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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/27839?offset=1500</link>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/22393/narcis-fernandez-fuentes-lab</guid>
  <pubDate>Mon, 25 May 2015 07:30:00 -0500</pubDate>
  <link></link>
  <title><![CDATA[Narcis Fernandez-Fuentes Lab]]></title>
  <description><![CDATA[
<p>Welcome to our web-site compiling all the research-related activities of the group. Our research interests relate to a number of areas within Bioinformatics. We have a long-standing interest in protein structure prediction and structure-to-function relationships. We work in the study of biomolecular interactions, modeling of protein complexes, the study and characterization of protein-protein interactions, peptide design, modeling of genetic variation, structure-based protein design and different aspects of Plant Bioinformatics. Take a look at the our databases and servers and the list of publications for more information.</p>

<p>More at http://www.bioinsilico.org/</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41920/liftoff-an-accurate-tool-that-maps-annotations-in-gff-or-gtf-between-assemblies</guid>
	<pubDate>Tue, 30 Jun 2020 21:40:52 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41920/liftoff-an-accurate-tool-that-maps-annotations-in-gff-or-gtf-between-assemblies</link>
	<title><![CDATA[Liftoff: an accurate tool that maps annotations in GFF or GTF between assemblies]]></title>
	<description><![CDATA[<p><span>&nbsp;Liftoff, an accurate tool that maps annotations in GFF or GTF between assemblies of the same, or closely-related species. Unlike current coordinate lift-over tools which require a pre-generated &ldquo;chain&rdquo; file as input, Liftoff is a standalone tool that takes two genome assemblies and a reference annotation as input and outputs an annotation of the target genome.&nbsp;</span></p><p>Address of the bookmark: <a href="https://github.com/agshumate/Liftoff" rel="nofollow">https://github.com/agshumate/Liftoff</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/22431/genomic-scientist-at-udsc</guid>
  <pubDate>Thu, 28 May 2015 19:14:23 -0500</pubDate>
  <link></link>
  <title><![CDATA[Genomic Scientist at UDSC]]></title>
  <description><![CDATA[
<p>Centre for Genetic Manipulation of Crop Plants</p>

<p>Department of Genetics</p>

<p>University of Delhi South Campus</p>

<p>NEW DELHI – 110 021</p>

<p>WALK-IN-INTERVIEW FOR THE TEMPORARY POSITIONS OF RESEACH SCIENTIT &amp; LAB / FIELD ATTENDANT</p>

<p>1 Research Scientist (RS) – 3</p>

<p>    DBT, Ph. D.</p>

<p>    Experience on DNA Markers, plant genome mapping and bioinformatics</p>

<p>    Salary: 60,000 (Consolidated) + 5% annual increment</p>

<p>    Date and time: 25.06.2015 at 10:30 AM</p>

<p>These temporary positions have been sanctioned in a DBT funded project for the Phase II on ‘Centre of Excellence on genome mapping and molecular breeding of Brassicas.’</p>

<p>The applicants are requested to register their names on the day of interview in the First Floor, Biotech Centre, Centre for Genetic Manipulation of Crop Plants, Department of Genetics before the stipulated time for the interview. Only the registered eligible candidates will be interviewed on the day in the Committee Room.</p>

<p>Applicants are requested to bring all related documents, in original and a set of photocopy, for verification.</p>

<p>No TA/DA will be paid for attending the interview.</p>

<p>Advertisement:</p>

<p>www.du.ac.in/du/index.php?mact=News,cntnt01,detail,0&amp;cntnt01articleid=5492&amp;cntnt01returnid=83</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/42354/vsfilt-a-tool-to-improve-virtual-screening-by-structural-filtration-of-docking-poses</guid>
	<pubDate>Wed, 25 Nov 2020 02:39:16 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/42354/vsfilt-a-tool-to-improve-virtual-screening-by-structural-filtration-of-docking-poses</link>
	<title><![CDATA[vsFilt: A tool to improve virtual screening by structural filtration of docking poses]]></title>
	<description><![CDATA[<p><span>The vsFilt is the first open application for post-docking structural filtration, available as a web-server. The new tool is easy to use and configure to detect a wide range of interaction types that are known to be involved in molecular recognition, including hydrogen and halogen bonds, ionic interactions, hydrophobic contacts, &pi;-stacking, and cation-&pi; interactions. The web-server can process large libraries of up to 150&rsquo;000 docked ligand poses. The results are web-based and can be operated on-line using the built-in HTML5 interactive analysis tools, or can be downloaded for a local use. The vsFilt is freely available on-line, no login required.</span></p><p>Address of the bookmark: <a href="https://biokinet.belozersky.msu.ru/vsfilt" rel="nofollow">https://biokinet.belozersky.msu.ru/vsfilt</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/22432/walk-ins-for-jrf-ans-srf-post-in-assam-agricultural-university</guid>
  <pubDate>Thu, 28 May 2015 19:16:47 -0500</pubDate>
  <link></link>
  <title><![CDATA[Walk-ins for JRF ans SRF post in Assam Agricultural University]]></title>
  <description><![CDATA[
<p>Distributed Information Centre<br />Department of Agricultural Biotechnology<br />Assam Agricultural University<br />Jorhat – 785 013<br />Walk-in interview</p>

<p>(ABT/DIC/01/2014 (No. AAU/ABT/DIT/Advt. 01/2015/111 Dtd. 19-05-2015)</p>

<p>Walk in interview for the following position will be held on 6th June, 2015 at 10.00AM in the Office Chamber of the undersigned. Candidates may appear for the interview with bio-data, reprints / publication / thesis etc and passport size photographs, original and attested copies of all testimonials etc, which must be presented at the time of interview. The applicants may submit their resume in advance tomkmodi@aau.ac.in.</p>

<p>Research Associate</p>

<p>    Ph.D. in Biotechnology/ Bioinformatics. Or</p>

<p>    Masters degree in Biotechnology/Bioinformatics with minimum 3(three) years research experience</p>

<p>    Desirable : Experience in Bioinformatics as evidenced from published research</p>

<p>    Rs 36,000+HRA for the 1st two years and 38,000+HRA for the 3rd year.</p>

<p>Senior Research Fellow</p>

<p>    Master Degree in Biotechnology/ Bioinformatics. With 2 (two) years  Experience in Bioinformatics as evidenced from Course work/ Diploma/Published research</p>

<p>    Rs 28,000+HRA for NET qualified candidate/Professional degree holder</p>

<p>    Rs 18,000+HRA for non-NET qualified general degree holder</p>

<p>Junior Research Fellow</p>

<p>    Master Degree in Biotechnology/ Bioinformatics/Computer Science/Computer Application</p>

<p>    Desirable: Experience in Bioinformatics as evident from Course work/ Diploma/Published research</p>

<p>    Rs 25,000+HRA for NET qualified candidate/Professional degree holder</p>

<p>    Rs 16,000+HRA for non-NET qualified general degree holder</p>

<p>Note: Term and conditions will be as per the DBT, Govt of India guidelines.</p>

<p>Advertisement: http://14.139.222.145/classified/biotech46.html</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43263/jumbodb-tool-for-de-bruijn-graph-construction</guid>
	<pubDate>Tue, 17 Aug 2021 13:33:46 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43263/jumbodb-tool-for-de-bruijn-graph-construction</link>
	<title><![CDATA[JumboDB: tool for de Bruijn graph construction]]></title>
	<description><![CDATA[<p><span>jumboDB tool for fast de Bruijn graph construction from long sequences (reads or genomes) with very low error rate. JumboDB is not a genome assembler by itself but rather a subroutine that translates a set of reads into compressed de Bruijn graph.</span></p>
<p><span>More at&nbsp;https://github.com/AntonBankevich/jumboDB</span></p><p>Address of the bookmark: <a href="https://github.com/AntonBankevich/jumboDB" rel="nofollow">https://github.com/AntonBankevich/jumboDB</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/22512/srf-post-in-nehu-shillong</guid>
  <pubDate>Wed, 03 Jun 2015 13:15:38 -0500</pubDate>
  <link></link>
  <title><![CDATA[SRF post in NEHU, Shillong]]></title>
  <description><![CDATA[
<p>Dept of Biochemistry <br />North-Eastern Hill University<br />(A University with Potential for Excellence) <br />Umshing, Shillong- 793 022</p>

<p>Applications are invited for the post of Senior Research Fellow- SRF (1) and Junior Research Fellow- JRF (1) to be appointed in a SERB-funded major research project entitled “Biochemical and functional properties of Synechocystis Glutathione S-transferase(s)” sanctioned to Dr. Timir Tripathi, Molecular and Structural Biophysics Laboratory, Department of Biochemistry, NEHU, Shillong. </p>

<p>Essential Qualifications: For both positions M.Sc. or equivalent with a good academic record is a prerequisite. </p>

<p>For Project-SRF, experience in bioinformatics/computational biology is required, which should be evident by atleast one good publication. </p>

<p>For JRF position, freshers can also apply. </p>

<p>Stipend: As per SERB norms. </p>

<p>Interested students can email their detailed bio-data including mobile number and recent photograph to msb.biochem@gmail.com, latest by 20.06.15. The hard copy is not required. The date of interview will be informed after primary scrutiny of the applications. No TA/DA will be paid if called for interview. For details of the research work of the PI’s group kindly visit www.ttripathi.webs.com</p>

<p>Advertisement: http://www.nehu.ac.in/Advertisements/BiochemSERB_Advt_020615.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/44483/baclife-an-automated-genome-mining-tool-for-identification-of-lifestyle-associated-genes</guid>
	<pubDate>Fri, 15 Mar 2024 04:59:14 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/44483/baclife-an-automated-genome-mining-tool-for-identification-of-lifestyle-associated-genes</link>
	<title><![CDATA[bacLIFE: an automated genome mining tool for identification of lifestyle associated genes]]></title>
	<description><![CDATA[<p style="margin-top: 0px; margin-bottom: 16px; color: #1f2328; font-size: 16px; font-style: normal; font-weight: 400; text-align: start; background-color: #ffffff;" dir="auto">bacLIFE is a streamlined computational workflow that annotates bacterial genomes and performs large-scale comparative genomics to predict bacterial lifestyles and to pinpoint candidate genes, denominated<span>&nbsp;</span><strong style="font-weight: var(--base-text-weight-semibold, 600);">lifestyle-associated genes (LAGs)</strong>, and biosynthetic gene clusters associated with each lifestyle detected. This whole process is divided into different modules:</p>
<ul style="margin-top: 0px; margin-bottom: 16px; color: #1f2328; font-size: 16px; font-style: normal; font-weight: 400; text-align: start; background-color: #ffffff;" dir="auto">
<li><strong style="font-weight: var(--base-text-weight-semibold, 600);">Clustering module</strong><span>&nbsp;</span>Predicts, clusters and annotates the genes of every input genome</li>
<li style="margin-top: 0.25em;"><strong style="font-weight: var(--base-text-weight-semibold, 600);">Lifestyle prediction</strong><span>&nbsp;</span>Employs a machine learning model to forecast bacterial lifestyle or other specified metadata</li>
<li style="margin-top: 0.25em;"><strong style="font-weight: var(--base-text-weight-semibold, 600);">Analitical module (Shiny app)</strong><span>&nbsp;</span>Results from the previous modules are embedded in a user-friendly interface for comprehensive and interactive comparative genomics.</li>
</ul>
<p style="margin-top: 0px; margin-bottom: 16px; color: #1f2328; font-size: 16px; font-style: normal; font-weight: 400; text-align: start; background-color: #ffffff;" dir="auto">You can find the complete wiki here [<a href="https://github.com/Carrion-lab/bacLIFE/wiki/bacLIFE-wiki">https://github.com/Carrion-lab/bacLIFE/wiki/bacLIFE-wiki</a>]</p><p>Address of the bookmark: <a href="https://github.com/Carrion-lab/bacLIFE" rel="nofollow">https://github.com/Carrion-lab/bacLIFE</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/22569/reverse-complement-problem-solved-with-perl</guid>
	<pubDate>Tue, 09 Jun 2015 23:37:23 -0500</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/22569/reverse-complement-problem-solved-with-perl</link>
	<title><![CDATA[Reverse Complement Problem Solved with Perl]]></title>
	<description><![CDATA[<p>Question at http://rosalind.info/problems/1b/</p><p>#Find the reverse complement of a DNA string.<br />#Given: A DNA string Pattern.<br />#Return: Pattern, the reverse complement of Pattern.<br /><br />use strict;<br />use warnings;<br /><br />my $string="AAAACCCGGT";<br />my $finalString="";<br />my %hash = (<br />&nbsp;&nbsp; &nbsp;"C" =&gt; "G", <br />&nbsp;&nbsp; &nbsp;"A" =&gt; "T", <br />&nbsp;&nbsp; &nbsp;"T" =&gt; "A", <br />&nbsp;&nbsp; &nbsp;"G" =&gt; "C",<br />);<br /><br />for (my $aa=0; $aa&lt;=(length($string)-1); $aa++) {<br />&nbsp;&nbsp; &nbsp;my $char=substr $string, $aa, 1;<br />&nbsp;&nbsp; &nbsp;#print $hash{$char};<br />&nbsp;&nbsp; &nbsp;$finalString="$hash{$char}"."$finalString";<br />}<br /><br />print $finalString;<br />print "\n";</p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/44508/a-web-based-tool-for-sequence-alignment-statistics-and-innovative-visualization</guid>
	<pubDate>Thu, 04 Apr 2024 01:44:50 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/44508/a-web-based-tool-for-sequence-alignment-statistics-and-innovative-visualization</link>
	<title><![CDATA[A web-based tool for sequence alignment statistics and innovative visualization]]></title>
	<description><![CDATA[<p>AlignStatPlot, a new R package and online tool that is well-documented and easy-to usefor MSA and post-MSA analysis. This tool performs both traditional and cutting-edge analy-ses on sequencing data and generates new visualisation methods for MSA results. Whencompared to currently available tools, AlignStatPlot provides a robust ability to handle andvisualise diversity data, while the online version will save time and encourage researchersto focus on explaining their findings. It is a simple tool that can be used in conjunction withpopulation genetics software (PDF) AlignStatPlot: An R package and online tool for robust sequence alignment statistics and innovative visualization of big data.</p><p>Address of the bookmark: <a href="https://bioinformatics.um6p.ma/AlignStatPlot/" rel="nofollow">https://bioinformatics.um6p.ma/AlignStatPlot/</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
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