr. Shijulal Nelson-Sathi at Rajiv Gandhi Centre for Biotechnology, Thiruvananthapuram.

ESSENTIAL QUALIFICATIONS:
We are looking for a motivated candidate with keen interest in bioinformatics and microbial genome evolution. The candidate must have a Master’s Degree in Bioinformatics, Computational Biology, Computer Science, Microbiology, Biology or a related field with good academic record.

DESIRABLE QUALIFICATIONS
Hands on research experience on handling next generation sequencing data and phylogenetic reconstruction methods. Excellent programming skills (Perl/Python/Java/Php) and experience in working on Unix/Linux platform is preferred. Furthermore; good knowledge is required in statistics (R/Matlab) and the application of bioinformatics analysis tools.

AGE:
Below 28 years as on 15th November, 2016.

EMOLUMENTS:
Rs. 25,000 + 20% HRA for NET/GATE qualified and Post Graduate in Professional Degree course qualified candidates and
Rs. 12,000/- + 20% HRA for others.

DURATION:
Initial appointment will be given for one year and further extension will be based on the performance till termination of the project.
Only those fulfilling the above criteria need apply and will be called for interview. In the event of more than 10 candidates being short-listed by screening the applications, a written test will be conducted before the selection interview and only those who are successful in the written test will be interviewed. No TA/ DA will be given for appearing in the interview.

Suitably qualified candidates may send applications in the prescribed format (Download here) with a photograph, a copy of full resume indicating the percentage of Marks obtained and attested photocopies of credentials & experience to reach the undersigned on or before 15th November, 2016. Envelopes must be superscripted with abbreviated title of the project, advertisement number and job title. Selection to the position will not entitle the candidate to any future positions at RGCB (permanent or otherwise). As with all project positions at RGCB, the position will be co terminus with end of the project.

Bookmarks Biostatistics materials and books

Jit — Tue, 08 Nov 2016 07:42:42 -0600

Biostatistics did not spring fully formed from the brow of R. A. Fisher, but evolved over many years. This process is continuing, although it may not be obvious from the outside. It has been ten years since the first edition of this book appeared (and rather longer since it was begun). Over this time, new areas of biostatistics have been developed and emphases and interpretations have changed

Please bookmarks your favourate biostatistics books in commend sectons ...

Address of the bookmark: http://www.cos.ufrj.br/~bioestatistica/livros/Introduction%20to%20Biostatistics.pdf

Research Assistant Bioinformatics recruitment in National Institute Of Cancer Prevention & Research (ICMR) on Contract basis

Tue, 15 Nov 2016 17:15:48 -0600

National Institute Of Cancer Prevention & Research - ICMR

Research Assistant Bioinformatics recruitment in National Institute Of Cancer Prevention & Research (ICMR) on Contract basis
Project entitled: “Next generation EGFR inhibitor identification using ligand based QSAR technique”

Essential: M.Sc. in Bioinformatics or related field. Desirable: Experience in QSAR and structure based drug designing.
Age: 28 years
No.of Post: 1

Pay Scale : Rs.27000

Application format is attached and should be sent by post to Dr. Subhash M Agarwal, Scientist D, Division of Bioinformatics, National Institute of Cancer Prevention & Research (ICMR), Plot No. I-7, Sector-39, Noida 201301 (U.P).

More at http://www.icmr.nic.in/icmrnews/NICPR_Advertisement%20for%20RA.pdf

HGA

Jit — Tue, 29 Nov 2016 07:25:53 -0600

HGA tool version 1.0 This tool helps to apply the Hierarchical Genome Assembly (HGA) method. The tool will apply: 1. Partitioning a given reads dataset into a given number of partitions. 2. Assembling each partitions using a pre-specified assembler (Velvet or SPAdes in this version) and using a given kmer size. 3. Merging all the assemblies of the partition. 4. Combining all the assemblies of the partition (using velvet with kmer value of 31). 5. Finaly, re-assembling the whole dataset with the merged contigs or the combined contigs, using a given kmer size.

https://github.com/aalokaily/Hierarchical-Genome-Assembly-HGA

Address of the bookmark: https://github.com/aalokaily/Hierarchical-Genome-Assembly-HGA

Scripts

Jit — Wed, 30 Nov 2016 10:35:15 -0600

Useful script for NGS analysis.

Address of the bookmark: http://augustus.gobics.de/binaries/scripts/

fqtools

Jit — Thu, 08 Dec 2016 09:31:12 -0600

fqtools is a software suite for fast processing of FASTQ files. Various file manipulations are supported. See below for a full list of the subcommands available and a brief description of their purpose. Most of the individual subcommands will take either a single file or a pair of files as input. If no input file is specified, fqtools will attempt to read data from stdin. In this case, it is advisabe to specify the format of the data provided. For subcommands that generate FASTQ data, either a single file or a pair of files will be generated. If no -o argument is provided, single files will be writted to stdout.

Address of the bookmark: https://github.com/alastair-droop/fqtools

Gene Synteny Database

Jit — Fri, 16 Dec 2016 11:09:39 -0600

Comparative genomics remains a pivotal strategy to study the evolution of gene organization, and this primacy is reinforced by the growing number of full genome sequences available in public repositories. Despite this growth, bioinformatic tools available to visualize and compare genomes and to infer evolutionary events remain restricted to two or three genomes at a time, thus limiting the breadth and the nature of the question that can be investigated. Here we present Genomicus, a new synteny browser that can represent and compare unlimited numbers of genomes in a broad phylogenetic view. In addition, Genomicus includes reconstructed ancestral gene organization, thus greatly facilitating the interpretation of the data.

Availability: Genomicus is freely available for online use at http://www.dyogen.ens.fr/genomicus while data can be downloaded at ftp://ftp.biologie.ens.fr/pub/dyogen/genomicus

Contact: rf.sne.eigoloib@crh

Address of the bookmark: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2853686/

Venkatesh Lab

Tue, 20 Dec 2016 04:38:01 -0600

We are using a comparative genomics approach to better understand the structure, function and evolution of the human genome. Our group is one of the pioneers in the field of comparative genomics. We proposed the compact genome of the fugu (Takifugu rubripes) as a model vertebrate genome in 1993 (Nature 366: 265-268, 1993) and determined its whole genome sequence in 2002 (Science 297: 1301-1310, 2002).

More at
https://zfin.org/ZDB-LAB-110408-1
http://www.imcb.a-star.edu.sg/php/venkatesh.php

16th Congress of the European Society for Evolutionary Biology (ESEB)

Thu, 22 Dec 2016 08:08:37 -0600

Abstract submissions for our upcoming symposium on the Genomics of Adaptation that will take place as part of the 16th Congress of the European Society for Evolutionary Biology (ESEB). The conference will take place from August 20th - August 25th, 2017 in Groningen, the Netherlands.

SYMPOSIUM DESCRIPTION: Genomics of Adaptation [S16] Model organisms for life-history research are mainly studied in the lab where functional genetics is assessable. In general, however, knowledge about their eco-evolutionary dynamics, such as biotic interactions, is rare. By contrast, in organisms for which the ecology and adaptation strategies in the field are well known, we typically lack the appropriate genetic tools to investigate functionality. Advances in genomics and statistics as well as investments in evolutionary model organisms are now providing access to putatively adaptive genome-wide variation within species from across the tree of life. In this symposium, we focus on integrating life-history biology, genetics and evolutionary ecology in the genomics era.

We wish to (1) highlight the role of genetic architecture of complex traits, such as adaptations to biotic interactions or life-history traits; (2) contrast this to morphological traits which are generally thought to have a less complex genetic architecture; and (3) discuss the opportunities and drawbacks of specific model systems.

INVITED SPEAKERS: Josephine Pemberton, University of Cambridge (http://bit.ly/2hJWytJ ) Peter Tiffin, University of Minnesota (http://bit.ly/2hK7HuS )

ABSTRACT SUBMISSION The deadline for abstract submission is January 10, 2017. For more information and to submit abstracts online, please visit: http://bit.ly/2fBXlvN We look forward to an exciting symposium and seeing you all in Groningen! Sincerely, Ben Blackman, UC Berkeley Maaike de Jong, University of Bristol Bart Pannebakker, Wageningen University Noah Whiteman, UC Berkeley Jelle Zandveld, Wageningen University

Bioinformatics Contest 2017!

Neel — Fri, 23 Dec 2016 14:03:37 -0600

Bioinformatics Contest 2017! Rosalind is co-organizer.
Compete with thousands of people worldwide on bioinformatics problem solving.
Everything is online. Qualification round starts on January 23, 2017. Final is on Feb 18.

You will need to solve bioinformatics problems using programming. The goal is to correctly solve as many problems as possible within 24 hours. Some of them will be approximation problems and will have partial grades. All rounds will be held online, submissions will be auto-graded in real time.

Check more at http://contest.bioinf.me/

Good luck!