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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/30104?offset=490</link>
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	<description><![CDATA[]]></description>
	
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38561/hawkeye-an-interactive-visual-analytics-tool-for-genome-assemblies</guid>
	<pubDate>Tue, 01 Jan 2019 11:56:17 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38561/hawkeye-an-interactive-visual-analytics-tool-for-genome-assemblies</link>
	<title><![CDATA[Hawkeye: an interactive visual analytics tool for genome assemblies]]></title>
	<description><![CDATA[<p><span>Genome sequencing remains an inexact science, and genome sequences can contain significant errors if they are not carefully examined. Hawkeye is our new visual analytics tool for genome assemblies, designed to aid in identifying and correcting assembly errors. Users can analyze all levels of an assembly along with summary statistics and assembly metrics, and are guided by a ranking component towards likely mis-assemblies. Hawkeye is freely available and released as part of the open source AMOS project&nbsp;</span><span><a href="http://amos.sourceforge.net/hawkeye"><span>http://amos.sourceforge.net/hawkeye</span></a></span><span>.</span></p>
<p>https://genomebiology.biomedcentral.com/articles/10.1186/gb-2007-8-3-r34</p><p>Address of the bookmark: <a href="http://amos.sourceforge.net/wiki/index.php?title=Hawkeye" rel="nofollow">http://amos.sourceforge.net/wiki/index.php?title=Hawkeye</a></p>]]></description>
	<dc:creator>Abhimanyu Singh</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/17188/jamia-hamdard-bioinformatics-faculty-jobs-2014</guid>
  <pubDate>Sat, 20 Sep 2014 21:00:05 -0500</pubDate>
  <link></link>
  <title><![CDATA[JAMIA HAMDARD Bioinformatics Faculty Jobs 2014]]></title>
  <description><![CDATA[
<p>JAMIA HAMDARD</p>

<p>(Deemed University)</p>

<p>Hamdard Nagar, New Delhi – 110 062</p>

<p>R E C R U I T M E N T</p>

<p>(Advertisement No. 5/2014)</p>

<p>Applications on prescribed form are invited for filling up the following teaching positions in the Department of Biotechnology, Faculty of Science in the university. Eligible candidates may apply on or before 30.09.2014.</p>

<p>1. Professor/Associate Professor - One in Pay Band of Rs. 37400-67000+ AGP Rs.10000/9000</p>

<p>2. Assistant Professor                   -  Two in Pay Band of Rs. 15600-39100+ AGP Rs. 6000/-</p>

<p>ASSISTANT PROFESSOR – 02 (including 01 SFS)</p>

<p>Specialization : Bioinformatics</p>

<p>Qualification and Experience :</p>

<p>Ph.D. in Biotechnology or an allied discipline with M.Sc. in Biotechnology/ Biochemistry in the First division or equivalent grade from a recognized University/ Institute.</p>

<p>NET in Life Science or allied discipline in addition to the above qualification.</p>

<p>Experience : At  least two years of Post-doctoral teaching and/or research experience in Bioinformatics or relevant field in a UGC recognized Institution of repute or international research institute/ University.  Proof of research to be evidenced by publications in SCI-indexed journals of high impact factor as the first or corresponding author.</p>

<p>Note : University may consider exempting candidates from NET, who has been awarded Ph.D. degree from ‘A’ Grade accredited University following the procedure as notified by the UGC in its Regulations of 2009 and adopted by Jamia Hamdard.</p>

<p>For more information: http://www.jamiahamdard.ac.in/PDF/Online%20application%20form%20_Teaching_1.pdf<br />http://www.jamiahamdard.ac.in/PDF/PBAS.pdf</p>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38672/ltr-retriever-accurately-identifies-and-annotates-ltr-retrotransposons-and-use-lai-to-evaluates-the-continuity-of-genome-assemblies</guid>
	<pubDate>Sun, 13 Jan 2019 07:14:31 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38672/ltr-retriever-accurately-identifies-and-annotates-ltr-retrotransposons-and-use-lai-to-evaluates-the-continuity-of-genome-assemblies</link>
	<title><![CDATA[LTR_retriever: accurately identifies and annotates LTR retrotransposons and use LAI to evaluates the continuity of genome assemblies.]]></title>
	<description><![CDATA[<p>LTR_retriever is a command line program (in Perl) for accurate identification of LTR retrotransposons (LTR-RTs) from outputs of LTRharvest, LTR_FINDER, and/or MGEScan-LTR and generating non-redundant LTR-RT library for genome annotations.</p>
<p>By default, the program will generate whole-genome LTR-RT annotation and the LTR Assembly Index (LAI) for evaluations of the assembly continuity of the input genome. Users can also run LAI separately (see&nbsp;<code>Usage</code>).</p><p>Address of the bookmark: <a href="https://github.com/oushujun/LTR_retriever" rel="nofollow">https://github.com/oushujun/LTR_retriever</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/17500/joao-pedro-de-magalhaes-lab</guid>
  <pubDate>Fri, 26 Sep 2014 19:08:34 -0500</pubDate>
  <link></link>
  <title><![CDATA[Joao Pedro de Magalhaes Lab]]></title>
  <description><![CDATA[
<p>Ageing has a profound impact on human society and modern medicine, yet it remains a major puzzle of biology. The goal of my work is to help understand the genetic, cellular, and molecular mechanisms of ageing. In the long term, I would like my work to help ameliorate age-related diseases and preserve health. No other biomedical field has so much potential to improve human health as research on the basic mechanisms of ageing. Please see our lab website for further details about our work and publications. </p>

<p>Functional and Comparative Genomics</p>

<p>http://jp.senescence.info/<br />http://www.senescence.info/<br />http://www.liv.ac.uk/integrative-biology/staff/joao-de-magalhaes/</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/39253/gmass-a-novel-measure-for-genomeassembly-structural-similarity</guid>
	<pubDate>Sun, 14 Apr 2019 20:35:40 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/39253/gmass-a-novel-measure-for-genomeassembly-structural-similarity</link>
	<title><![CDATA[GMASS: a novel measure for genomeassembly structural similarity]]></title>
	<description><![CDATA[<div id="Abstract">
<div id="ASec3">
<p id="Par3">The GMASS score is a novel measure for representing structural similarity between two assemblies. It will contribute to the understanding of assembly output and developing de novo assemblers.</p>
<p><a href="https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2710-z">https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2710-z</a></p>
</div>
</div><p>Address of the bookmark: <a href="http://bioinfo.konkuk.ac.kr/GMASS/htdocs/syncircos.php" rel="nofollow">http://bioinfo.konkuk.ac.kr/GMASS/htdocs/syncircos.php</a></p>]]></description>
	<dc:creator>Abhimanyu Singh</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/23628/postgraduate-research-associate-bioinformatics-computational-biology-reference-code-59</guid>
  <pubDate>Tue, 04 Aug 2015 20:32:39 -0500</pubDate>
  <link></link>
  <title><![CDATA[Postgraduate Research Associate Bioinformatics / Computational Biology (Reference code: 59)]]></title>
  <description><![CDATA[
<p>The Department of Biotechnology, group “Genome Bioinformatics” is currently seeking a Postgraduate Research Associate Bioinformatics / Computational Biology (Reference code: 59)</p>

<p>Extent of employment: 30 Hours per Week<br />Duration of employment: 1st of October 2015 to 30th of September 2019<br />Gross monthly salary and pay grade in terms of collective agreement for university staff (payable 14 times per year): B1, € 1.997,20</p>

<p>Responsibilities<br />The successful candidate (f/m) will pursue a Ph.D. project related to the interpretation of plant genome and transcriptome sequencing data from next-generation sequencing (NGS) platforms. In particular, the candidate will characterize the unexplored genome of quinoa, a crop plant of long-standing tradition in Latin America. We collaborate with research partners in Austria and abroad, and the candidate’s project will be of central importance in the context of this research network.</p>

<p>Required skills and qualifications<br />We are looking for a graduate student (f/m) with a Master’s degree in bioinformatics or in a related field, solid programming skills (e.g. developing sequence analysis tools), experience with the analysis of NGS data sets, understanding of lab methods and knowledge of genomics/transcriptomics. The group has successfully performed several projects using NGS technology. We have recently published the reference genome sequence of sugar beet (Dohm et al., Nature, 2014), a crop plant closely related to quinoa (same family, but different genus). Not yet published is a quinoa genome assembly that we have generated, and which will serve as the starting point of the candidate’s project. We are a multidisciplinary team and offer work in a lively and friendly atmosphere, and state-of-the-art computing infrastructure. We are looking forward to expanding our team by a dedicated and strongly motivated person with a distinct interest in the challenges of plant genomics.</p>

<p>Applications can be submitted until: 16th of August 2015</p>

<p>University of Natural Resources and Life Sciences Vienna seeks to increase the number of its female faculty and staff members. Therefore qualified women are strongly encouraged to apply. In case of equal qualification, female candidates will be given preference unless reasons specific to an individual male candidate tilt the balance in his favour.</p>

<p>Please send your job application (incl. letter of motivation, CV, summary of Master’s thesis and contact details for two referees) to Personnel department, University of Natural Resources and Life Sciences, 1190 Vienna, Peter-Jordan-Straße 70; E-Mail: kerstin.buchmueller@boku.ac.at. (Reference code: 59)</p>

<p>We regret that we cannot reimburse applicants travel and lodging expenses incurred as part of the selection and hiring process.</p>

<p>www.boku.ac.at</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/39903/integrative-meta-assembly-pipeline-imap-chromosome-level-genome-assembler-combining-multiple-de-novo-assemblies</guid>
	<pubDate>Sat, 31 Aug 2019 11:30:41 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/39903/integrative-meta-assembly-pipeline-imap-chromosome-level-genome-assembler-combining-multiple-de-novo-assemblies</link>
	<title><![CDATA[Integrative Meta-Assembly Pipeline (IMAP): Chromosome-level genome assembler combining multiple de novo assemblies]]></title>
	<description><![CDATA[<p><span>Chromosome-level genome assembler combining multiple de novo assemblies</span></p>
<p><span><a href="https://github.com/jkimlab/IMAP">https://github.com/jkimlab/IMAP</a></span></p><p>Address of the bookmark: <a href="https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0221858" rel="nofollow">https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0221858</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/17898/ensembl-77-has-been-released</guid>
	<pubDate>Sun, 05 Oct 2014 16:38:58 -0500</pubDate>
	<link>https://bioinformaticsonline.com/news/view/17898/ensembl-77-has-been-released</link>
	<title><![CDATA[Ensembl 77 has been released!]]></title>
	<description><![CDATA[<h3>New updates in e!77 !!</h3><ul>
<li>Updated&nbsp;<a href="http://e77.ensembl.org/Homo_sapiens/Info/Index" title="Human species page">human</a>&nbsp;gene set (GENCODE 21)</li>
<li>Updated <a href="http://e77.ensembl.org/Rattus_norvegicus/Info/Index">rat</a> gene set&nbsp;including manual annotation from HAVANA</li>
<li>New species:&nbsp;<a href="http://e77.ensembl.org/Chlorocebus_sabaeus/Info/Index">Vervet-African green monkey</a></li>
<li>Imported Transcript Support Levels (TSLs) from UCSC&nbsp;for&nbsp;<a href="http://e77.ensembl.org/Homo_sapiens/Info/Index">human</a>&nbsp;and&nbsp;<a href="http://e77.ensembl.org/Mus_musculus/Info/Index">mouse</a></li>
<li>Imported <a href="http://appris.bioinfo.cnio.es/" target="_blank" title="APPRIS">APPRIS</a> flag for&nbsp;<a href="http://e77.ensembl.org/Homo_sapiens/Info/Index">human</a> and <a href="http://e77.ensembl.org/Mus_musculus/Info/Index">mouse</a></li>
<li>Updated <a href="http://e77.ensembl.org/Poecilia_formosa/Info/Index" title="Amazon molly">Amazon molly</a> gene set</li>
</ul><p>Find more at http://www.ensembl.info/blog/2014/10/02/ensembl-77-has-been-released/</p>]]></description>
	<dc:creator>Seema Singh</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/40789/complete-genome-sequence-of-wuhan-seafood-market-pneumonia-virus-is-out</guid>
	<pubDate>Fri, 31 Jan 2020 02:36:59 -0600</pubDate>
	<link>https://bioinformaticsonline.com/news/view/40789/complete-genome-sequence-of-wuhan-seafood-market-pneumonia-virus-is-out</link>
	<title><![CDATA[Complete genome sequence of Wuhan seafood market pneumonia virus is out !]]></title>
	<description><![CDATA[<p>Wuhan-Hu-1 claimed at least 40 lives and infected at least 1300 others in China. Cases are now being reported from Thailand, Singapore, Malaysia, South Korea, Japan, Vietnam, Nepal, France, Australia and even as far as the US.&nbsp;On Jan 10 2020, while news of the first fatality was barely trickling in, the <a href="https://www.ncbi.nlm.nih.gov/nuccore/MN908947">29,903 letters</a> constituting the viral genome from an affected individual in Wuhan had already been elucidated (even though a few corrections were made subsequently). All the viral genome sequences from affected individuals are very very close to each other. Several are identical and none has more than 5 differences (99.983% similarity). This strongly suggests that transmission into humans came from a single pointed source and happened very recently, between Sep-Dec 2019.</p><p>Check out the detail at https://www.ncbi.nlm.nih.gov/nuccore/MN908947</p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <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>
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