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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/27323?offset=460</link>
	<atom:link href="https://bioinformaticsonline.com/related/27323?offset=460" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	
<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/18380/jrfsrf-at-university-of-hyderabad</guid>
  <pubDate>Fri, 17 Oct 2014 01:55:44 -0500</pubDate>
  <link></link>
  <title><![CDATA[JRF/SRF at University of Hyderabad]]></title>
  <description><![CDATA[
<p>Applications are invited for the following post of Junior Research Fellow (temporary position coterminous with the project) under DBT funded research project on ““Understanding the functions of α1β1γ1/α2β1γ1 selective AMPK Modulators in dissecting the pharmacological role of these isozymes in metabolic diseases”</p>

<p>Qualified and interested candidates can send their curriculum vitae by e-mail to hr@drils.org on or before 27th October 2014 mention in the subject line of the mail the following code: AMPK-Biology.</p>

<p>Selected candidates will be called for a personal interview to Dr. Reddy’s Institute of Life Sciences, University of Hyderabad Campus, Gachibowli, Hyderabad. The selected candidate is expected to report within two weeks from the date of selection to start work on the project.</p>

<p>Junior Research Fellowship (Molecular Modeling/Biology) for two years and Senior Research fellowship for one year</p>

<p>Junior Research Fellowship: Rs. 15,600/- (consolidated) per month for first two years.<br />Senior Research Fellowship: Rs. 18,200/-(consolidated) per month for the 3rd year.</p>

<p>Duration: The duration of the fellowship is for three years. However, the performance of the candidate will be reviewed after the completion of every year and the fellowship will be renewed only upon satisfactory performance.</p>

<p>Responsibilities:</p>

<p>1) Literature search.<br />2) Design, plan and execute experiments under the supervision of the scientist.<br />3) Provide scientific support to the scientist in his/her research activities.<br />4) Book keeping and maintenance of stocks and consumables.</p>

<p>Essential Qualifications:</p>

<p>Required: M.Sc. in Microbiology/Biotechnology/Bioinformatics or any other related branch of basic Sciences from a recognized university/institute with a consistent academic record of minimum 60% aggregate in all qualifying examinations. The candidate should be NET qualified for lectureship. The candidate should be motivated to work with dedication.</p>

<p>Desirable: expertise/experience in both Molecular Modeling and Molecular Biology.</p>

<p>Experience: 0-2 years in the areas of Molecular Modeling and/or Molecular Biology and cell biology and Biochemistry.</p>

<p>Preferable: Relevant research experience as evident from thesis/dissertation/project work.</p>

<p>Advertisement: http://www.ilsresearch.org/userfiles/Junior%20REsearch%20Fellowship%20-%20AMPK(Biology).pdf</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41673/lr-gapcloser-a-tiling-path-based-gap-closer-that-uses-long-reads-to-complete-genome-assembly</guid>
	<pubDate>Thu, 14 May 2020 15:09:52 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41673/lr-gapcloser-a-tiling-path-based-gap-closer-that-uses-long-reads-to-complete-genome-assembly</link>
	<title><![CDATA[LR_Gapcloser: a tiling path-based gap closer that uses long reads to complete genome assembly]]></title>
	<description><![CDATA[<p>LR_Gapcloser is a gap closing tool using long reads from studied species. The long reads could be downloaed from public read archive database (for instance, NCBI SRA database ) or be your own data. Then they are fragmented and aligned to scaffolds using BWA mem algorithm in BWA package. In the package, we provided a compiled bwa, so the user needn't to install bwa. LR_Gapcloser uses the alignments to find the bridging that cross the gap, and then fills the long read original sequence into the genomic gaps.</p><p>Address of the bookmark: <a href="https://github.com/CAFS-bioinformatics/LR_Gapcloser" rel="nofollow">https://github.com/CAFS-bioinformatics/LR_Gapcloser</a></p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/18580/faculty-positions-at-central-university-of-punjab-bathinda</guid>
  <pubDate>Wed, 22 Oct 2014 10:45:37 -0500</pubDate>
  <link></link>
  <title><![CDATA[Faculty Positions at CENTRAL UNIVERSITY OF PUNJAB, BATHINDA]]></title>
  <description><![CDATA[
<p>Advertisement No. T/NT-01 (2014)</p>

<p>Faculty Positions<br />The Central University of Punjab (CUP), Bathinda will be having the Schools and Departments as given in Table-I. The University invites applications from eligible candidates for the posts of Professors (Pay Band Rs. 37400-67000 with AGP of Rs. 10, 000/-), Associate Professors (Pay Band Rs.37400-67000 with AGP of Rs. 9,000/-) and Assistant Professors (Pay Band Rs.15600-39100 with AGP of Rs. 6,000/-)</p>

<p>POSITION AVAILABLE IN THE AREA OF SPECIALIZTION</p>

<p>3. Bioinformatics,</p>

<p>Procedure to apply: Application forms along with API form complete in all respect along with necessary documents and application fee of Rs. 750/-. (Rs. 250/- for Scheduled Caste/Scheduled Tribe/Person with disabilities) should be sent to:</p>

<p>Registrar (Officiating)<br />Central University of Punjab<br />City Campus, Mansa Road<br />Bathinda-151 001</p>

<p>Application forms from the prospective candidates are accepted upto November 10, 2014.</p>

<p>Based on the qualification of the candidates and the need of the university, the applications received will be processed through appropriately constituted selection committees shortly. Minimum qualification can be relaxed in case of exceptionally outstanding candidate. For further details visit www.cup.ac.in; www.centralunipunjab.com; www.cup.edu.in</p>

<p>The candidate should download the application form available at website www.cup.ac.in;<br />www.centralunipunjab.com; and submit it complete in all respects on or before 10th November 2014.</p>

<p>Those who have applied earlier need to submit Academic Performance Index (API) form, 5 copies of Summary of the Application Form (available at: www.cup.ac.in; www.centralunipunjab.com and Updated CV if not updated recently (without application fee).</p>

<p>http://cup.edu.in/Faculty_details_and_general_instructions.pdf</p>

<p>http://cup.edu.in/Final%20Application%20and%20summary%20Sheet%20and%20Api%20form.pdf</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/37737/rebaler-program-for-conducting-reference-based-assemblies-using-long-reads</guid>
	<pubDate>Tue, 18 Sep 2018 07:52:41 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/37737/rebaler-program-for-conducting-reference-based-assemblies-using-long-reads</link>
	<title><![CDATA[Rebaler: program for conducting reference-based assemblies using long reads.]]></title>
	<description><![CDATA[<p>Rebaler is a program for conducting reference-based assemblies using long reads. It relies mainly on&nbsp;<a href="https://github.com/lh3/minimap2">minimap2</a>&nbsp;for alignment and&nbsp;<a href="https://github.com/isovic/racon">Racon</a>&nbsp;for making consensus sequences.</p>
<p>I made Rebaler for bacterial genomes (specifically for the task of&nbsp;<a href="https://github.com/rrwick/Basecalling-comparison">testing basecallers</a>). It should in principle work for non-bacterial genomes as well, but I haven't tested it.</p><p>Address of the bookmark: <a href="https://github.com/rrwick/Rebaler" rel="nofollow">https://github.com/rrwick/Rebaler</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19020/jrf-in-bioinformatics-bioinformatics-centre-north-eastern-hill-university</guid>
  <pubDate>Thu, 06 Nov 2014 10:24:05 -0600</pubDate>
  <link></link>
  <title><![CDATA[JRF in Bioinformatics @ Bioinformatics Centre, North-Eastern Hill University]]></title>
  <description><![CDATA[
<p>Applications with complete bio-data are invited for JRF (3) and Project Assistant (1) in a DBT project "Next Generation Sequencing (NGS)-based de novo assembly of expressed transcripts and genome information of Orchids in North-East India" sanctioned for a period of 3 years.</p>

<p>Details are available at www.nehu.ac.in and www.bicnehu.ac.in.</p>

<p>Applications must reach the undersigned within 15 days from the date of publication of this advertisement.</p>

<p>Prof. Pramod Tandon. PI/Mr. Devendra Kumar Biswal (Co-PI)</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38299/deepbinner-a-signal-level-demultiplexer-for-oxford-nanopore-reads</guid>
	<pubDate>Tue, 27 Nov 2018 03:38:49 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38299/deepbinner-a-signal-level-demultiplexer-for-oxford-nanopore-reads</link>
	<title><![CDATA[Deepbinner: a signal-level demultiplexer for Oxford Nanopore reads]]></title>
	<description><![CDATA[<p>Deepbinner is a tool for demultiplexing barcoded&nbsp;<a href="https://nanoporetech.com/">Oxford Nanopore</a>&nbsp;sequencing reads. It does this with a deep&nbsp;<a href="https://adeshpande3.github.io/adeshpande3.github.io/A-Beginner's-Guide-To-Understanding-Convolutional-Neural-Networks/">convolutional neural network</a>&nbsp;classifier, using many of the&nbsp;<a href="https://towardsdatascience.com/neural-network-architectures-156e5bad51ba">architectural advances</a>&nbsp;that have proven successful in image classification. Unlike other demultiplexers (e.g. Albacore and&nbsp;<a href="https://github.com/rrwick/Porechop">Porechop</a>), Deepbinner identifies barcodes from the raw signal (a.k.a. squiggle) which gives it greater sensitivity and fewer unclassified reads.</p>
<ul>
<li><span>Reasons to use Deepbinner</span>:
<ul>
<li>To minimise the number of unclassified reads (use Deepbinner by itself).</li>
<li>To minimise the number of misclassified reads (use Deepbinner in conjunction with Albacore demultiplexing).</li>
<li>You plan on running signal-level downstream analyses, like&nbsp;<a href="https://github.com/jts/nanopolish">Nanopolish</a>. Deepbinner can&nbsp;<a href="https://github.com/rrwick/Deepbinner#using-deepbinner-before-basecalling">demultiplex the fast5 files</a>which makes this easier.</li>
</ul>
</li>
<li><span>Reasons to&nbsp;<em>not</em>&nbsp;use Deepbinner</span>:
<ul>
<li>You only have basecalled reads not the raw fast5 files (which Deepbinner requires).</li>
<li>You have a small/slow computer. Deepbinner is more computationally intensive than&nbsp;<a href="https://github.com/rrwick/Porechop">Porechop</a>.</li>
<li>You used a sequencing/barcoding kit other than&nbsp;<a href="https://github.com/rrwick/Deepbinner/blob/master/models">the ones Deepbinner was trained on</a>.</li>
</ul>
</li>
</ul><p>Address of the bookmark: <a href="https://github.com/rrwick/Deepbinner" rel="nofollow">https://github.com/rrwick/Deepbinner</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/19087/dcgor</guid>
	<pubDate>Sat, 08 Nov 2014 14:54:28 -0600</pubDate>
	<link>https://bioinformaticsonline.com/news/view/19087/dcgor</link>
	<title><![CDATA[dcGOR]]></title>
	<description><![CDATA[<p>An R package for analysing ontologies and protein domain annotations has been published in PLoS Computational Biology (http://dx.doi.org/10.1371/journal.pcbi.1003929). The package is distributed as part of CRAN (http://cran.r-project.org/package=dcGOR), and also at GitHub for version control.<br /><br />The dedicated website is available in http://supfam.org/dcGOR, from which several demos are also provided:<br /><br />1. Analysing SCOP domains: http://supfam.org/dcGOR/demo-Fang.html<br /><br />2. Analysing Pfam domains: http://supfam.org/dcGOR/demo-Basu.html<br /><br />3. Analysing InterPro domains: http://supfam.org/dcGOR/demo-Customisation.html<br /><br />&nbsp;</p>]]></description>
	<dc:creator>Martin Jones</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38892/wtdbg2-a-fuzzy-bruijn-graph-approach-to-long-noisy-reads-assembly</guid>
	<pubDate>Mon, 04 Feb 2019 04:53:47 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38892/wtdbg2-a-fuzzy-bruijn-graph-approach-to-long-noisy-reads-assembly</link>
	<title><![CDATA[wtdbg2: A fuzzy Bruijn graph approach to long noisy reads assembly]]></title>
	<description><![CDATA[<p><span>Wtdbg2 is a&nbsp;</span><em>de novo</em><span>&nbsp;sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ONT). It assembles raw reads without error correction and then builds the consensus from intermediate assembly output.&nbsp;</span></p>
<pre>./wtdbg2 -x rs -g 4.6m -t 16 -i reads.fa.gz -fo prefix
./wtpoa-cns -t 16 -i prefix.ctg.lay.gz -fo prefix.ctg.fa</pre><p>Address of the bookmark: <a href="https://github.com/ruanjue/wtdbg2" rel="nofollow">https://github.com/ruanjue/wtdbg2</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19162/icgeb-bioinformatics-rasrfjrf-vacancies</guid>
  <pubDate>Thu, 13 Nov 2014 13:39:30 -0600</pubDate>
  <link></link>
  <title><![CDATA[ICGEB Bioinformatics RA/SRF/JRF Vacancies]]></title>
  <description><![CDATA[
<p>Research Associate/JRF/SRF position, DBT Sponsored Bioinformatics Infrastructure Facility</p>

<p>Applicants should hold a PhD or a first class MSc/MTech degree in Bioinformatics of Biotechnology/Life Sciences; experience in using bioinformatics tools, working in Linux and knowledge of computer network administration.</p>

<p>Submit CV and letter of interest by email to: Dr. Dinesh Gupta atdinesh@icgeb.res.in</p>
]]></description>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19540/niab-molecular-biologybioinformatics-scientistra-openings</guid>
  <pubDate>Fri, 12 Dec 2014 21:08:47 -0600</pubDate>
  <link></link>
  <title><![CDATA[NIAB Molecular Biology/Bioinformatics Scientist/RA Openings]]></title>
  <description><![CDATA[
<p>D. No. 1-121/1, 4th and 5th Floors, Axis Clinicals Building, Miyapur, Hyderabad, Telangana, India- 500 049</p>

<p>Email: admin@niab.org.in Telephones: +91 40 2304 9403 Telefax: +91 40 2304 2740<br />Advertisement No: 5/2014</p>

<p>About NIAB National Institute of Animal Biotechnology (NIAB), Hyderabad, an autonomous institute under the aegis of Department of Biotechnology, Government of India, is aimed to harness novel and emerging biotechnologies and create knowledge in the cutting edge areas for improving animal health and productivity.</p>

<p>Applications are invited for the following temporary research positions to work in ongoing DBTBBSRC sponsored research project entitled “Transcriptome Analysis in Indian buffalo and the Genetics of Innate Immunity” at the National Institute of Animal Biotechnology, Hyderabad.</p>

<p>(A) Project Scientist – Level B (One Position)</p>

<p>Emoluments: Rs. 15600 + GP Rs. 5400 + 30 % HRA p.m. (Total emoluments will be Rs. 49,770/-p.m. for the duration of the project)</p>

<p>Essential Qualification: Candidates having M.V.Sc. in Veterinary Microbiology / Veterinary Pathology / Veterinary Public Health / Ph.D. degree in Life Sciences, Biotechnology, Molecular Biology or any other related field from the recognized university are eligible to apply.</p>

<p>The candidate should have a good academic record and research experience as evidenced from published in standard referred journals / patents.</p>

<p>Desirable: Candidates having research experience in the area of tissue culture, genomics, Transcriptomics and Advanced Molecular Biology will be given preference.</p>

<p>Age Limit: Not exceeding 30 years as on last date of the submission of the application.</p>

<p>(B) Research Associate in Bioinformatics (One position)</p>

<p>Fellowship: Rs. 22,000 + 30 % HRA</p>

<p>Essential Qualification: Candidates having Ph.D. degree or M.Tech. with three years of<br />experience in Bioinformatics, Computational Biology, Biotechnology, Life Sciences or any other related field are eligible to apply.</p>

<p>Desirable: Candidate having research experience in the area of next generation sequencing (NGS) data analysis, Genome wide association studies, Genomic selection, advance genomic data analysis etc., will be given preference. The candidate should have a good academic record and research experience as evidenced from published papers in standard journals / patents.</p>

<p>Age Limit: Not exceeding 30 years as on last date of the submission of the application.</p>

<p>Project Duration: The duration of the project is Three years and the positions are co- terminus with the duration of the project. (Initial appointment will be for one year and further extension will be granted based on annual review).</p>

<p>Mode of submission of application: Only online applications are to be submitted through<br />www.niab.org.in on or before 08 December, 2014. Link for online submission of applications will be available from 10 November 2014.</p>

<p>Advertisement: www.niab.org.in/Notifications/Advt_5_2014/Advt_5_2014.pdf</p>
]]></description>
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