<![CDATA[BOL: Related items]]> https://bioinformaticsonline.com/related/6380?offset=640 https://bioinformaticsonline.com/researchlabs/view/872/jayaram-lab Sun, 14 Jul 2013 14:04:37 -0500 <![CDATA[Jayaram Lab]]> Responsible (a) for developing Chemgenome, Bhageerath & Sanjeevini methods & softwares for genome annotation, protein tertiary structure prediction & computer aided drug design respectively, (b) for setting up a multi-teraflop supercomputing facility for Bioinformatics & Computational Biology at IIT Delhi, and (c) for making the hardware and software freely accessible at (www.scfbio-iitd.res.in) to the global scientific user community.

Faculty facilitator/Founder Director for two start-up companies (Leadinvent incubated at IIT, Delhi from 2006-2009 & Novoinformatics, under incubation at IIT Delhi since 2011).

Research Interest
Genome Analysis, Protein Structure Prediction and Drug Design.

Link @ http://www.scfbio-iitd.res.in/

]]> https://bioinformaticsonline.com/bookmarks/view/32376/diamond Thu, 27 Apr 2017 04:21:54 -0500 https://bioinformaticsonline.com/bookmarks/view/32376/diamond <![CDATA[DIAMOND]]> DIAMOND is a sequence aligner for protein and translated DNA searches and functions as a drop-in replacement for the NCBI BLAST software tools. It is suitable for protein-protein search as well as DNA-protein search on short reads and longer sequences including contigs and assemblies, providing a speedup of BLAST ranging up to x20,000.

More at file:///home/urbe/Downloads/diamond_manual.pdf

http://www.nature.com/nmeth/journal/v12/n1/full/nmeth.3176.html

Address of the bookmark: https://github.com/bbuchfink/diamond

]]> Jit https://bioinformaticsonline.com/bookmarks/view/32465/tetra-nucleotide-analysis Thu, 04 May 2017 05:07:41 -0500 https://bioinformaticsonline.com/bookmarks/view/32465/tetra-nucleotide-analysis <![CDATA[Tetra-Nucleotide Analysis]]> A tetra-nucleotide is a fragment of DNA sequence with 4 bases (e.g. AGTC or TTGG). Pride et al. (2003) showed that the frequency of tetra-nucleotides in bacterial genomes contain useful, albeit weak, phylogenetic signals. Even though tetra-nucleotide analysis (TNA) utilizes the information of whole genome, it is evident that it cannot replace other alignment-based phylogenetic methods such as OrthoANI or 16S rRNA phylogeny. However, TNA can be useful for phylogenetic characterization when whole genome or 16S rRNA gene information is not available. For example, a partial genomic fragment obtained from a metagenome can be identified by TNA (Teeling et al., 2004). TNA is also fast enough that it can be used as a search engine against a large genome database.

Address of the bookmark: https://chunlab.wordpress.com/tetra-nucleotide-analysis/

]]> Jit https://bioinformaticsonline.com/opportunity/view/1149/system-biologist-at-millennium-software-productions-india-private-limited Fri, 19 Jul 2013 09:43:53 -0500 <![CDATA[System Biologist at Millennium Software productions India Private Limited]]> 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.

]]> https://bioinformaticsonline.com/opportunity/view/32496/bioinformatician-at-23andme Sat, 06 May 2017 17:57:39 -0500 <![CDATA[Bioinformatician at 23andMe]]> 23andMe’s mission is to help people access, understand, and benefit
from the human genome. We are a group of passionate individuals excited
to push the boundaries of what’s possible to help turn genetic insight
into better health and personal understanding.

Our Research Team prides itself on driving cutting edge, industrial-scale
science to make an impact that belies the team’s size, in an environment
and culture that fosters creativity, innovation, collaboration, and fun.

More than 80% of our customers consent to participate in research, and as
a result of their participation, we have one of the largest recontactable,
genotyped, and phenotyped research cohorts in the world. The scope and
breadth of our vision means that most of the methods and tools necessary
to unlock the potential of this unique resource for discovery have yet
to be developed.

Our science has garnered the respect of many members of the
broader scientific community. For a list of our publications, see
www.23andme.com/publications/for-scientists/.

Join us! Visit our Careers page (www.23andMe.com/careers) to learn more
about these open positions:

• Scientist, Research Communications
• Bioinformaticist
• Computational Biologist, Ancestry R&D
• Scientist/Senior Scientist, Statistical Genetics
• Scientist/Senior Scientist, Survey Methodology
• Scientist/Senior Scientist, Health R&D
• Senior Computational Biologist
• Biostatistician

pfontanillas@23andme.com

]]> https://bioinformaticsonline.com/opportunity/view/1217/studentship-at-bioinformatics-infrastructure-facility-bif-department-of-biotechnology-alagappa-university Fri, 02 Aug 2013 10:33:54 -0500 <![CDATA[Studentship at Bioinformatics Infrastructure Facility (BIF), Department of Biotechnology, Alagappa University]]> 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

]]> https://bioinformaticsonline.com/bookmarks/view/32633/a-post-assembly-genome-improvement-toolkit-pagit-to-obtain-annotated-genomes-from-contigs Fri, 12 May 2017 10:50:29 -0500 https://bioinformaticsonline.com/bookmarks/view/32633/a-post-assembly-genome-improvement-toolkit-pagit-to-obtain-annotated-genomes-from-contigs <![CDATA[A Post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs]]> PAGIT addresses the need for software to generate high quality draft genomes. It is based on a series of programs that we developed:

ABACAS, that is able to contiguate contigs from a de novo assembly against a closely related reference.

IMAGE, an iterative approach for closing gaps in assembled genomes using mate pair information. It is able to close gaps left open by the assembler in a draft genome, even when using the same data sets as used by the original assembler.

iCORN, that enables errors in the consensus sequence to be corrected by iteratively mapping reads to the current assembly. An improved version, especially correction Pacfic Bioscience assemblies (PacBio) can be found here.

RATT, a tool to transfer the annotation from a reference genome, or an earlier assembly, onto the latest assembly.

PAGIT bundles these software and makes them more accessible for users.

Address of the bookmark: http://www.sanger.ac.uk/science/tools/pagit

]]> Abhimanyu Singh https://bioinformaticsonline.com/news/view/2042/ngs-course-medical-genomics-scheduled-for-17-20-september-2013-in-uz-leuven-belgium Mon, 12 Aug 2013 12:08:24 -0500 https://bioinformaticsonline.com/news/view/2042/ngs-course-medical-genomics-scheduled-for-17-20-september-2013-in-uz-leuven-belgium <![CDATA[NGS course Medical Genomics, scheduled for 17-20 September 2013 in UZ Leuven (Belgium).]]> 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/

]]> Poonam Mahapatra https://bioinformaticsonline.com/news/view/32719/download-assemblies-from-ncbi Mon, 15 May 2017 06:02:32 -0500 https://bioinformaticsonline.com/news/view/32719/download-assemblies-from-ncbi <![CDATA[Download assemblies from NCBI]]> A new “Download assemblies” button is now available in the Assembly database. This makes it easy to download data for multiple genomes without having to write scripts.

For example, you can run a search in Assembly and use check boxes (see left side of screenshot below) to refine the set of genome assemblies of interest. Then, just open the “Download assemblies” menu, choose the source database (GenBank or RefSeq), choose the file type, and start the download. An archive file will be saved to your computer that can be expanded into a folder containing your selected genome data files.

image

 

More at https://ncbiinsights.ncbi.nlm.nih.gov/2017/05/08/genome-data-download-made-easy/

]]> Bulbul https://bioinformaticsonline.com/pages/view/1332/bioinformatics-companies-in-india Mon, 05 Aug 2013 20:20:07 -0500 https://bioinformaticsonline.com/pages/view/1332/bioinformatics-companies-in-india <![CDATA[Bioinformatics Companies in India]]> 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 :).

]]> Jitendra Narayan