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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/31205?offset=990</link>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/26955/jrf-bioinformatics-at-nipgr</guid>
  <pubDate>Thu, 14 Apr 2016 13:12:42 -0500</pubDate>
  <link></link>
  <title><![CDATA[JRF Bioinformatics at NIPGR]]></title>
  <description><![CDATA[
<p>JRF Bioinformatics job position in National Institute of Plant Genome Research (NIPGR)</p>

<p>Title : “Short-Term Research Fellowship”</p>

<p>Qualification : Candidates having M.Sc./M.Tech degree (with minimum of 60% marks overall) or equivalent in Bioinformatics/Biotechnology or any other related field, are eligible to apply. Candidate having prior experience in the area of next-generation sequencing data analysis, bioinformatics, molecular analysis of plant genes, and structural data analysis will be preferred.</p>

<p>No.of Post : 01<br />How to apply</p>

<p>Application should sent to Dr. Gitanjali Yadav, Staff Scientist-IV, National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, P.O. Box NO. 10531, New Delhi - 110067 on or before 26th April 2016</p>

<p>More at http://www.nipgr.res.in/careers/vacancies_latest.php#</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/26999/discovar</guid>
	<pubDate>Mon, 18 Apr 2016 11:59:16 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/26999/discovar</link>
	<title><![CDATA[DISCOVAR]]></title>
	<description><![CDATA[<p><strong>DISCOVAR</strong> is a new variant caller and <strong>DISCOVAR <em>de novo</em></strong> a new genome assembler, both designed for state-of-the-art data. Their inputs are chosen to optimize quality while keeping costs low. Currently it takes as input Illumina reads of length 250 or longer &mdash; produced on MiSeq or HiSeq 2500 &mdash; and from a single PCR-free library. These data enable a level of completeness and continuity that was not previously possible.</p>
<p><strong>DISCOVAR</strong> can call variants on a region by region basis, potentially tiling an entire large genome. DISCOVAR variant calling is under active development and transitioning to VCF.</p>
<p><strong>DISCOVAR <em>de novo</em></strong> can generate <em>de novo</em> assemblies for both large and small genomes. It currently does not call variants.</p>
<p>More at https://www.broadinstitute.org/software/discovar/blog/?page_id=14</p><p>Address of the bookmark: <a href="https://www.broadinstitute.org/software/discovar/blog/" rel="nofollow">https://www.broadinstitute.org/software/discovar/blog/</a></p>]]></description>
	<dc:creator>Abhimanyu Singh</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/27257/busco-assessing-genome-assembly-and-annotation-completeness-with-benchmarking-universal-single-copy-orthologs</guid>
	<pubDate>Tue, 10 May 2016 07:46:24 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/27257/busco-assessing-genome-assembly-and-annotation-completeness-with-benchmarking-universal-single-copy-orthologs</link>
	<title><![CDATA[BUSCO: Assessing genome assembly and annotation completeness with Benchmarking Universal Single-Copy Orthologs]]></title>
	<description><![CDATA[<ul>
<li><span>High-throughput genomics has revolutionized biological research, however, while the number of sequenced genomes grows by the day, quality assessment of the resulting assembled sequences remains complicated and mostly limited to technical measures like N50.&nbsp;</span></li>
<li></li>
<li><span>BUSCO provides measures for quantitative assessment of genome assembly, gene set, and transcriptome completeness based on evolutionarily informed expectations of gene content from near-universal single-copy orthologs selected from&nbsp;</span><a href="http://orthodb.org/">OrthoDB</a><span>.&nbsp;</span></li>
<li></li>
<li><span>BUSCO assessments are implemented in open-source software, with comprehensive lineage-specific sets of Benchmarking Universal Single-Copy Orthologs for arthropods, vertebrates, metazoans, fungi, eukaryotes, and bacteria.&nbsp;</span></li>
<li></li>
<li><span>These conserved orthologs are ideal candidates for large-scale phylogenomics studies, and the annotated BUSCO gene models built during genome assessments provide a comprehensive gene predictor training set for use as part of genome annotation pipelines.&nbsp;</span></li>
<li></li>
<li><span>BUSCO assessments offer intuitive metrics, based on evolutionarily informed expectations of gene content from hundreds of species, to gauge completeness of rapidly accumulating genomic data and satisfy an Iberian's quest for quality - "Busco calidad/qualidade".</span></li>
</ul><p>Address of the bookmark: <a href="http://busco.ezlab.org/" rel="nofollow">http://busco.ezlab.org/</a></p>]]></description>
	<dc:creator>Anjana</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/27098/bioinformatics-faculty-at-tnu</guid>
  <pubDate>Wed, 27 Apr 2016 10:07:15 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics Faculty at TNU]]></title>
  <description><![CDATA[
<p>TNU is hiring faculty as Professors, Associate Professors and Assistant Professors in the following research and teaching programs.</p>

<p>Basic Sciences</p>

<p>Biotechnology &amp; Bioinformatics</p>

<p>Qualifications are as per UGC norms. Please visit www.ugc.ac.in.</p>

<p>Educational, Age and experience requirements will be relaxed in exceptional cases.</p>

<p>Interested candidates are requested to apply with their complete CV with list of Publications, Patents, Industry and teaching experience at Undergraduate and Postgraduate level along with other relevant information to hr@tnu.in </p>

<p>Provide names and contact details of at least two references for confidential evaluation. </p>

<p>We follow Central University pay scales and few additional perks.     </p>

<p>TNU follows highly liberal HR Policy with no salary constraint for exceptional candidates.</p>

<p>Applications are invited for the positions of - Professor, Associate Professor &amp; Assistant Professor.<br />https://drive.google.com/file/d/0B0Y1Fpxmzyd3OHQ3aUNYa3hZY2c/view?usp=sharing</p>

<p>Reference<br />- Times of India, Ascent as on 20.04.2016.</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/27216/yass-genomic-similarity-search-tool</guid>
	<pubDate>Mon, 02 May 2016 09:26:00 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/27216/yass-genomic-similarity-search-tool</link>
	<title><![CDATA[YASS :: genomic similarity search tool]]></title>
	<description><![CDATA[<p>YASS is a genomic similarity search tool, for nucleic (DNA/RNA) sequences in fasta or plain text format (<em>it produces local pairwise alignments</em>). Like most of the heuristic pairwise local alignment tools for DNA sequences (FASTA, BLAST, PATTERNHUNTER, BLASTZ/LASTZ, LAST ...), YASS uses <em>seeds</em> to detect potential similarity regions, and then tries to extend them to local alignments. This genomic search tool uses <em>multiple transition constrained spaced seeds</em> that enable to search more fuzzy repeats, as non-coding DNA/RNA. Another simple, but interesting feature is that you can specify the seed pattern used in the search step (as provided for example by <a href="http://bioinfo.lifl.fr/yass/iedera.php">iedera</a>).</p>
<p>Main features of YASS are:</p>
<ul>
<li>multiple, possibly overlapping seeds and a new hit criterion to ensure a good sensitivity/selectivity trade-off</li>
<li>transition-constrained spaced seeds to improve sensitivity (transition mutations are purine to purine [<code>A&lt;-&gt;G</code>] or pyrimidine to pyrimidine [<code>C&lt;-&gt;T</code>])</li>
<li>using different scoring schemes with bit-score and E-value evaluated according to the sequence background frequencies</li>
<li>parameterizable <em>output</em> filter for low complexity repeats</li>
<li>reporting of various alignment statistical parameters (mutation bias along triplets, transition/transversion)</li>
<li>post-processing step to group gapped alignments</li>
</ul><p>Address of the bookmark: <a href="http://bioinfo.lifl.fr/yass/" rel="nofollow">http://bioinfo.lifl.fr/yass/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/27277/binc-2016</guid>
	<pubDate>Wed, 11 May 2016 07:15:03 -0500</pubDate>
	<link>https://bioinformaticsonline.com/news/view/27277/binc-2016</link>
	<title><![CDATA[BINC 2016]]></title>
	<description><![CDATA[<p>Bioinformatics National Certification (BINC) Examination 2016</p><p>Department of Biotechnology, Government of India, New Delhi &amp; Pondicherry University, Puducherry</p><p>Starting of online submission of application : April 13, 2016</p><p>Last date for submission of application : May 13, 2016</p><p>Examination consists of two parts:</p><p>Part - I (Paper - I) : June 12, 2016 (10 AM -12 PM)<br />Part - II (Paper &bull; II &amp; III) : June 26, 2016 (9 AM &bull; 12 PM &amp; 2 PM &bull; 4 PM)</p><p>Objective: Pondicherry University, on behalf of the Department of Biotechnology (DBT),<br />Government of India, will conduct the Bioinformatics National Certification (BING) examination. The objective of this examination is to identify Bioinformatics professionals<br />for further studies as well as to help potential employers in recruitment of candidates having exceptionally good Bioinformatics skills.</p><p>Eligibility : Bachelor degree in Life Sciences, Physical Sciences, Chemical Sciences, Mathematical Sciences, Agriculture, Veterinary, Medicine, Pharmacy, Engineering and Technology are eligible to appear for the examination. They need not have any formal training, diploma or certificate in Bioinformatics.</p><p>Application and syllabus : The online application can be filled from April 13, 2016 to May 13, 2016.</p><p>Syllabus for the examination is available online.</p><p>It consists of five sections:<br />Bioinformatics, Biology, Physical and Chemical Sciences, Mathematics &amp; Statistics and Computer Science &amp; Information Technology.</p><p>Examination : The examination fee is Rs. 600/- for general candidates, Rs. 400/- for women/OBC candidates and Rs. 200 for SC/ST candidates, and no fee for physically challenged candidates.</p><p>The online Part - I (Paper - I) examination is scheduled on June 12,2016 and Part- II (Paper - II and Paper- III) on June 26, 2016. The Paper- I will be of objective type and candidates scoring a minimum of 40% marks in Paper - I will be called to appear in Part II examination.</p><p>Part II examination consists of two papers : The Paper - II will be of short answer type questions of three hours duration while the Paper- III will be a practical examination of two hours duration to test analytical ability and programming skill of candidates.</p><p>Research Fellowships for all the successful candidates those who are interested and qualified in pursuing Ph.D. in India will be awarded. In addition, cash prizes will be awarded to the top 10 successful candidates.</p><p>The details of examination centres, other details and submission of application, please<br />visit:&nbsp;<a href="http://www.pondiuni.edu.in/exams/binc/">http://www.pondiuni.edu.in/exams/binc/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/poll/view/27279/do-you-think-its-important-for-everyone-to-pass-binc-exam</guid>
	<pubDate>Wed, 11 May 2016 07:25:34 -0500</pubDate>
	<link>https://bioinformaticsonline.com/poll/view/27279/do-you-think-its-important-for-everyone-to-pass-binc-exam</link>
	<title><![CDATA[Do you think it's important for everyone to pass BINC exam?]]></title>
	<description><![CDATA[<p><span>The Department of Biotechnology (DBT), Government of India has instituted BINC examination with the objective of evaluating the Bioinformatics knowledge &amp; skills of students. Do you think it is important ?</span></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/file/view/27316/sample-binc-question-paper-2016-part1</guid>
	<pubDate>Fri, 13 May 2016 03:41:48 -0500</pubDate>
	<link>https://bioinformaticsonline.com/file/view/27316/sample-binc-question-paper-2016-part1</link>
	<title><![CDATA[Sample BINC question paper 2016 - part1]]></title>
	<description><![CDATA[<p>Please download the sample bioinformatics question paper for BINC 2016</p>]]></description>
	<dc:creator>Radha Agarkar</dc:creator>
	<enclosure url="https://bioinformaticsonline.com/file/download/27316" length="40276" type="application/pdf" />
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/27331/andi</guid>
	<pubDate>Fri, 13 May 2016 05:16:35 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/27331/andi</link>
	<title><![CDATA[Andi]]></title>
	<description><![CDATA[<p>This is the <code>andi</code> program for estimating the evolutionary distance between closely related genomes. These distances can be used to rapidly infer phylogenies for big sets of genomes. Because <code>andi</code> does not compute full alignments, it is so efficient that it scales even up to thousands of bacterial genomes.</p>
<p>This readme covers all necessary instructions for the impatient to get <code>andi</code> up and running. For extensive instructions please consult the <a href="https://github.com/EvolBioInf/andi/blob/master/andi-manual.pdf">manual</a>.</p>
<p>More at https://github.com/evolbioinf/andi/</p><p>Address of the bookmark: <a href="http://bioinformatics.oxfordjournals.org/content/early/2015/01/13/bioinformatics.btu815.full" rel="nofollow">http://bioinformatics.oxfordjournals.org/content/early/2015/01/13/bioinformatics.btu815.full</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/27475/polyphen-2-prediction-of-functional-effects-of-human-nssnps</guid>
	<pubDate>Mon, 23 May 2016 02:27:25 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/27475/polyphen-2-prediction-of-functional-effects-of-human-nssnps</link>
	<title><![CDATA[PolyPhen-2: Prediction of functional effects of human nsSNPs]]></title>
	<description><![CDATA[<p><strong>PolyPhen-2</strong> (<strong>Poly</strong>morphism <strong>Phen</strong>otyping v<strong>2</strong>) is a tool which predicts possible impact of an amino acid substitution on the structure and function of a human protein using straightforward physical and comparative considerations.</p><p>Address of the bookmark: <a href="http://genetics.bwh.harvard.edu/pph2/" rel="nofollow">http://genetics.bwh.harvard.edu/pph2/</a></p>]]></description>
	<dc:creator>Anjana</dc:creator>
</item>

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