Recruitment for Research Associate and Project Assistant positions

Regional Centre for Biotechnology (RCB) is an autonomous academic institution established by the Department of Biotechnology, Govt. of India with regional and global partnerships synergizing with the programmes of UNESCO as a Category II Centre. The primary focus of RCB is to provide world class education, training and conduct innovative research at the interface of multiple disciplines to create high quality human resource in disciplinary and interdisciplinary areas of biotechnology in a globally competitive research milieu.

Research Associate (02 Position)

Consolidated emoluments Rs.22000/- + 30% H.R.A. p.m.

Essential: Ph.D. in Natural Sciences, minimum 60% marks in all qualifying exams and below 35 years of age.

Desirable: Prior experience at the PhD level in Biochemistry, Bioinformatics and Proteomics with a strong motivation for a career in research is highly desirable.

Strong PhD level training with proteins chemistry, protein purification and statistical analysis of proteomics or genomics dataset will be preferred. Either/ both qualifications should be substantiated by published papers.

Inter-Institutional Program for Maternal, Neonatal and Infant Sciences: A translational approach to studying preterm birth.

Principal Investigator: Dr. Dinakar M. Salunke

Applicants may apply along with the requisite documents (attested copies) pertaining to proof of date of birth, academic/professional qualifications, experience (if any), in the prescribed format available on our websites: www.rcb.res.in and www.rcb.ac.in. Applications should be sent to the Registrar, Regional Centre for Biotechnology, 180 Udyog Vihar Phase 1, Gurgaon-122016, Haryana, India, through Registered Post on or before Feb 28, 2014. A soft copy of the application should be sent by email to registrar@rcb.res.in. Incomplete applications or applications received after Feb 28, 2014 will not be entertained.

More at https://www.rcb.res.in/Advt-1._for_websites_PTB-revised.pdf

Genome Workbench can display sequence data in many ways, including graphical sequence views, various alignment views, phylogenetic tree views, and tabular views of data. It can also align your private data to data in public databases, display your data in the context of public data, and retrieve BLAST results.

Genome Workbench is built on the NCBI C++ ToolKit and uses cross-platform APIs for graphics. It runs on your local machine, and is available for Windows 2000/XP, Linux, MacOS X, and various flavors of Unix.

NCBI Genome Workbench is an integrated application for viewing and analyzing sequence data. Genome Workbench was developed entirely in-house at NCBI and makes use of the NCBI C++ ToolKit. The C++ ToolKit provides a convenient and flexible cross-platform API for managing system internals, database connections, network sockets, and the NCBI data model. In addition, the C++ ToolKit provides the Object Manager, which abstracts handling of sequences and sequence-related objects.

 New Features in Genome Workbench 2.7.15

• Multiple Alignment View: implemented adaptive feature display when zooming in
• Active Objects Inspector replaces Selection Inspector. New View should offer an improved selection context examination. See Using Active Objects Inspector tutorial for more details.
• Binary packages for Linux OpenSUSE 13.1 are now available

Bug Fixes and Improvements in Genome Workbench 2.7.15

• Fixed major issue with OpenGL overlay/scrolling. Could cause crashes or view scrolling irregularities
• Multiple Pane View: fixed crash on loading BLAST results
• Graphical Sequence View: fixed crash on zooming in and out, related to SNP track
• Graphical Sequence View: fixed Go To Position dialog to give better diagnostics in case of a user error
• Graphical Sequence View: PDF export fixed rendering of Markers with commas in the name
• Text View / Flat File: fixed Mac OS rendering issues
• Text View / Flat File: performance optimization, extended capabilities of real-time rendering of molecules to tens of thousands
• File Import: optimization improvement to speed up load of files containing multiple project items
• File Import: remapping stage now shows accession.version and description of molecules, instead of plain GI numbers
• Mac OS: improved tooltips for toolbar buttons
• Phylogenetic Tree Builder Tool: improved diagnostics of errors
• Multiple Alignment View: optimizations to avoid main GUI freezes
• Open Dialog: removed duplicate elements in table of genomes (load Genome)
• PDF export: fixed issue with XREF table errors
• Tree View: fixed issues with showing Force Layout progress on Mac OS
• Tree View: PDF export fixed issues for showing labels of collapsed nodes
• Tree View: added an option to stop layout
• Tree View: broadcasting mechanism fixed not to accumulate selected nodes

Reference:

NCBI news

http://www.ncbi.nlm.nih.gov/tools/gbench/

Applications are invited for the posts of one Junior Research Fellow in the DBT funded project entitled “Plant parasitic nematode genome informatics - insilico resource development”. The project is for a period of three years.

Essential qualifications for JRF: First class M. Sc. / M. Tech in Bioinformatics. Knowledge of programming language, pearl, Statistics and database – HTML, CSS, Java script.

Desirable qualifications: Experience in handling next generation sequencing data

Age limit: 35 years maximum (5 year relaxation for SC/ST and women candidates) Emoluments: 16,000 + 30% HRA.

The post is purely temporary in nature and is co-terminus with the project. The appointment would be initially for one year and may be extended further upon satisfactory performance.

Those who are interested in pursuing Ph.D with strong research aptitude are preferred.

Interested candidates may attend the Walk in interview on 25th March 2014 along with the duly filled application forms (format in the following page) with all the relevant documents.

Venue: Division of Nematology, Indian Agricultural Research Institute, New Delhi 110012 (Room No. 306, 3rd floor, LBS building)

Reporting Time: Interested candidates should report strictly between 10.00 to 10.30 AM.

Interview time: 10.30 AM

Short-listed candidates will be called for interview at New Delhi. However, no TA and DA will be paid for attending the interview.

Advertisement:

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is a state-funded virtual research center aimed at promoting imaging and informatics research infrastructure in South Dakota. BioSNTR research foci include analysis of large-scale genomics and imaging data, application of novel microscopy technologies to study signaling pathways, and identification of new compounds to manipulate signaling pathways.
Responsibilities: This person will be part of Plant Science team with research focus in bioinformatic and molecular network analyses of high throughput data (transcriptomic, proteomic, metabolomics, miRNA). The individual will be integrated into functional genomic projects encompassing grapevine dormancy and freezing tolerance (Fennell) and regulation of soybean nodulation (Subramanian). The successful candidate will perform computational analysis of high throughput, next-generation sequence data and possess the ability to use bioinformatics analytical tools on HPC clusters.

Required Qualifications:
• Ph.D. in plant computational biology or bioinformatics.
• Experience in a high performance computing environment.
• Perl, Python and Java programming experience
• Data management and database development experience

Desired Qualifications:
• Parallel computing experience
• Experience working in a multidisciplinary environment

Contact Information
South Dakota State University
Plant Science
Anne Fennell
anne.fennell@sdstate.edu
Tel. Number: 605-688-6373
http://www.biosntr.org

In our day to day research activity, we need to securely copy our data from several to local computer and visa-versa. I am jotting down some of the commonly used SCP command for your future help. Hope you all will like it

What is Secure Copy?

scp allows files to be copied to, from, or between different hosts. It uses ssh for data transfer and provides the same authentication and same level of security as ssh.

Examples

Copy the file "gene.txt" from a remote host to the local host

    $ scp your_username@remotehost.edu:gene.txt /some/local/directory

Copy the file "foobar.txt" from the local host to a remote host

    $ scp gene.txt your_username@remotehost.edu:/some/remote/directory

Copy the directory "chromosome" from the local host to a remote host's directory "bar"

    $ scp -r chromosome your_username@remotehost.edu:/some/remote/directory/bar

Copy the file "gene.txt" from remote host "rh1.edu" to remote host "rh2.edu"

    $ scp your_username@rh1.edu:/some/remote/directory/gene.txt \
    your_username@rh2.edu:/some/remote/directory/

Copying the files "gene.txt" and "cancer.txt" from the local host to your home directory on the remote host

    $ scp gene.txt cancer.txt your_username@remotehost.edu:~

Copy the file "gene.txt" from the local host to a remote host using port 2264

    $ scp -P 2264 gene.txt your_username@remotehost.edu:/some/remote/directory

Copy multiple files from the remote host to your current directory on the local host

    $ scp your_username@remotehost.edu:/some/remote/directory/\{a,b,c\} .

    $ scp your_username@remotehost.edu:~/\{gene.txt,cancer.txt\} .

scp Performance

By default scp uses the Triple-DES cipher to encrypt the data being sent. Using the Blowfish cipher has been shown to increase speed. This can be done by using option -c blowfish in the command line.

    $ scp -c blowfish some_file your_username@remotehost.edu:~

It is often suggested that the -C option for compression should also be used to increase speed. The effect of compression, however, will only significantly increase speed if your connection is very slow. Otherwise it may just be adding extra burden to the CPU. An example of using blowfish and compression:

    $ scp -c blowfish -C local_file your_username@remotehost.edu:~

'du' – Check the size of a directory

$ du
This command ( du) gives you a list of directories that exist in the current working directory along with their sizes in kilobytes (default). The last line of the output gives you the total size of the current directory including its subdirectories.

$ du /home/jin1
The above command would give you the directory size of the directory /home/david

$ du -h
The same “du”command with some flag gives you a better output than the default one. The option '-h' stands for human readable format. Therefore, in order to print the sizes of the files / directories in your desire notation use this time suffixed with a 'k' if its kilobytes and 'M' if its Megabytes and 'G' if its Gigabytes.

$ du -ah
If you are interested in checking everything present in a folder use above mentioned command. It gives us not only the directories but also all the files that are present in the current directory. The “-a” flag displays the filenames along with the directory names in the output.

$ du -c
This gives you a grand total as the last line of the output. So if your directory occupies 30MB the last 2 lines of the output would be 30M.

$ du -s
Use this command to displays a summary of the directory size. It is the simplest way to know the total size of the current directory.

$ du -S
This would display the size of the current directory excluding the size of the subdirectories that exist within that directory. So it basically shows you the total size of all the files that exist in the current directory.

$ du --exculde=mp3
Several times it required to exclude some directory in our size calculation. In such cases the above command would display the size of the current directory along with all its subdirectories, but it would exclude all the files having the given pattern present in their filenames.

'df' - finding the disk free space / disk usage

$ df
Hmmm … now “df” command is really useful, and I guess you are going to use it over time. Typing the above command, outputs a table consisting of 6 columns. All the columns are very easy to understand. Remember that the 'Size', 'Used' and 'Avail' columns use kilobytes as the unit. The 'Use%' column shows the usage as a percentage which is also very useful.

$ df -h
Displays the same output as the previous command but the '-h' indicates human readable format. Hence instead of kilobytes as the unit the output would have 'M' for Megabytes and 'G' for Gigabytes.

Example: Linux installed on /dev/hda1
$ df -h | grep /dev/hda1

All right, this is not the only option to check the sizes and free spaces but there are a few more options that can be used with 'du' and 'df' . I will discuss it later.

(details of experience required)
Pay Scale:
INR Rs.12000/-P.M. + HRA
Category:
Science and Research Jobs
How To Apply:
The interested candidates should report for the Interview on 31st
March, 2014 at 10:00 am in the Conference Room of Dean, School of Biotechnology, First floor, Gautam Buddha University, Greater
Noida. Interested candidates may also send their resume to undersigned by post-mail/e-mail shaktis@gbu.ac.in or shaktisahi@gmail.com. No TA and DA will be paid for appearing for the interview
Download Official Notification:

http://www.gbu.ac.in/Recruitment/JRF_advertisement_DSTProject_Shakti_24March14.pdf

No. CBSH/MBGE/356

Subject: Advertisement for the award of Junior Research Fellowship.

Applications are invited for award of one Junior Research Fellowship on a consolidated fellowship of Rs. 12,000/- pm in the project “Bioinformatics Sub-DIC ”, under the Coordinatorship Dr. Anil Kumar. The fellowship is purely temporary and may continue till the duration of the project or maximum three years which ever is earlier. The appointment shall be given on six monthly review basis.

ESSENTIAL QUALIFICATION

M.Sc. Bioinformatics having research experience on In silico experimentation.

Candidates possessing the above qualifications may submit their application on
plain paper in the following format to the undersigned latest 18 April, 2014 the interviews will be held on 19 April, 2014 at 11.00 AM in the office of the undersigned. No separate letter for interview will be issued or any TA/DA will be paid for attending the interview.

Advertisement: http://www.gbpuat.ac.in/01042014_18april14_Advertisement%20for%20JRF%20Position,%20BI.pdf

Applications are invited from qualified individuals for a JRF/SRF position (sponsored by DBT/DST) at Prof. Jagan Pongubala’s laboratory, University of Hyderabad. Dr. Pongubala’s laboratory is investigating the molecular pathways that control the development of innate and adaptive immune cell types utilizing a combination of genetic, molecular and computational approaches.

JRF/SRF

Masters degree in Bioinformatics (M.Sc./M.Tech.)

Rs. 12,000+HRA
Rs. 16,000+HRA

Initial appointment is for one year and subjected to renewal up to 2 years

Candidates selected for the above position would have a choice to work on computational biology or experimental biology. Candidates interested to work on computational biology are expected to perform high-throughput sequencing (NGS) data analysis and should have a strong background in Bioinformatics & Computational Biology, good programming skills particularly Perl, Python, R and work experience in Linux environment.

Candidates interested to work on experimental biology should have work experience in techniques that are routinely used in molecular biology and mammalian cell culture. A basic knowledge of bioinformatics is also desired.

Applicants for the above positions should have a Masters degree (M.Tech/M.Sc) with an aggregate marks greater than 70% or a 7.5 CGPA. Candidates having JRF-fellowship through CSIR/UGC/ICMR/DBT will be encouraged to enroll into Ph.D. program. The interested candidates having excellent organizational skills and the ability to work in a team environment with an aspiration to learn new techniques and explore new scientific areas are requested to generate their resume using the link https://cvmkr.com/CV/new#0 and forward to pongubalajagan@gmail.com

Review of applications will begin immediately and continue until the position is filled. Eligible candidates will be called for an interview. No TA/ DA will be paid for attending the interview or at the time of joining the post. Applicants should note that the appointment is purely temporary and subjected to renewal up to three years and there is no Right to Claim for any regular appointment with the University.

Corresponding address: Jagan Pongubala, Ph.D.
Department of Animal Sciences
School of Life Sciences, Room:S44
University of Hyderabad
Gachibowli, Hyderabad 500046

Advertisement: https://www.uohyd.ac.in/images/recruitment/jrf-srf_130414.pdf

Bose Institute, Kolkata, invites applications from Indian Citizens for ONE (01) temporary position of Junior Research Fellow in the DBT sponsored project entitled, “Centre of Excellance (CoE) in Bioinformatics at Bose Institute”, running under Prof. Pinakpani Chakrabarti, Project Co-ordinatior, Bioinformatics Centre. The project is tenable upto 31.03.2017, but duration of the fellowship is one year only. The JRF will work with one of the faculty members of the center based on his / her motivation in any specific area on Bioinformatics.

Essential Qualification: 1st class M.Sc. / M.Tech degree in any stream of Chemical/ Biological Sciences with CSIR-UGC-NET-JRF / ICMR-JRF / DBT-JRF or CSIR-UGCNET- LS / GATE qualification.

Desirable qualification:

(i) Specialized knowledge in Organic / Physical chemistry.
(ii) Any exposure to research involving the small molecules (like drug) and / or protein structure determination or prediction.
(iii) Basic knowledge in computer programming, e.g. using FORTRAN, C, shell, perl etc.
(iv) Hands-on-experience on any of the following software : CHARMM/AMBER/NAMD/GROMACS,Gaussian/Gamess, Haddock/Autodock, Schrodinger etc. (or any other software serving similar purposes in molecular modeling)

Fellowship :

(i) Rs. 16,000/- p.m., plus admissible HRA & Medical Benefit for M.Sc. with CSIRUGC NET-JRF/ICMR-JRF/DBT-JRF or M.Tech. with CSIR-UGC NETJRF/
ICMR-JRF/DBT-JRF/CSIR-UGC NET-LS/GATE
(ii) Rs. 12,000/- p.m., plus admissible HRA & Medical Benefit for M.Sc. with CSIRUGC NET-LS/GATE

Age : Below 28 years as on the day on which the application is made (relaxable in case of SC/ST/OBC/WOMEN candidates only as per rule).

Interested and eligible candidates should apply on plain paper duly signed by them clearly mentioning the area of interest in research, possession of any desirable qualification (s) as mentioned above and quoting Advertisement No. on the envelop as well as application with complete Bio-data giving e-mail ID, Phone No. and details of qualification i.e. examination passed, year, division, percentage of marks, from Secondary onwards with attested copies of testimonials, addressed to the Registrar, Bose Institute, P-1/12, CIT Scheme VII-M, Kankurgachi, Kolkata-700054 on or before April 25, 2014.

The shortlisted candidates will be called for an interview. Applicants are advised to check our website for future updates.

Advertisement: www.boseinst.ernet.in/ADVT/14/p_2.pdf