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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/14191?offset=480</link>
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	<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/37496/gsearch-a-fast-and-flexible-general-search-tool-for-whole-genome-sequencing</guid>
	<pubDate>Mon, 06 Aug 2018 17:19:15 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/37496/gsearch-a-fast-and-flexible-general-search-tool-for-whole-genome-sequencing</link>
	<title><![CDATA[gSearch: a fast and flexible general search tool for whole-genome sequencing]]></title>
	<description><![CDATA[<p><span>gSearch compares sequence variants in the Genome Variation Format (GVF) or Variant Call Format (VCF) with a pre-compiled annotation or with variants in other genomes. Its search algorithms are subsequently optimized and implemented in a multi-threaded manner.&nbsp;</span></p><p>Address of the bookmark: <a href="http://ml.ssu.ac.kr/gSearch/index.html" rel="nofollow">http://ml.ssu.ac.kr/gSearch/index.html</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/14272/lecturersenior-lecturer-level-bc-in-bioinformatics</guid>
  <pubDate>Fri, 22 Aug 2014 12:45:52 -0500</pubDate>
  <link></link>
  <title><![CDATA[Lecturer/Senior Lecturer (Level B/C) in Bioinformatics]]></title>
  <description><![CDATA[
<p>Lecturer/Senior Lecturer (Level B/C) in Synthetic Biology, Research Fellow (Level B) in Synthetic Biology &amp; Lecturer/Senior Lecturer (Level B/C) in Bioinformatics</p>

<p>Apply now Job no: 494553<br />Work type: Continuing full time<br />Vacancy type: External Vacancy, Internal Vacancy<br />Categories: Academic - Teaching and Research</p>

<p>The Faculty of Science is launching a new and innovative branch of biological science at Macquarie University – Synthetic Biology. Synthetic biology combines engineering principles with molecular biological approaches to design and construct biological devices and systems. Recent highlights in this field include the design and synthesis of a functional bacterial genome and a yeast chromosome, and generation of synthetic bacterial cells. The rational synthesis of "designer" organisms yield important insights into how organisms work and has the potential to revolutionise biotechnological applications in areas such as bioenergy and biomanufacturing.</p>

<p>Find more at http://jobs.mq.edu.au/cw/en/job/494553/lecturersenior-lecturer-level-bc-in-synthetic-biology-research-fellow-level-b-in-synthetic-biology-lecturersenior-lecturer-level-bc-in-bioinformatics</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/37576/lrcstats-a-tool-for-evaluating-long-reads-correction-methods</guid>
	<pubDate>Wed, 22 Aug 2018 11:05:04 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/37576/lrcstats-a-tool-for-evaluating-long-reads-correction-methods</link>
	<title><![CDATA[LRCstats: a tool for evaluating long reads correction methods]]></title>
	<description><![CDATA[<p><span>LRCstats is an open-source pipeline for benchmarking DNA long read correction algorithms for long reads outputted by third generation sequencing technology such as machines produced by Pacific Biosciences. The reads produced by third generation sequencing technology, as the name suggests, are longer in length than reads produced by next generation sequencing technologies, such as those produced by Illumina. However, long reads are plagued by high error rates, which can cause issues in downstream analysis. Long read correction algorithms reduce the error rate of long reads either through self-correcting methods or using accurate, short reads outputted by next generation sequencing technologies to correct long reads.</span></p><p>Address of the bookmark: <a href="https://github.com/cchauve/lrcstats" rel="nofollow">https://github.com/cchauve/lrcstats</a></p>]]></description>
	<dc:creator>Aaryan Lokwani</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/14758/phd-opportunity-at-universite-de-liege-belgium</guid>
  <pubDate>Mon, 01 Sep 2014 17:16:22 -0500</pubDate>
  <link></link>
  <title><![CDATA[PhD opportunity at Université de Liège - Belgium]]></title>
  <description><![CDATA[
<p>The Bioinformatics and Systems Biology Unit of Université de Liège (Belgium) is looking for a highly motivated master student with programming skills for a PhD thesis project (4 years, fully funded) with the goal of designing computational tools that use literature, genomic and structural data in order to infer regulatory and metabolic networks.  </p>

<p>Applicants are invited to send their resume and a recommendation letter to Prof. Patrick Meyer (more details at   www.biosys.ulg.ac.be )</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/37796/grsr-a-tool-for-deriving-genome-rearrangement-scenarios-from-multiple-unichromosomal-genome-sequences</guid>
	<pubDate>Fri, 28 Sep 2018 09:35:10 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/37796/grsr-a-tool-for-deriving-genome-rearrangement-scenarios-from-multiple-unichromosomal-genome-sequences</link>
	<title><![CDATA[GRSR: a tool for deriving genome rearrangement scenarios from multiple unichromosomal genome sequences]]></title>
	<description><![CDATA[<p>GRSR is a Tool for Deriving Genome Rearrangement Scenarios for Multiple Uni-chromosomal Genomes. This tool will do the following steps:</p>
<ul>
<li>Step 1. Run mugsy to get multiple sequence alignment results.</li>
<li>Step 2 &amp; 3. Extraction of the Coordinates of Core Blocks, Construction of Synteny Blocks and Generating Signed Permutations.</li>
<li>Step 4. Generate pairwise genome rearrangement scenarios and find repeats at the breakpoints of each rearrangement events.</li>
<li></li>
<li></li>
</ul>
<p>https://github.com/DanwangJessica/GRSR</p><p>Address of the bookmark: <a href="https://github.com/DanwangJessica/GRSR" rel="nofollow">https://github.com/DanwangJessica/GRSR</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/14905/internship-in-computational-biology</guid>
  <pubDate>Thu, 04 Sep 2014 04:19:40 -0500</pubDate>
  <link></link>
  <title><![CDATA[Internship in Computational Biology]]></title>
  <description><![CDATA[
<p>We are looking for a motivated and autonomous intern to study gene expression in hybrid organisms. The student will work on natural hybrids of two or three different species of fungal endosymbionts of grasses. The pupose of this project is to build software allowing us to identify the genomic origin of expressed genes. To do that, the intern will have to analyze expression data (from RNA-seq) to find SNPs on the sequenced mRNAs allowing to identify from which of the parental genome the expressed gene come from. The data will have to be saved in a database using the standard BioSQL schema.</p>

<p>This job will allow the intern to become more familiar with new biological and bioinformatics tools like next generation sequencing, RNA-Seq data analysis and comparative genomics.</p>

<p>To apply for this position, send the following documents (in PDF format) to Dr Pierre-Yves Dupont (email p.y.dupont@massey.ac.nz):</p>

<p>1. A short cover letter.<br />2. A curriculum vitae, with transcript details.<br />3. The names and contact details of two referees willing to provide a confidential letter of recommendation upon request.</p>

<p>Informal enquiries are welcome. Formal applications are due by Sunday 2nd December 2012.<br />Requirements: </p>

<p>This position requires a good understanding of genetic problems, a good command of at least one scripting language (Perl, Python...), a basic knowledge of MySQL or any relational database management system. Knowledge in biological programming libraries (BioPython, BioPerl, BioRuby...), Java, C++ or any compiled language is an asset but not required. Undergraduate or Master degree is required.<br />Contact Information: </p>

<p>Dr. Pierre-Yves Dupont<br />Institute of Molecular BioSciences<br />Massey University<br />Private Bag 11 222<br />Palmerston North 4442<br />NEW ZEALAND</p>

<p>http://massey.genomicus.com/<br />p.y.dupont@massey.ac.nz</p>

<p>Information about the Institute of Molecular BioSciences (http://imbs.massey.ac.nz/) and the Computational Biology Research Group (http://massey.genomicus.com/) is available online. For more information about the position, you can contact Dr Pierre-Yves Dupont (email p.y.dupont@massey.ac.nz).</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38208/anitools-web-a-web-tool-for-fast-genome-comparison-within-multiple-bacterial-strains</guid>
	<pubDate>Wed, 14 Nov 2018 04:34:23 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38208/anitools-web-a-web-tool-for-fast-genome-comparison-within-multiple-bacterial-strains</link>
	<title><![CDATA[ANItools web: a web tool for fast genome comparison within multiple bacterial strains]]></title>
	<description><![CDATA[<p><span>ANItools is a software package written by PERL scripts that can be run in a Linux/Unix system. If you want to compare bacterial genomes and calculate their average nucleotide identity (ANI), you could download and run this program directly. Or you could send us the genome sequence by email. Then we will do the analysis work for you.</span></p>
<p><span>https://academic.oup.com/database/article/doi/10.1093/database/baw084/2630454</span></p><p>Address of the bookmark: <a href="http://ani.mypathogen.cn/" rel="nofollow">http://ani.mypathogen.cn/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/16158/bioinformatics-position-at-irccs-casa-sollievo-della-sofferenza</guid>
  <pubDate>Wed, 10 Sep 2014 14:25:34 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics position at IRCCS Casa Sollievo della Sofferenza]]></title>
  <description><![CDATA[
<p>The bioinformatics unit at IRCCS Casa Sollievo della Sofferenza - Mendel laboratory in Rome is looking for one young bioinformatician with specific experience and/or interest in the analysis of genomics and transcriptomic data.</p>

<p>The candidate will be mainly in charge of developing research on Gene Expression/SNP Arrays data, NGS whole -exome and -transcriptome datasets and biological networks in the contexts of genetic diseases, innovative therapies and regenerative medicine. Main activities will be: (i) data analysis (short-reads mapping, genomics aberrations discovery and annotation, variants pathogenicity detection); (ii) functional/pathway enrichment analysis; (iii) biological networks analysis (artificial knockout, redundancy and lethality analysis, gene set essentiality); (iv) developing of ad-hoc software solutions/routines on clusters of CPUs and GPUs.</p>

<p>The correct cultural background (training in Biology / Computer Science / Statistics or a mix of the three) and a strong interest in working in high throughput data analysis will be considered at the same level of specific experience in the above-mentioned fields.</p>

<p>Knowledge of molecular modeling and simulation and willingness to learn one or more of these languages: python, perl, R, Java, C++, C# is a golden plus. Good knowledge of Scientific English will be positively evaluated for this position, together with good presentation and teamwork skills.</p>

<p>Candidates should send:<br />• a cover letter explaining the role they would like to undertake within the Center, even if it is not listed in this job adv, stating clearly why they would be a good fit to the proposed role, and what they would bring to the Center in terms of expertise, ideas, talent;<br />• a CV including a list of publications;<br />• List of referees.</p>

<p>A CV with one professional reference, details on educational background and of the biological and/or bioinformatic and/or data analysis skills and experience should be sent by email for a preliminary selection to: Tommaso Mazza t.mazza@css-mendel.it</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/39372/irnad-a-computational-tool-for-identifying-d-modification-sites-in-rna-sequence</guid>
	<pubDate>Thu, 16 May 2019 00:20:07 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/39372/irnad-a-computational-tool-for-identifying-d-modification-sites-in-rna-sequence</link>
	<title><![CDATA[iRNAD: a computational tool for identifying D modification sites in RNA sequence]]></title>
	<description><![CDATA[<p><span>iRNAD, for identifying D modification sites in RNA sequence. In this predictor, the RNA samples derived from five species were encoded by nucleotide chemical property and nucleotide density. Support vector machine was utilized to perform the classification.&nbsp;</span></p>
<p><span><a href="http://lin-group.cn/server/iRNAD/">http://lin-group.cn/server/iRNAD/</a></span></p><p>Address of the bookmark: <a href="http://lin-group.cn/server/iRNAD/" rel="nofollow">http://lin-group.cn/server/iRNAD/</a></p>]]></description>
	<dc:creator>Abhimanyu Singh</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/17187/urdip-bioinformatics-rajrf-vacancies</guid>
  <pubDate>Sat, 20 Sep 2014 20:52:56 -0500</pubDate>
  <link></link>
  <title><![CDATA[URDIP Bioinformatics RA/JRF Vacancies]]></title>
  <description><![CDATA[
<p>CSIR - UNIT FOR RESEARCH AND DEVELOPMENT OF INFORMATION PRODUCTS (CSIR- URDIP)</p>

<p>Adv. No. URDIP/ 6/2014</p>

<p>Opportunity for young Bioinformatics Professionals to make a career in the area of Intellectual Property CSIR has set up a Unit for Research and Development of Information Products (CSIR-URDIP) at Pune to work in the area of scientific informatics. One of the major focus areas of research work at CSIR-URDIP is PATENT INFORMATICS. With the increasing applications of Bioinformatics in the areas of life sciences industry such as Agriculture and Health Care (Diagnostics and Drugs), the output of research in these area is being protected by different forms of Intellectual Property rights. Realizing the importance of IP in the Bioinformatics field, Department of Biotechnology (DBT) has sanctioned a project on “Development, Facilitation and Harvesting of Bioinformatics related Intellectual Property” at CSIR-URDIP.</p>

<p>The project will involve application of Patent Informatics tools and techniques to Bioinformatics (including creation of patent landscapes, preparation of techno-legal reports of patentability, freedom to operate studies) to help protect IPRs and develop and conduct training programmes on IPRs related to Bioinformatics.</p>

<p>CSIR-URDIP invites applications from young Bioinformatics professionals to work on this emerging area which offers challenging opportunities and attractive career possibilities in future.</p>

<p>Position I: Research Associate</p>

<p>No of Positions: One</p>

<p>Consolidated amount Payable: Rs. 22,000/- per month + 20% HRA= Rs.26,400</p>

<p>Qualification:  PhD in Bioinformatics. In exceptional cases, candidature of M. Tech. candidates with First class in Bioinformatics with three years of relevant work experience will also be considered.</p>

<p>Age Limit: 35 years. The age should not exceed the limit indicated as on a closing date of receipt of completed application form.</p>

<p>Upper age limit is relaxable for 5 years for SC/ST, OBC, Physically handicapped and female candidates as per CSIR/Government of India rules.</p>

<p>Position II: Junior Research Fellow</p>

<p>No of Positions: one</p>

<p>Consolidated amount Payable: Rs. 16,000/- + 20% HRA = 19,200</p>

<p>Qualification: M.Sc / BE or equivalent in Bioinformatics with minimum of 55% marks in aggregate Job requirement: Scientific literature and patent search, analysis and Report Writing</p>

<p>Preference: Preference will be given to candidates with knowledge of patents and or 1-2 years of experience + Knowledge of Computers (MS Excel + Word Processing)</p>

<p>Age Limit: 28 years. The age should not exceed the limit indicated as on a closing date of receipt of completed application form.</p>

<p>For details please visit our website (www.urdip.res.in/careers) for further details and apply online by 30th September, 2014.</p>

<p>Advertisement: http://www.urdip.res.in/download/Advt6_2014.pdf</p>
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