Address of the bookmark: http://decipher.cee.wisc.edu/Documentation.html

The Rearrangement Overview page describes the one or more breakpoints which make up a structural variant. A breakpoint is defined as a region or point where the sample sequence has altered from the reference sequence. Minimum interpretation is made of this data. One variant event can consist of one or multiple breakpoints. The Syntax (shown above the table) gives a detailed description of the variant and its location  (e.g. chr11:g.36585230_76606619del, a deletion of roughly 40Mb on chromosome 11). Syntax is based on HGVS mutation nomenclature recommendations [http://www.hgvs.org/rec.html]. 

http://cancer.sanger.ac.uk/cosmic/help/rearrangement/overview

Address of the bookmark: http://cancer.sanger.ac.uk/cosmic/help/rearrangement/overview

Biostatistics is the application of statistics to a wide range of topics in biology. The science of biostatistics encompasses the design of biological experiments, especially in medicine, pharmacy, agriculture and fishery; the collection, summarization, and analysis of data from those experiments; and the interpretation of, and inference from, the results. A major branch of this is medical biostatistics, which is exclusively concerned with medicine and health.

Address of the bookmark: http://www.nature.com/nature/journal/v491/n7424/abs/nature11622.html

Noida 201301 (U.P)

Applications are invited upto 21.11.2016 from interested candidates as per details available on NICPR website (www.nicpr.res.in)/ ICMR website (www.icmr.nic.in) to fill up following temporary position in the time bound DHR Project entitled “Next generation EGFR inhibitor identification using ligand based QSAR technique” under Dr. Subhash M. Agarwal, Scientist-D, Division of Bioinformatics.

Research Assistant (One)

Rs.27000/- p.m. (Fixed/temporary)

Essential: M.Sc. in Bioinformatics or related field.

Desirable: Experience in QSAR and structure based drug designing.

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

About Fellowship:
CSIR Nehru Science Postdoctoral Research Fellowship Scheme is an Research Fellowship awarded/given by HRD Ministry, Govt. of India every year to more than 100 fellows.

It was started to identify promising and young researchers with novel ideas and provide them research opportunities in the areas of basic science, engineering, medicine & agriculture.

The fellowship aims at facilitating their transition from mentored to independent research career.

In addition, check these ICTS Research Fellowships:
1.) Max-Planck Partner Group Fellowships 2017-18
2.) ICTS-Simons Postdoctoral Fellowships 2017
3.) ICTS Post Doctoral Fellowships 2017
4.) Airbus Prize Postdoctoral Fellowship 2017-18

Eligibility: To be eligible for this fellowship, you:
1.) PhD degree (within 3 years of award of PhD degree), OR
2.) Those who have submitted PhD theses.
3.) Applicants should have research publications in good impact factor SCI journals.
4.) Indian nationals, Persons of Indian Origin (PIO) & Overseas Citizen of India (OCI), a can also apply.
5.) Maximum Age Limit: 32 years.

Duration:
– 2 Years.
– extendable for a maximum of 1 more year based on performance.

Remuneration:
– Rs. 50,000/- per month plus House Rent Allowance (HRA)
– A contingency grant of Rs. 3.0 lakh per annum.
– 25% of the contingency grant can be used for domestic and international travel.

Mode of Selection: You can apply throughout the year, but selection will be made twice a year, in June and December.

How to Apply:
– Read the instructions, given at Annexure-I in this PDF file.
– And, application form is given as, Annexure-II.
– Fill the form & send it to the given address in the PDF file.

Deadline: Rolling Deadline (Applications accepted throughout the year)

Also See: Research Internship/ Fellowship in India:
1.) IIT Bombay Research Internship Awards Programme 2016-17
2.) IIT Delhi Internship Program 2016-17
3.) DAAD WISE – International Internship in Germany
4.) Summer Research Fellowship Programme| JNCASR Bangalore
5.) Indian Academy of Sciences Summer Internships 2017
6.) Winter Internship – IIT Bombay NPDE-TCA
7.) Viterbi – India Program 2017 | Research Internship in US
8.) Internship – Centre for Stem Cell Research, Vellore

Accommodation & other benefits:
– Accommodation may be provided by CSIR, if available.
– Medical benefits as per CSIR norms.

For more details:
– Check this PDF Notification of Fellowship.
– List of CSIR Labs & their work/activities can be seen at www.csir.res.in.

Address of the bookmark: https://readthedocs.org/projects/bipype/

• velvet (velveth velvetg should be in your PATH)
• R (with Sweave)
• pdflatex (usually part of TeTeX)
• ggplot2 (from R prompt type install.packages("ggplot2","proto","xtable"))
• Perl

Optional:

• BLAT or BLAST (to generate alignments against a reference genome). If using BLAT, add faToTwoBit,gfClient,gfServer to your PATH. If using BLAST, add blastall and formatdb.

Edit permute.sh to your liking, paying particular attention to the kmer, cvCut, expCov, and other flags

To Run:

1. perl fastaAllSize mysequences.fa > mysequences.stat or gunzip -c mysequences.fa.gz | fastaAllSize > mysequences.stat Substitute fastqAllSize for fastq files.
2. ./permute.sh mysequences (leave out the .fa)

https://github.com/leipzig/standardized-velvet-assembly-report

Address of the bookmark: https://github.com/leipzig/standardized-velvet-assembly-report

This project is part of a larger Genome Canada project on genetics and physiology of adaptation to climate change in rainbow trout, and the population genomics component is in the labs of Eric Taylor and Michael Whitlock. The landscape genomics component primarily involves whole genome sequencing approaches to understanding the genomic basis of adaptation to features of habitat, but also to provide insights into phylogeography and the influence of watershed structure on population subdivision in rainbow trout. A PhD in a related field with expertise in basic theory and bioinformatic analysis of population genomics data is required.

The position is available for one year with renewal for up to three additional years. Salary is $55,000 per year plus benefits. To apply, please send a brief cover letter summarizing your qualifications for the position, a CV, and the names, addresses, phone numbers and emails of three references.

Review of applications will begin January 16, 2017. Address application materials to etaylor@zoology.ubc.ca to whom any questions can also be addressed. etaylor@zoology.ubc.ca

Mauve has been developed with the idea that a multiple genome aligner should require only modest computational resources. It employs algorithmic techniques that scale well in the lengths of sequences being aligned. For example, a pair of Y. pestis genomes can be aligned in under a minute, while a group of 9 divergent Enterobacterial genomes can be aligned in a few hours. However, the current algorithm’s compute time (progressiveMauve) scales cubically in the number of genomes to align, making it unsuitable for datasets containing more than 50-100 bacterial genomes.

Address of the bookmark: http://darlinglab.org/mauve/mauve.html