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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/28844?offset=1090</link>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/21200/ra-bioinformatics-at-ciba</guid>
  <pubDate>Fri, 13 Feb 2015 11:23:18 -0600</pubDate>
  <link></link>
  <title><![CDATA[RA Bioinformatics at CIBA]]></title>
  <description><![CDATA[
<p>Recruitment The following posts are to be filled purely on temporary basis under CIBA Component of “Centre for Agricultural Bioinformatics (CABin)” project at this Institute.</p>

<p>Posts Research Associate</p>

<p>Date &amp; Time of Interview 18th Feb 2015 at 10.00 a.m.</p>

<p>Project Name “Centre for Agricultural Bioinformatics (CABin)”</p>

<p>Duration 12th Plan (2012-2017) / co-terminus with the project 12th Plan (2012-2017) / co-terminus with the project</p>

<p>Essential Qualification Ph.d / M.Sc./ M.Phil (Bioinformatics) With 1st division or 60% marks or equivalent overall grade point average with at least two years of research experience in the relevant subject.</p>

<p>Technician</p>

<p>B.Tech. or Master degree in computer science/Computer Engineering /MCA or equivalent. Desirable qualification: Experience in Java/ C++/ PHP/ PERL/ Python etc. based application development using Linux, Apache and MySQL/Oracle.</p>

<p>Emoluments Rs.24000/- p.m. + 30% HRA for Ph.D holders / Rs.23000/- p.m. + 30% HRA for Master Degree holders A consolidated pay Rs.25000/- per month.</p>

<p>Age Limit Maximum 40 years for men and 45 years for women as on date of interview.</p>

<p>Age limits are relaxable for SC / ST / OBC candidates as per rules.</p>

<p>Maximum 40 years for men and 45 years for women as on date of interview.</p>

<p>Age limits are relaxable for SC / ST / OBC candidates as per rules.</p>

<p>Eligible Candidates may send their Curriculum Vitae along with the contact numbers to ashok@ciba.res.in on or before 13-02-2015.</p>

<p>Candidates selected after initial screening will be called for interview.</p>

<p>Advertisement: www.ciba.res.in/attachments/jobs/CABin-3006.pdf</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34246/unicycler-hybrid-assembly-pipeline-for-bacterial-genomes</guid>
	<pubDate>Fri, 10 Nov 2017 03:58:27 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34246/unicycler-hybrid-assembly-pipeline-for-bacterial-genomes</link>
	<title><![CDATA[Unicycler: Hybrid assembly pipeline for bacterial genomes]]></title>
	<description><![CDATA[<p><span>Unicycler is an assembly pipeline for bacterial genomes. It can assemble&nbsp;</span><a href="http://www.illumina.com/">Illumina</a><span>-only read sets where it functions as a&nbsp;</span><a href="http://cab.spbu.ru/software/spades/">SPAdes</a><span>-optimiser. It can also assembly long-read-only sets (</span><a href="http://www.pacb.com/">PacBio</a><span>&nbsp;or&nbsp;</span><a href="https://nanoporetech.com/">Nanopore</a><span>) where it runs a&nbsp;</span><a href="https://github.com/lh3/miniasm">miniasm</a><span>+</span><a href="https://github.com/isovic/racon">Racon</a><span>&nbsp;pipeline. For the best possible assemblies, give it both Illumina reads&nbsp;</span><em>and</em><span>&nbsp;long reads, and it will conduct a hybrid assembly.</span></p><p>Address of the bookmark: <a href="https://github.com/rrwick/Unicycler" rel="nofollow">https://github.com/rrwick/Unicycler</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/20677/postdoctoral-researcher-at-department-of-biotechnology-catholic-university-of-daegu-kyungsan-kyungbuk-south-korea</guid>
  <pubDate>Thu, 29 Jan 2015 12:11:16 -0600</pubDate>
  <link></link>
  <title><![CDATA[Postdoctoral Researcher at Department of Biotechnology, Catholic University of Daegu, Kyungsan, Kyungbuk, South Korea.]]></title>
  <description><![CDATA[
<p>Applications are invited from Indian nationals for a Post Doctoral position at Molecular Medical Laboratory, Department of Biotechnology, Catholic University of Daegu, Kyungsan, Kyungbuk, South Korea.</p>

<p>Qualification required: PhD in Life Sciences/ Molecular Biology/ Bioinformatics or related discipline.</p>

<p>Desirable Qualification:</p>

<p>1. Candidates having experience in molecular biology techniques and must be well versed with bioinformatics tool or expert in relevant fields will be preferred.<br />2. The candidate should have good communication skill, knowledge about designing experiments and analyzing data.<br />3. Sense of initiative, autonomy, organization and thoroughness, good relation qualities.<br />Remuneration: 2000USD per month.</p>

<p>Last date of submitting the complete applications furnishing Bio-data is 10th February, 2015.</p>

<p>Interested candidates should send their resume including all personal as well as academic details to the principal investigator Prof Seung-Won Park (email:microsw@cu.ac.kr)</p>

<p>The shortlisted candidates will be intimated within February 2015.</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34931/3d-dna-3d-de-novo-assembly-3d-dna-pipeline</guid>
	<pubDate>Thu, 28 Dec 2017 10:09:37 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34931/3d-dna-3d-de-novo-assembly-3d-dna-pipeline</link>
	<title><![CDATA[3d-dna: 3D de novo assembly (3D DNA) pipeline]]></title>
	<description><![CDATA[<p>This code is designed to enable anyone to reproduce the Hs2-HiC and the AaegL4 genomes reported in:&nbsp;<a href="http://science.sciencemag.org/content/early/2017/03/22/science.aal3327.full">Dudchenko et al., De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds. Science, 2017.</a></p>
<p>Unless otherwise noted, all terminology below is consistent with this paper, and all references to figures and tables in this readme refer to this paper. Specifically, some of the terminology used below is outlined in&nbsp;<code>Figure S2</code>. The assembly procedure is described in detail in the&nbsp;<a href="http://science.sciencemag.org/content/suppl/2017/03/22/science.aal3327.DC1?_ga=1.9816115.760837492.1490574064">Supporting Online Materials</a>, specifically in the section labelled &ldquo;Pipeline description&rdquo;.</p>
<p>In addition, the pipeline uses tools and methods from&nbsp;<a href="http://www.cell.com/cell-systems/abstract/S2405-4712(16)30219-8">Juicer (Durand &amp; Shamim et al., Cell Systems, 2016)</a>&nbsp;and&nbsp;<a href="http://www.cell.com/cell-systems/abstract/S2405-4712(15)00054-X">Juicebox (Durand &amp; Robinson et al., Cell Systems, 2016)</a>, as well as additional dependencies noted below.</p>
<p>Feel free to post your questions and comments at:&nbsp;<a href="http://www.aidenlab.org/forum.html">http://www.aidenlab.org/forum.html</a></p>
<p>http://aidenlab.org/documentation.html</p><p>Address of the bookmark: <a href="https://github.com/theaidenlab/3d-dna" rel="nofollow">https://github.com/theaidenlab/3d-dna</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/22438/research-associate-nbfgr-lucknow-uttar-pradesh</guid>
  <pubDate>Thu, 28 May 2015 19:37:22 -0500</pubDate>
  <link></link>
  <title><![CDATA[Research Associate NBFGR - Lucknow, Uttar Pradesh]]></title>
  <description><![CDATA[
<p>NBFGR, Lucknow is recruiting Bioinformatics experts for the post of Research Associate</p>

<p>Name of Position : Research Associate<br />No of Post : One<br />Desired candidate Profile : Candidate should be PhD in Bioinformatics or equivalent or Post-Graduation Bioinformatics with 1st division or 60% marks. Preference will be given to candidates having experience in server management<br />Remuneration : Rs 24000/- pm + HRA for PhD holders<br />Age requirement- 40 years (5 years relaxation for SC/ST/women candidates and 3 years for OBC candidates) as on date of interview.</p>

<p>How to apply- Interested candidates can walk -in-interview on 30.05.2015 at 10:00 hrs at National Bureau of Fish Genetic Resources, Lucknow.</p>

<p>Ref- http://www.nbfgr.res.in/PDF/News%20&amp;%20Events/Walk%20in%20interview%20on%2030.05.2015.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38762/katuali-is-a-flexible-consensus-pipeline-implemented-in-snakemake-to-basecall-assemble-and-polish-oxford-nanopore-technologies-sequencing-data</guid>
	<pubDate>Tue, 22 Jan 2019 06:26:55 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38762/katuali-is-a-flexible-consensus-pipeline-implemented-in-snakemake-to-basecall-assemble-and-polish-oxford-nanopore-technologies-sequencing-data</link>
	<title><![CDATA[Katuali is a flexible consensus pipeline implemented in Snakemake to basecall, assemble, and polish Oxford Nanopore Technologies&#039; sequencing data]]></title>
	<description><![CDATA[<ul>
<li>Run a pipeline processing fast5s to a consensus in a single command.</li>
<li>Recommended fixed "standard" and "fast" pipelines.</li>
<li>Interchange basecaller, assembler, and consensus components of the pipelines simply by changing the target filepath.</li>
<li>Seemless distribution of tasks over local or distributed compute.</li>
<li>Highly configurable.</li>
<li>Open source (Mozilla Public License 2.0).</li>
</ul>
<p>Documentation can be found at&nbsp;<a href="https://nanoporetech.github.io/katuali/">https://nanoporetech.github.io/katuali/</a>.</p><p>Address of the bookmark: <a href="https://github.com/nanoporetech/katuali" rel="nofollow">https://github.com/nanoporetech/katuali</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/21021/ra-bioinformatics-at-iiser</guid>
  <pubDate>Fri, 06 Feb 2015 04:05:49 -0600</pubDate>
  <link></link>
  <title><![CDATA[RA Bioinformatics at IISER]]></title>
  <description><![CDATA[
<p>Advertisement: Research Position in Computational Biology in the group of Shree P. Pandey Positions available in the area of NGS data analysis, bioinformatics, plant genomics Project Description: Projects involves high throughput analysis of data mostly generated by massively parallel sequencing (RNA-Seq and small-RNA-Seq), microarrays and related platforms.</p>

<p>We are looking for highly motivated and bright individuals interested in high-throughput cutting-edge data analyses methods in genomics (computational positions). Available positions:</p>

<p>Applications are invited from suitable candidates in both, the Max Planck India Partner Program and the CRP Wheat Program for openings at the levels:</p>

<p>Minimum qualification Salary scale (per month)</p>

<p>Project assistant Bachelor’s / Master’s Rs. 10000 / Rs. 14000</p>

<p>Project fellow (junior data analyst) Masters + research experience Rs. 16000</p>

<p>Research fellow (senior data analyst) Masters + adequate research experience/desirable skill sets Rs. 22000</p>

<p>Research Associated PhD (&lt;1yr) / &gt; 1 yr experience Rs. 28000 / Rs. 32000</p>

<p>Condition to satisfactory performance, availability of funds and requirements of the project, the positions could be available upto a period of ~2 years (or funding of the project).</p>

<p>Essential qualification: MSc/BTech/MTech/PhD (or other suitable qualification) in discipline related to bioinformatics, computational biology, computer application (or equivalent)/ ‘Advance PostGraduate Diploma in Bioinformatics’. Proficiency in one of the programming languages or statistics (proficient in R for example) is compulsory.</p>

<p>Desirable qualification:</p>

<p>1. Programming experiences in at least one low level language such as C/C++ and one scripting language such as Perl/Python/PHP and knowledge of SQL/MySQL.</p>

<p>2. Substantial experience in the linux or other unix environments.</p>

<p>Application process: Applications should contain CV along with brief description (maximum 1 page) of research conducted (highlighting skills and experience) till now. Applications should be sent by email to Shree P. Pandey, Department of Biological Sciences, IISER-Kolkata, Mohanpur Campus, West Bengal within 2 weeks (Feb 19th 2015). E-mail: sppiiserkol@gmail.com, sppandey@iiserkol.ac.in Brief description of the group: We are an interdisciplinary group focusing on small-RNA (miRNA, siRNA) mediated regulation of signaling and defense. Project equally involve bioinformatics and systems biology (specially microarrays and next-generation sequencing (NGS) data analysis and its use), along with plant molecular biology, genetic engineering, field biology, and analytical plant chemistry for understanding response of plants to biotic stresses. For more details visit: http://www.iiserkol.ac.in/~sppandey/</p>

<p>Advertisement:</p>

<p>www.iiserkol.ac.in/images/iiserk/advertisements/advertisement_7_spp_feb_2015.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/40856/3d-de-novo-assembly-3d-dna-pipeline</guid>
	<pubDate>Sun, 02 Feb 2020 13:41:55 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/40856/3d-de-novo-assembly-3d-dna-pipeline</link>
	<title><![CDATA[3D de novo assembly (3D DNA) pipeline]]></title>
	<description><![CDATA[<p>For a detailed description of the pipeline and how it integrates with other tools designed by the Aiden Lab see&nbsp;<a href="http://aidenlab.org/assembly/manual_180322.pdf">Genome Assembly Cookbook</a>&nbsp;on&nbsp;<a href="http://aidenlab.org/assembly">http://aidenlab.org/assembly</a>.</p>
<p>For the original version of the pipeline and to reproduce the Hs2-HiC and the AaegL4 genomes reported in&nbsp;<a href="http://science.sciencemag.org/content/356/6333/92">(Dudchenko et al.,&nbsp;<em>Science</em>, 2017)</a>&nbsp;see the&nbsp;<a href="https://github.com/theaidenlab/3d-dna/tree/745779bdf64db6e55bddb70c24e9b58825938c33">original commit</a>.</p>
<p>For the detailed description of the merge section see&nbsp;<a href="https://github.com/theaidenlab/AGWG-merge">https://github.com/theaidenlab/AGWG-merge</a>.</p><p>Address of the bookmark: <a href="https://github.com/theaidenlab/3d-dna" rel="nofollow">https://github.com/theaidenlab/3d-dna</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/21065/ra-bioinformatics-at-north-eastern-hill-university</guid>
  <pubDate>Sat, 07 Feb 2015 06:06:05 -0600</pubDate>
  <link></link>
  <title><![CDATA[RA Bioinformatics at North Eastern Hill University]]></title>
  <description><![CDATA[
<p>Bioinformatics Infrastructure Facility, Department of RDAP, NEHU vacancy of Research Associate</p>

<p>Name of the Post: Research Associate<br />No. of the Post: 01 One<br />Age Limit: Max. 35 years<br />Salary: Rs. 22000/- per month plus HRA</p>

<p>Required Job Profile:<br />Candidate must possess M.Sc. in bioinformatics or biotechnology from recognized university or institute.<br />Desired Job Profile;<br />Candidate having Ph.D. or pursuing Ph.D. in the related subject or equivalent published work in reputed peer reviewed journals or advance PG dipoma in bioinformatics course.</p>

<p>How to apply:<br />Eligible and interested candidates should need to send the bio-data and bring all related documents in original and set of attested copies of the same in the time of interview.</p>

<p>Last date: 16.02.2015<br />Refer to http://www.nehu.ac.in/Advertisements/BIFTuraAdvt_221214.pdf</p>

<p>Summary <br />Employer Address:	Dr.B.K. Mishra Coordinator BIF, RDAP Department, North Eastern Hill University, Tura Campus, Tura, Meghalaya<br />Email:	drbkm1972@yahoo.co.in;birendramishra14@gmail.com<br />URL:	http://www.nehu.ac.in/Advertisements/BIFTuraAdvt_221214.pdf<br />Phone:	03651-223107<br />Required Skills:	not mentioned / required for this post<br />Required Experience:	not mentioned / required for this job post<br />Required Education:	M.Sc. in bioinformatics or biotechnology from recognized university or institute.<br />Job Location:	Tura, Meghalaya, India</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41998/wgddetector-a-pipeline-for-detecting-whole-genome-duplication-events-using-the-genome-or-transcriptome-annotations</guid>
	<pubDate>Thu, 23 Jul 2020 05:52:56 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41998/wgddetector-a-pipeline-for-detecting-whole-genome-duplication-events-using-the-genome-or-transcriptome-annotations</link>
	<title><![CDATA[WGDdetector: a pipeline for detecting whole genome duplication events using the genome or transcriptome annotations]]></title>
	<description><![CDATA[<p><span>WGDdetector pipeline that integrates all analyses including gene family constructing, dS estimating and phasing, and outputting the dS values of each paralogs pairs processed with only one command. We further chose four species (</span><em>Arabidopsis thaliana</em><span>,<span>&nbsp;</span></span><em>Juglans regia</em><span>,<span>&nbsp;</span></span><em>Populus trichocarpa</em><span><span>&nbsp;</span>and<span>&nbsp;</span></span><em>Xenopus laevis</em><span>) representing herb, wood and animal, to test its practicability. Our final results showed a high degree of accuracy with the previous studies using both genome and transcriptome data.</span></p>
<p><span>More at <a href="https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2670-3">https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2670-3</a></span></p><p>Address of the bookmark: <a href="https://github.com/yongzhiyang2012/wgddetector" rel="nofollow">https://github.com/yongzhiyang2012/wgddetector</a></p>]]></description>
	<dc:creator>LEGE</dc:creator>
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