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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/27331?offset=780</link>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19544/sau-bioinformaticsplant-biotech-jrf-vacancy</guid>
  <pubDate>Fri, 12 Dec 2014 21:27:12 -0600</pubDate>
  <link></link>
  <title><![CDATA[SAU Bioinformatics/Plant Biotech JRF Vacancy]]></title>
  <description><![CDATA[
<p>Applications are invited for the post of Junior Research Fellow (JRF) to work on SERB, DST funded project entitled “Genome wide analysis of ascorbate oxidase multi-gene family and elucidating its role in negative regulation of stress response in rice” under the supervision of Dr. Ananda Mustafiz, Faculty of Life Sciences and Biotechnology, South Asian University.</p>

<p>Qualification: Highly motivated M.Sc. (Bioinformatics/ Biotechnology/ Life Sciences/ Botany/ Agriculture) students are encouraged to apply. Prior experience in Bioinformatics/Plant tissue culture work is preferable. Preferences would be given to DBT/ CSIR / UGC NET qualified students.</p>

<p>Application Procedure: A detailed CV indicating name, date of birth, address, contact number, e-mail address, educational qualifications, NET qualified or not, research experiences if any, should be e-mailed to This email address is being protected from spambots. You need JavaScript enabled to view it. on or before 24th December 2014.</p>

<p>Important Note: Only short listed candidates will be called for interview at Akbar Bhawan, Chanakyapuri, New Delhi. No TA/DA will be paid for attending the interview. SAU Selection Committee reserves the rights to relax any of the qualifications in case the candidate is found otherwise well qualified. The above- mentioned post is temporary and will be initially offered for a period of one year, which can be extended to one more year.</p>

<p>Advertisement:  www.sau.ac.in/recruitment/vacancy.html</p>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19635/walk-in-interview-for-research-associate-studentship-and-traineeship-at-bif-nehu-tura-campus</guid>
  <pubDate>Thu, 18 Dec 2014 11:02:05 -0600</pubDate>
  <link></link>
  <title><![CDATA[Walk in interview for Research Associate, Studentship and Traineeship at BIF, NEHU, Tura Campus]]></title>
  <description><![CDATA[
<p>BIOINFORMATICS INFRASTRUCTURE FACILITY (BIF)<br />Department of RDAP<br />North-Eastern Hil University, Tura Campus<br />Tura-79402, Meghalaya</p>

<p>Walk in interview for Research Associate, Studentship and Traineeship at BIF</p>

<p>Applications are invited for the Post of Research Associate, Traineeship and Studentship in the DBT sponsored Bioinformatics Infrastructure Facility (BIF) at the Bioinformatics Centre, Department of RDAP, North-Eastern Hil University, Tura Campus, Tura-79402, Meghalaya. The Posts are purely temporary and terminable at any time without prior notice or assigning any reason thereof. The person engaged, shall not be entailed for any claim implicit or explicit for permanent absorption in the University.</p>

<p>Research Associate- 01</p>

<p>Essential Qualification: M.Sc. in Bioinformatics/Biotechnology from a recognized University/ institute.</p>

<p>Desirable: PhD or Pursuing PhD in the relevant subject(s) or equivalent published work in reputed peer reviewed journals or Advance PG diploma in Bioinformatics courses.</p>

<p>Duties: Creation of database, web designing, maintenance of internet, training of students in Bioinformatics, handling and knowledge of Bioinformatics software tools and technique, conducting Bioinformatics based research and other day to day laboratory work, writing report and scientific papers.</p>

<p>Pay:Rs. 2,00/- + Admissible 10% HRA per month</p>

<p>Age: Below 35 years</p>

<p>Traineeship- 02</p>

<p>Students who have completed Masters Degree in Bioinformatics/Biotechnology or any branch of Life Sciences/Agricultural Sciences/Computer Science to cary out a project work in Bioinformatics.</p>

<p>Desirable: Prior Knowledge of programming languages such as C, JAVA, MySQL is preferable.</p>

<p>Stipend: Rs. 800/- p.m. fixed. Purely temporary for a period of six months.</p>

<p>Studentship: 02</p>

<p>Students pursuing postgraduate degree in Bioinformatics/biotechnology/Agricultural Sciences or any branch of Life Science</p>

<p>Desirable: Prior knowledge of bioinformatics/ programming language is preferable.</p>

<p>Stipend: 800/- p.m. fixed. Purely temporary for a period of six months.</p>

<p>Candidates must send the detailed Biodata via mail/post and bring al the relevant documents in original and one set of attested photocopies of the same at the time of interview. No TA/DA will be paid for attending the interview and candidates have to make their own arrangements.</p>

<p>Last date for receiving application by mail or by post: 16.02.2014</p>

<p>Contact Information:<br />Dr.B.K. Mishra<br />Cordinator BIF,<br />RDAP Department, NEHU, Tura Campus<br />Phone: 91-03651-23107<br />Fax: 91-03651-23953<br />E-mail: drbkm1972@yaho.co.in, birendramishra14@gmail.com</p>

<p>Advertisement: http://www.nehu.ac.in/Advertisements/BIF_TuraAdtvPV_171214.pdf</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34704/nanosim-nanopore-sequence-read-simulator-based-on-statistical-characterization</guid>
	<pubDate>Mon, 18 Dec 2017 04:16:31 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34704/nanosim-nanopore-sequence-read-simulator-based-on-statistical-characterization</link>
	<title><![CDATA[NanoSim: nanopore sequence read simulator based on statistical characterization.]]></title>
	<description><![CDATA[<p><span>NanoSim, a fast and scalable read simulator that captures the technology-specific features of ONT data and allows for adjustments upon improvement of nanopore sequencing technology. The first step of NanoSim is read characterization, which provides a comprehensive alignment-based analysis and generates a set of read profiles serving as the input to the next step, the simulation stage. The simulation stage uses the model built in the previous step to produce in silico reads for a given reference genome. NanoSim is written in Python and R. The source files and manual are available at the Genome Sciences Centre website: http://www.bcgsc.ca/platform/bioinfo/software/nanosim</span></p>
<p><span>https://github.com/bcgsc/NanoSim</span></p><p>Address of the bookmark: <a href="http://www.bcgsc.ca/platform/bioinfo/software/nanosim" rel="nofollow">http://www.bcgsc.ca/platform/bioinfo/software/nanosim</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19597/assistant-professor-at-gauhati-university-guwahati</guid>
  <pubDate>Tue, 16 Dec 2014 01:15:30 -0600</pubDate>
  <link></link>
  <title><![CDATA[Assistant Professor at GAUHATI UNIVERSITY, GUWAHATI]]></title>
  <description><![CDATA[
<p>Advt. No.T/2014/4</p>

<p>Ref. No. GU/Estt/T/308(VI)/2014/6451-61</p>

<p>Applications are invited from the Indian citizens for five (5) teaching posts of Assistant Professor (Contractual) under various departments of Gauhati University. Details of the advertisement, other terms and conditions and the application forms are available in the University website www.gauhati.ac.in</p>

<p>Asstt. Professor (Contractual)</p>

<p>    2. M.Sc. Microbiology Course in Botany</p>

<p>    3 1.M.Sc. Microbiology/M.Sc. Botany (Specialization in Microbiology)/M.Sc. Biochemistry (1 post). (Preference will be given to candidates having experience in Biochemistry).</p>

<p>    2.M.Sc. Microbiology/M.Sc. Botany (Specialization in Microbiology)/M.Sc. Biotechnology(1 post). (Preference will be given to candidates having experience in Bioinformatics).</p>

<p>    3.M.Sc. Microbiology/M.Sc. Botany (Specialization in Microbiology)/M.Sc.  Biotechnology(1 post). (Preference will be given to candidates having experience in Microbial Genetics).</p>

<p>As per UGC norms</p>

<p>Pay Band &amp; Academic Grade Pay : (Consolidated pay) : Rs. 21,600/- per month</p>

<p>Application Form : Prescribe application form may download from the G.U. website www.gauhati.ac.in</p>

<p>Last date of receipt of filled-in application is 08.01.2015.</p>

<p>Advertisement: www.gauhati.ac.in/openfile.php?file=Notice1258.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36921/breakpointer-using-local-mapping-artifacts-to-support-sequence-breakpoint-discovery-from-single-end-reads</guid>
	<pubDate>Tue, 12 Jun 2018 12:41:10 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36921/breakpointer-using-local-mapping-artifacts-to-support-sequence-breakpoint-discovery-from-single-end-reads</link>
	<title><![CDATA[Breakpointer: using local mapping artifacts to support sequence breakpoint discovery from single-end reads]]></title>
	<description><![CDATA[Breakpointer is a fast tool for locating sequence breakpoints from the alignment of single end reads (SE) produced by next generation sequencing (NGS). It adopts a heuristic method in searching for local mapping signatures created by insertion/deletions (indels) or more complex structural variants(SVs).<p>Address of the bookmark: <a href="https://github.com/ruping/Breakpointer" rel="nofollow">https://github.com/ruping/Breakpointer</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19695/china-university-of-macau-phd-position-2015-in-bioinformatics-computer-science</guid>
  <pubDate>Mon, 22 Dec 2014 00:12:49 -0600</pubDate>
  <link></link>
  <title><![CDATA[China University of Macau PhD Position 2015 in Bioinformatics, Computer Science]]></title>
  <description><![CDATA[
<p>The Computational Biology and Bioinformatics Group at the University of Macau is inviting applications for PhD Position. Applicants will work on a research project focusing on the flexible receptor protein-ligand docking algorithms for computer-aided drug design.  The candidate will be working as part of a team in developing novel metaheuristic algorithms and scoring functions for large-scale, highly flexible protein-ligand docking problems. The duration of this PhD position is 2-3 years, starting in August 2015. Remuneration paid to candidate is MOP 11000-14000/month (~USD 1375-1750/month). The applications should be submitted before March 2015.</p>

<p>Study Subject(s): PhD position is award in the field of Bioinformatics/Computer Science.<br />Course Level: Position is available for pursuing PhD degree level at the University of Macau.<br />Scholarship Provider: University of Macau<br />Scholarship can be taken at: China</p>

<p>Eligibility: The ideal candidate would be a master degree holder in Bioinformatics or related disciplines with knowledge in Medical sciences or Life sciences (with GPA of at least 3.0 on a 4-point scale or equivalent) . Knowledge in programming (C and C++) and Linux scripting are necessary; experience in molecular docking, molecular dynamics simulations or molecular modeling is an advantage. The candidate should be fluent in spoken and written English; preference will be given to applicants with good publication records in relevant areas.</p>

<p>Scholarship Open for International Students: Researchers from China can apply for this PhD position.</p>

<p>Scholarship Description:</p>

<p>The Computational Biology and Bioinformatics Group at the University of Macau is looking for a motivated PhD student in Bioinformatics or Computer Science to work on a research project focusing on the flexible receptor protein-ligand docking algorithms for computer-aided drug design.  The candidate will be working as part of a team in developing novel metaheuristic algorithms and scoring functions for large-scale, highly flexible protein-ligand docking problems.</p>

<p>Number of award(s): There is only one PhD position available.</p>

<p>Duration of award(s): The duration of this PhD position is 2-3 years.</p>

<p>What does it cover? Remuneration paid to candidate is  MOP 11000-14000/month (~USD 1375-1750/month).</p>

<p>Selection Criteria: Not Known</p>

<p>Notification: Not Known</p>

<p>How to Apply: Send your current CV, your academic transcripts, a letter of motivation and research interests, two letters of recommendations from academic faculty to Dr. Shirley Siu at shirleysiu[at]umac.mo before March 2015.</p>

<p>Scholarship Application Deadline: The applications should be submitted before March 2015.</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38441/genome-sequence-based-sub-species-delineation</guid>
	<pubDate>Wed, 12 Dec 2018 08:31:14 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38441/genome-sequence-based-sub-species-delineation</link>
	<title><![CDATA[Genome sequence-based (sub-)species delineation.]]></title>
	<description><![CDATA[<p>The GGDC web service reports digital DDH for a universal and accurate delineation of prokaryotic (sub-)species without inheriting the pitfalls of classic DDH, and also calculates differences in genomic G+C content.</p>
<p>http://ggdc.dsmz.de/ggdc_background.php#</p>
<p><small>Genome-to-Genome Distance Calculator 2.1</small></p>
<p>http://ggdc.dsmz.de/ggdc.php</p>
<p>&nbsp;</p><p>Address of the bookmark: <a href="http://ggdc.dsmz.de/" rel="nofollow">http://ggdc.dsmz.de/</a></p>]]></description>
	<dc:creator>Abhimanyu Singh</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19811/jnu-neurosciencesystems-biologymathematical-modeling-jrf-vacancies</guid>
  <pubDate>Fri, 26 Dec 2014 11:22:20 -0600</pubDate>
  <link></link>
  <title><![CDATA[JNU Neuroscience/Systems Biology/Mathematical modeling JRF Vacancies]]></title>
  <description><![CDATA[
<p>School of Computational and Integrative Sciences<br />Jawaharlal Nehru University<br />New Delhi 110067</p>

<p>Recruitment for Project</p>

<p>Applications were invited from the citizens of India for filling up the following temporary position for the CSIR sponsored Fellowship in the School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi 110067. This position is temporary for a period of two and half years or tenable only for the duration of the project. The requisite qualifications &amp; experience are given below.</p>

<p>Project Title : "Understanding Complex dynamics and Information processing in Brain Networks"<br />Funding Agency : CSIR</p>

<p>Principal Investigator : Dr. R.K. Brojen Singh</p>

<p>Position : Junior Research Fellow(One post)</p>

<p>Salary : As per CSIR rules and guidelines for JRF.</p>

<p>Qualifications &amp; Experience : M.Sc. in Physics/Mathematics/Biology/B.Tech. In Eng. Physics/Comp. Sc. and desirable CSIR-UGC NET Qualified. Candidates should also have at least one years research experience after M. Sc./B.Tech. in works related to Neuroscience/Mathematical modeling.</p>

<p>Candidates possessing requisite qualifications may apply either on plain paper stating the project title along with CV and send to the following address or send as email attachment (pdf or word format) so as to reach on or before 8 January, 2014.</p>

<p>Dr. R.K. Brojen Singh<br />School of Computational and Integrative Sciences<br />Jawharlal Nehru University<br />New Delhi 110067<br />Email: brojen@jnu.ac.in, brojen@mail.jnu.ac.in</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/39856/tritex-sequence-assembly-pipeline-for-triticeae-genomes</guid>
	<pubDate>Tue, 20 Aug 2019 09:47:14 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/39856/tritex-sequence-assembly-pipeline-for-triticeae-genomes</link>
	<title><![CDATA[TRITEX sequence assembly pipeline for Triticeae genomes]]></title>
	<description><![CDATA[<div>
<p>The pipeline is open-source and hosted in a public Bitbucket&nbsp;<a href="https://bitbucket.org/tritexassembly/tritexassembly.bitbucket.io/src/master/">repository</a>.</p>
</div>
<div>
<p>TRITEX has been run on highly inbred genotypes of barley (<em>Hordeum vulgare</em>), tetraploid wheat (<em>Triticum turgidum</em>) and hexaploid wheat (<em>T. aestivum</em>) with reasonable results: super-scaffold N50 values in the range of dozens of Mb and pseudomolecules with better gene space representation than a BAC-by-BAC assembly. It has never been tested and is not expected to work on heterozygous or autopolyploid genomes.</p>
</div>
<div>
<p>A protocol for generating chromosome-conformation capture sequencing (Hi-C) data suitable for use with the pipeline is described in&nbsp;<a href="https://bio-protocol.org/e2955">Himmelbach et al. 2018</a>. Refer to the&nbsp;<a href="https://www.10xgenomics.com/resources/technical-notes/">technical notes</a>&nbsp;of 10X Genomics on how to generate Chromium data.</p>
</div><p>Address of the bookmark: <a href="https://tritexassembly.bitbucket.io/" rel="nofollow">https://tritexassembly.bitbucket.io/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/40217/shouji-a-fast-and-efficient-pre-alignment-filter-for-sequence-alignment</guid>
	<pubDate>Mon, 04 Nov 2019 07:09:45 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/40217/shouji-a-fast-and-efficient-pre-alignment-filter-for-sequence-alignment</link>
	<title><![CDATA[Shouji: a fast and efficient pre-alignment filter for sequence alignment]]></title>
	<description><![CDATA[<p>The ability to generate massive amounts of sequencing data continues to overwhelm the processing capacity of existing algorithms and compute infrastructures. In this work, we explore the use of hardware/software co-design and hardware acceleration to significantly reduce the execution time of short sequence alignment, a crucial step in analyzing sequenced genomes.</p>
<p>&nbsp;<img src="https://github.com/BilkentCompGen/Shoji/raw/master/Figure1-GitHub.png" alt="image" style="border: 0px;"></p>
<p>We introduce Shouji, a highly parallel and accurate pre-alignment filter that remarkably reduces the need for computationally-costly dynamic programming algorithms. The first key idea of our proposed pre-alignment filter is to provide high filtering accuracy by correctly detecting all common subsequences shared between two given sequences. The second key idea is to design a hardware accelerator design that adopts modern FPGA (field-programmable gate array) architectures to further boost the performance of our algorithm.</p>
<p>More at <a href="https://github.com/CMU-SAFARI/Shouji">https://github.com/CMU-SAFARI/Shouji</a></p><p>Address of the bookmark: <a href="https://github.com/CMU-SAFARI/Shouji" rel="nofollow">https://github.com/CMU-SAFARI/Shouji</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

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