BOL: Related items

SSPACE

Jit — Fri, 05 May 2017 05:42:15 -0500

SSPACE standard is a stand-alone program for scaffolding pre-assembled contigs using NGS paired-read data. It is unique in offering the possibility to manually control the scaffolding process. By using the distance information of paired-end and/or matepair data, SSPACE is able to assess the order, distance and orientation of your contigs and combine them into scaffolds. Currently we offer this as a command-line tool in Perl. The input data is given by pre-assembled contig sequences (FASTA) and NGS paired-read data (Illumina/454/Solid FASTA or FASTQ). The final scaffolds are provided in FASTA format.

Address of the bookmark: https://www.baseclear.com/genomics/bioinformatics/basetools/SSPACE

System Biologist at Millennium Software productions India Private Limited

Fri, 19 Jul 2013 09:43:53 -0500

Millennium Software productions India Private Limited

www.cytosolve.com

Post - System Biologist

Job Description: Role of system biology is to design quantitative models of bimolecular networks and to study interactions between the components of biological systems, and how these interactions give rise to the function and behavior of that system (Enzyme, metabolites and pathway).

Qualification : B.Tech or M.Sc in Bioinformatics

Required Skills:

1) Basic knowledge of cell signaling pathways, chemical/enzyme kinetics, and differential equation based modeling approach.
2) Previous laboratory experience could be an advantage
3) Good Communication skills.

santhiya.ram@mproductions.com and 044-42946555.

Ten International Scholarships for Indian Biotechnology and Bioinformatics Students

Priya Singh — Wed, 10 May 2017 04:51:02 -0500

Wherever you go around the world, Indian students are in demand. With countries such as Canada and Australia providing huge incentives to Indian students to lure them to their shores, there are many institutions around the world that offer scholarships exclusively to Indian students. Historically these scholarships tend to be aimed towards Masters and PhD programmes however on the rise are scholarships for undergraduate students. Student World Online takes a look at ten international scholarships for Indian undergraduate students abroad.

1. TATA SCHOLARSHIP - Cornell University, New York State, USA
Tata, the Indian multinational conglomerate company, have a foundation known as the Tata Education & Development Trust which has endowed a multi million dollar sum to Cornell University to provide undergraduate scholarships to 20 Indian students every year. In another example of supporting American universities, the Tata group also pledged US$50 million to Harvard University in recent years, whose executive management programme Ratan Tata attended in the 1970s. Read more...

2. BRADMAN FOUNDATION SCHOLARSHIP - University of Wollongong, Australia.
Named after Australia's cricket legend Donald Bradman, the UOW Bradman Foundation Scholarship was launched in 2012, with the help of Adam Gilchrist no less, to offer one successful Indian student each year a 50% reduction in tuition fees. Read more...

3. HUAWEI MAITREE SCHOLARSHIPS - Various Universities, China
Along with Tata, Huawei are the other huge corporation to be featured. China's massive telecoms equipment vendor are involved in these scholarships offered to Indian students studying in China. In 2013 there are 10 generous scholarships available which provide full tuition fees and living expenses. The courses on which the scholarships are offered include Science and Technology courses, Social Sciences and Culture and Development courses. Read more...

4. DR. MANMOHAN SINGH SCHOLARSHIPS - Cambridge University, England, UK
These scholarships have been designed to help budding Indian minds follow in the footsteps of Indian prime minister Manmohan Singh by studying at the prestigious Cambridge University. The scholarships can be applied to any undergarduate course (with the two exceptions of medicine and veterinary science) and cover everything, i.e. tuition and college fees, living expenses and an additional grant to go towards travel expenses. Read more...

5. OXFORD AND CAMBRIDGE SOCIETY OF INDIA - Oxford & Cambridge Universities, England, UK
As the name might suggest, these are scholarships available for students wishing to study at Oxford or Cambridge (cleverly known together as Oxbridge). It is only available for applicants who are completing or have completed a degree at an Indian university, however these scholarships are for both undergraduate and graduate students. Read more...

6. EDINBURGH NAPIER UNIVERSITY - Scotland, UK
This one applies to all countries in the Indian subcontinent and is for both undergraduate and graduate courses. Edinburgh Napier University offers a merit based discount of £2,000 Pounds. Read more...

7. SHEFFIELD UNIVERSITY - Sheffield, UK
Provides merit-based scholarships for undergraduate and graduate programmes across all subjects. Read more...

8. INDIA 4EU II - Several Universities across Europe
Pioneered by the European Union and involving partner universities in France, Finland, Germany, Italy, Portugal, Spain and Sweden, the India 4EU II initiative is aimed at encouraging Indian students to study, work and live in Europe. The initiative is well funded and allows the successful students tuition fees, expenses for living and travel costs as well as insurance during their time at one of the partner universities. Read more...

9. TRINITY COLLEGE DUBLIN - Ireland
Valid for undergraduate courses in the faculties of Arts, Humanities, Social Sciences, Science, Computer Science or Engineering, the Trinity College Dublin offers Indian students scholarships to the tune of €9,000 per annum over a year degree course. Read more...

10. UNIVERSITY COLLEGE DUBLIN - Ireland
Another of Ireland and Dublin's finest, the UCD awards one Global Excellence Undergraduate Scholarship which provides the worthy student a substantial 50% towards their tuition fees and is valid for all courses save medicine, radiography and veterinary medicine. UCD also offers a Global Undergraduate Scholarship scheme for undergrads accepted on science, social sciences, arts and business courses. This is all thanks to a €250,000 fund that will allow for 57 Indian students to benefit from scholarships at UCD. Read more...

Studentship at Bioinformatics Infrastructure Facility (BIF), Department of Biotechnology, Alagappa University

Fri, 02 Aug 2013 10:33:54 -0500

WALK IN INTERVIEW

A walk-in Interview for the following position tenable at the Bioinformatics Infrastructure Facility (BIF), Department of Biotechnology, Alagappa University will be held at the Department of Biotechnology, Science Campus, Alagappa University, Karaikudi 630 004 on 03.08.2013 (Saturday) at 12:30 PM. This national facility is funded by the Department of Biotechnology, Ministry of Science and Technology, Government of India, New Delhi. The main objectives of the Centre involve teaching and research activities in bioinformatics/biotechnology.

1. Studentship (One Post):

Stipend : Rs. 5000 p.m. (consolidated)

Qualification: M.Sc., in Bioinformatics/Biotechnology/Biophysics/Biochemistry/
Life Sciences

Interested candidates are encouraged to send their Curriculum Vitae by email to alagappauniv.btisnet@nic.in in advance. On the day of interview, the candidates must produce original certificates in proof of their educational qualification and experience and a recommendation letter from the Head of the Department/Institution where last studied/worked. Candidates who have already passed the required Degree alone are eligible to appear for interview. No TA&DA will be given for attending the interview.

Advertisement: http://www.alagappabiotech.org/Notification.pdf

CABOG: Celera Assembler with Best Overlap Graph

Abhimanyu Singh — Mon, 15 May 2017 05:04:39 -0500

CABOG (Celera Assembler with Best Overlap Graph) is scientific software for DNA research. CABOG has been a critical component of many genome sequencing projects. CABOG operates on small genomes such as bacterial as well as large genomes such as mammalian. CABOG is an extension of the Celera Assembler software that was originally developed at Celera for the 2001 publication of the first draft human genome sequence. The software was released to the public domain in 2004. Its open source repository on Source Forge is an internet resource for scientists around the world.

CABOG is one of many software programs called genome assemblers. These programs exist to overcome the fundamental limitation of all sequencing machines, namely, that they read out very few DNA letters at a time. These programs reconstruct genomes that are billions of letters long from the hundreds of letters per read that modern sequencers provide. What these programs do is often described as a scaled up version of a family solving a jigsaw puzzle.

The CABOG software was the first to accomplish many scientific goals. It was the first to assemble the genome of a multicellular organism (Drosophila melanogaster, 2000). It was the first to assemble both parental haplotypes of one human genome (J. Craig Venter, 2007). It was the first to assemble environmental sequence from the oceans (Sargasso Sea in 2004 and Global Ocean Sampling in 2007). It was first to combine reads from first-generation Sanger sequencing machines and second-generation pyrosequencing machines (Marine microbes, 2006). Today, CABOG is one of the leading assembly programs for data sets that include paired end data from the Roche 454 line of sequencing machines.

Address of the bookmark: http://www.jcvi.org/cms/research/projects/cabog/overview/

NGS course Medical Genomics, scheduled for 17-20 September 2013 in UZ Leuven (Belgium).

Poonam Mahapatra — Mon, 12 Aug 2013 12:08:24 -0500

This course is open to all students and postdocs and registration for all academic participants is free of charge. To help us in organizing the course, please register online via http://gc.uzleuven.be where the preliminary program is also available.

This course is organized with support from the IAP “Belgian Medical Genomics Initiative”, SymBioSys and the Genomics Core.

For inquiries, please email Ms Narcisse Opdekamp ( narcisse.opdekamp@uzleuven.be ).

More at >> http://gc.uzleuven.be/

ERGO 2.0 Bioinformatics suites

Jit — Tue, 16 May 2017 08:14:10 -0500

ERGO 2.0 provides a systems biology informatics toolkit centered on comparative genomics to capture, query, and visualize sequenced genomes. Using Igenbio's proprietary algorithms, and the most comprehensive genomic database integrated with the largest collection of microbial metabolic and non-metabolic pathways, ERGO™ assigns functions to genes, integrates genes into pathways, and identifies previously unknown or mischaracterized genes, cryptic pathways, and gene products.

Address of the bookmark: https://www.igenbio.com/ergo/

Bioinformatics Companies in India

Jitendra Narayan — Mon, 05 Aug 2013 20:20:07 -0500

Following are the list of top 30 bioinformatics companies in India. The companies name order does not follow any specific pattern.

1. Accelrys Software Solution Pvt Ltd.
12th Floor, Discover, ITPL, White Field, Bangalore-65.
www.accelrys.com

2. Apticraft Systems (P) Ltd.
142, Electronics Complex, Pardeshipura, Indore – 452010 (M.P.), India
www.apticraft.com

3. Aptuit Informatics
Plot No. 100-103, Export Promotion Industrial Park, White Field, Bangalore-560066
www.aptiuit.com

4. Bigtec
J. K. Towers, 8th Block, Sangam Circle,46th Cross, Bangalore-560082.
www.bigtec.org

5. Bijam Biosciences Private Limited
Nagarjuna Hills, Hyderabad 500 082, India
www.nagarjunagroup.com

6. Bio Base Databases India Pvt Ltd.
Crescent Towers, 4th Floor, No : 32/1, Crescent Road, Bnagalore – 560 001
www.biobase-international.com

7. BioImagene India Pvt. Ltd.
4th floor, C-Wing, Godrej Eternia, Shivajinagar, Pune-411005
www.bioimagene.com

8. BioInformatics Institute Of India – Noida
C-56 A/28, Sector -62, Noida – 201 301
www.bii.in

9. CLC bio India Pvt Ltd
#Plot No. 51, H.No. 8-3-214/51, Srinivasa Nagar (West) Ameerpet Hyderabad – 500 038
www.clcbio.com/india

10. CytoGenomics India (P) Ltd.
#3004, 12A Main HAL 2nd Stage, Bangalore 560008
www.silicocyte.com

11. Genotypic Technology
211, 6th Cross, 80ft Road, RMV II Stage, Bangalore 560094
www.genotypic.co.in

12. Genvea Biosciences
Dr. D. T. Singh, CSO, 53, Craig Rd. #04-01, Singapore-089691
www.genvea.com

13. Helix Info Systems
132 A, II Floor, Sterling Towers, IV Cross Street, Sterling Road, Nungambakkam, Chennai.
www.helixinfosystems.com

14. Jalaja Technologies Pvt. Ltd.,
21/1,Victoria Layout, Victoria Road, Bangalore-47
www.jalaja.com

15. Jubilant Biosys Ltd
#96, Industrial Subrub, 2nd Stage, Yeshwanthpur, Bangalore- 560022
Jubilant Organosys Ltd.
1A, Sector 16A, Noida – 201 301 (India)
www.jubl.com

16. Kshema Technologies
#1, Global Village, Mylasandra, Mysore Road, Bangalore-560 059.
www.mphasis.com

17. LabNetworx
B-704, Gitanjali Apartments, Vikas Marg Extension, New Delhi – 110 092
www.labnetworx.com

18. LabVantage Solutions Pvt. Ltd.
Bengal Intelligent Park, Building C, 2nd Floor, Sector V, Salt Lake Electronics Complex, Kolkata – 700 091
www.labvantage.com

19. LeadInvent,
2nd Floor, Biotech Centre, University of Delhi, South Campus, Benito Juarez Road, New Delhi 110021, India
Contact no: +91 11 24119241
Email: contact@leadinvent.com
www.leadinvent.com

20. Mascon Life Sciences
B – 8/ 10, Vasant Vihar, New Delhi 110057, India
www.masconlifesciences.com

21. Molecular Connections P Ltd
Kandala Mansion, 2/2 Kariappa Road, Near Krishna Rao Park, Basavangudi, Bangalore – 4
www.molecularconnections.com

22.Novo Informatics Pvt. Ltd.
TBIU, 2nd Floor, Synergy Building, Indian Institute of Technology, Hauz Khas, New Delhi-16.
Contact: 91-11-26581524, 91-11-26581766(Extension: 28)
Email: info@novoinformatics.com
www.novoinformatics.com

23. Ocimum Biosolutions (India) Ltd
6th Floor, Reliance Classic, Road No.1 Banjara Hills, Hyderabad 500 034, India.
www.ocimumbio.com

24. Scube Scientific Software Solutions
613, Hemkunt Chambers, 89, Nehru Place, New Delhi -110 019
www.scribeindia.com

25. Siri Technologies Pvt Ltd.
38/C -23, South End Road, Basavanagudi, Bangalore-56004.
www.siritech.com

26. Strand Life Sciences Pvt. Ltd.
#237, Sir C. V. Raman Avenue, Raj Mahal Vilas, Bangalore 560 080 INDIA
www.strandls.com

27. SooryaKiran Bioinformatics (P) Ltd
TBIC-13, Tejaswini Building, Technopark, Thriruvananthapuram- 695 584, Keralam, India

Ph: +91 471 4060979,+91 9895404104
Email: reachus@sooryakiran.com
http://www.sooryakiran.com

28. Systat Software Asia Pacific
4th Floor, Block 1, Shankar Narayan Building, No.25, MG Road, Bangalore – 560001
www.systat.com

29. ABC Genomics (India) Pvt. Ltd.
Biotech Park, Sector G, Jankipuram, Kursi Road, Lucknow-226021, U.P., INDIA
Tel +91-522-4068579, Email: director@abcgenomics.com
www.abcgenomics.com

30. en-GENE-ier's Core Technology Services,
1/340, Virat Khand, Gomtinagar,
(Near Maharaja Agrasen Public School)
lucknow-226010, U.P., India.
http://www.bio.egicore.com/

Best of luck for your job hunts :).

DIYA: a bacterial annotation pipeline for any genomics lab

Jit — Fri, 30 Jun 2017 08:48:26 -0500

DIY Genomics is an open source bioinformatics consortium intended to bring a collection of tools and libraries into the hands of small scale genomics labs for the process of sequence assembly and annotation. Projects include DIYA, MGAP, CRISPR, and DIYGV

http://gmod.org/wiki/Diya

Address of the bookmark: https://sourceforge.net/projects/diyg/

Bioinformatics JRF at IISER MOHALI

Thu, 08 Aug 2013 15:56:02 -0500

Applications are invited for a Junior Research Fellow (JRF) in Innovative Young Biotechnologist Award (IYBA) research project funded by Department of Biotechnology (DBT).

The project involves identification and characterization of transcription factors (TFs) from the Arabidopsis shoot apical meristem stem cell niche using genomic approaches and construction of a gene regulatory network for the identified TFs.

Positions: 1

Duration: 1 year but extendable up to three years based on performance and availability of funds.

Emoluments: As per DST rules.

Essential Qualifications: M.Sc. in any branch of life sciences with excellent academic record with CSIR-UGC NET or DBT-JRF. Candidate having previous work experience in the area of bioinformatics, molecular biology and genetics is preferred, but not required.

How to Apply: Applicants are requested to send a cover letter outlining previous research experiences and reasons for joining this position. Please send your complete bio-data including the cover letter as PDF attachment by email to Dr. Ram Yadav at ryadav@iisermohali.ac.in

Last date of submission is 17.00 IST, August 10, 2013.

Advertisement: www.iisermohali.ac.in/project_openings.html#29