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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/14215?offset=220</link>
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	<item>
	<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/18576/graduate-research-assistantships-university-of-nebraska-lincoln-unl</guid>
  <pubDate>Wed, 22 Oct 2014 10:05:31 -0500</pubDate>
  <link></link>
  <title><![CDATA[Graduate research assistantships @ University of Nebraska-Lincoln (UNL)]]></title>
  <description><![CDATA[
<p>Graduate research assistantships in quantitative genetics are available with Gota Morota in the Department of Animal Science at the University of Nebraska-Lincoln (UNL).</p>

<p>Current projects in the Morota lab include developing kernel-based whole-genome prediction and kernel-based genome-wide association models, polygenic modeling of binary traits, reexamining the results from quantitative genetics analysis in light of functional annotation, and extending kernel methods (such as GBLUP and RKHS) specifically tailored for diverse types of emerging omics data.</p>

<p>In addition, candidates will be expected to leverage opportunities to interact with faculty in animal genetics and biometrics at the UNL in the areas of bioinformatics, breeding, functional genomics, quantitative genetics, and molecular genetics.</p>

<p>Candidates should have a B.S. or M.S. degree in quantitative disciplines with strong background and interest in statistical computing. <br />The starting date is Fall 2015. <br />For more information about research in the Morota lab at the UNL, visit: http://www.morotalab.org</p>

<p>A letter of interest in the position, C.V., and contact information for <br />three references should be emailed to Gota Morota at . <br />Review of applications will begin immediately, and continue until the <br />positions are filled. Informal inquiries are also welcome.</p>

<p>Also, please see: http://animalscience.unl.edu/anscprospectivegraduatestudents</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>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/18820/jrfsrf-at-university-of-calcutta</guid>
  <pubDate>Fri, 31 Oct 2014 08:53:10 -0500</pubDate>
  <link></link>
  <title><![CDATA[JRF/SRF at University of Calcutta]]></title>
  <description><![CDATA[
<p>Applications are invited to appear at a walk-in-interview for one post of Junior Research Fellow in the DBT(DBT Twinning NER) sponsored project entitled “Protein folding kinetics is a selection force on shaping codon usage bias in the high expression genes” in the room of the HOD, Department of Biotechnology and the Coordinator, DR. B. C. Guha Centre for Genetic Engineering and Biotechnology, University College of Science, 35 Ballygunge Circular Road, Kolkata 700019 on the 12th November, 2014 at 3:00 p.m.</p>

<p>Essential qualifications: First class M. Sc. in any branch of life sciences and qualified CSIR-UGC NET/GATE Examination.</p>

<p>Desirable qualifications: Practical experience in biochemical and biophysical studies of proteins</p>

<p>Emoluments: as per DBT norms</p>

<p>The project is tenable for two years, initially for one year.</p>

<p>Age: Below 28 years (relaxable in the case of SC/ST/OBC/women candidates)</p>

<p>Candidates are requested to bring two sets of complete applications on plain paper furnishing bio-data and copies of attested certificates along with originals (for verification) on the date of interview.</p>

<p>No TA/DA is admissible for candidates appearing at the interview.</p>

<p>Dr. Rajat Banerjee<br />Assistant Professor<br />Department of Biotechnology and<br />Dr. B. C. Guha Centre for Genetic Engineering and Biotechnology<br />University College of Science<br />35, Ballygunge Circular Road<br />Kolkata 700019</p>

<p>Advertisement: www.caluniv.ac.in/news/jrf_biotech_2.pdf</p>
]]></description>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19085/jrf-in-bioinformatics-pondicherry-university</guid>
  <pubDate>Sat, 08 Nov 2014 14:34:48 -0600</pubDate>
  <link></link>
  <title><![CDATA[JRF in Bioinformatics @ Pondicherry University]]></title>
  <description><![CDATA[
<p>Eager to get JRF job in Puducherry? Pondicherry University, School of Life Sciences, Centre for Bioinformatics has issued notification to fill the vacancy of JRF for DST sponsored research project entitled "Design and discovery of aurora kinase inhibitors as anti cancer drugs; application of computer aided drug design". It is good chance to get job with Pondicherry University and secure your future. Learn eligibility criteria and apply on or before 21.11.2014.</p>

<p>Required Skills:	no special skills required for this job post<br />Required Experience:	<br />Experience in computer aided drug design and or biochemical testing of natural or synthetic compounds is desired<br />Required Education:	<br />M.Sc. / M.Tech.</p>

<p>Required Job Profile:<br />Candidate must possess M.Sc. in bioinformatics or computational biology or biotechnology or any branch of life sciences or pharmacology or chemical sciences or M.Tech. in any branch of life sciences with at least fifty five percent marks with NET or GATE.</p>

<p>Desired Job Profile:<br />Candidate having experience in computer aided drug design and or biochemical testing of natural or synthetic compounds.</p>

<p>How to apply:<br />Eligible and interested candidates should need to appear for walk-in interview on 21.11.2014 at 1700 hrs at the above mentioned address.</p>

<p>Contact<br />Pondicherry University<br />Dr. S. Mohane Coumar, Assistant Professor &amp; Project Investigator, Centre for Bioinformatics, Pondicherry University, Puducherry 605 014<br />Email:registrar@pondiuni.edu.in<br />Phone:	0413-2655175</p>

<p>More at http://www.pondiuni.edu.in/sites/default/files/JRF-bioinfor-041114.pdf</p>
]]></description>
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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/19091/phd-opportunity-aicadd-fellowship-mhrd-govt-of-india-of-university-of-kerala</guid>
  <pubDate>Sat, 08 Nov 2014 15:16:24 -0600</pubDate>
  <link></link>
  <title><![CDATA[PhD opportunity / AiCADD fellowship (MHRD, Govt. of India) of University of Kerala.]]></title>
  <description><![CDATA[
<p>No. DCB/DBT-BIF/229 /14-15                                                                                     07-11-2014</p>

<p>Applications are invited for the AiCADD fellowship (MHRD, Govt. of India) of University of Kerala.</p>

<p>The terms and conditions of the fellowship is given below:</p>

<p>Ø The AiCADD PhD Fellowship scheme will be available for the students registered for full-time research      or   intending to register and pursue full time research at SIUCEB in frontier areas of bioinformatics,    computational biology, systems biology and closely allied areas with focus on Ayur-Informatics. </p>

<p>  Ø  The fellowships will be widely announced and open to students irrespective of geographical consideration.</p>

<p>  Ø  Candidates availing of this fellowship shall not be in receipt of any other fellowships concurrently.</p>

<p>  Ø  Researchers will be selected on the basis of research aptitude test and personal interview.</p>

<p>  Ø  Each selected student will be eligible for a monthly fellowship of Rs. 10,000/- for the 1st and 2nd year and Rs. 12,000/- for the 3rd year.</p>

<p>  Ø  Candidates must register for PhD within one year of joining, failing which the fellowship will have to be    remitted back.</p>

<p>  Ø  Candidates receiving the fellowship shall submit bi-annual reports of progress and the continuation of the fellowship will be based on the evaluation of the same.</p>

<p>  Ø  Candidates are also required to take up academic duties including teaching upto a maximum of 6 hours     per week, as directed by AiCADD Principal Investigator.</p>

<p> Interested candidates may please forward their application along with resume on or before 15th November 2014 in the following address. Principal Investigator, AiCADD Centre, Dept. of Computational Biology and Bioinformatics, University of Kerala, Thiruvananthapuram - 695581.</p>

<p>More at https://sites.google.com/site/centreforbioinformatics/announcements</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41207/blobtoolkit-a-toolkit-for-genome-assembly-qc</guid>
	<pubDate>Fri, 21 Feb 2020 00:17:50 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41207/blobtoolkit-a-toolkit-for-genome-assembly-qc</link>
	<title><![CDATA[BlobToolKit: A toolkit for genome assembly QC]]></title>
	<description><![CDATA[<p>Filtering raw genomic datasets is essential to avoid chimeric assemblies and to increase the validity of sequence-based biological inference. BlobToolKit extends the BlobTools<span>1</span>/Blobology<span>2</span>&nbsp;approach to simplify interactive and reproducible filtering.</p>
<p>BlobToolKit is comprised of four components:</p>
<ol>
<li><a href="https://blobtoolkit.genomehubs.org/btk-viewer/">BlobToolKit Viewer</a>&nbsp;allows browser-based interactive visualisation and filtering of preliminary or published genomic datasets even for highly fragmented assemblies.</li>
<li><a href="https://blobtoolkit.genomehubs.org/blobtools2/">BlobTools2</a>&nbsp;is a command-line program to convert assemblies and analysis results into datasets that can be further processed using&nbsp;<a href="https://blobtoolkit.genomehubs.org/blobtools2/">BlobTools2</a>&nbsp;and/or visualised in the Viewer.</li>
<li>The&nbsp;<a href="https://blobtoolkit.genomehubs.org/specification/">BlobToolKit Specification</a>&nbsp;features a formal schema and validator for the JSON-based BlobDir format used by&nbsp;<a href="https://blobtoolkit.genomehubs.org/blobtools2/">BlobTools2</a>&nbsp;and the&nbsp;<a href="https://blobtoolkit.genomehubs.org/btk-viewer/">Viewer</a>.</li>
<li>The&nbsp;<a href="https://blobtoolkit.genomehubs.org/pipeline/">BlobToolKit Pipeline</a>&nbsp;is a configurable Snakemake pipeline that automates all steps from retrieving public datasets through running analyses and generating a BlobDir dataset with&nbsp;<a href="https://blobtoolkit.genomehubs.org/blobtools2/">BlobTools2</a>, ready for visualisation in the&nbsp;<a href="https://blobtoolkit.genomehubs.org/btk-viewer/">Viewer</a>.</li>
</ol>
<p>Paper&nbsp;<a href="https://www.biorxiv.org/content/10.1101/844852v1.full.pdf">https://www.biorxiv.org/content/10.1101/844852v1.full.pdf</a></p><p>Address of the bookmark: <a href="https://blobtoolkit.genomehubs.org/" rel="nofollow">https://blobtoolkit.genomehubs.org/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19187/srbioinformatics-analyst-ngs-at-ocimum-biosolution</guid>
  <pubDate>Sat, 15 Nov 2014 04:46:10 -0600</pubDate>
  <link></link>
  <title><![CDATA[Sr.Bioinformatics Analyst (NGS) at Ocimum Biosolution]]></title>
  <description><![CDATA[
<p>“Ocimum Biosolution” is a comprehensive Integrated Life Science Informatics solutions provider with service offerings that span Sample and Data Management (LIMS, Biologics Data Management), Genomics Data Analysis Services such as Gene Expression, Genotyping, and Next Gen Sequencing, Bioinformatics and Genomics Databases (BioExpress®, ToxExpress®) and Bio-IT consulting services.</p>

<p>Experience Required: 3-5 years of experience</p>

<p>No of Positions : Multiple</p>

<p>Qualifications: Candidates with minimum qualification as M.Sc Bioinformatics with 3-5  years of experience in Life sciences R&amp;D or Pharma Industry.</p>

<p>Ph.D candidates with research experience in Bioinformatics with publications in International journal and minimum 2 years of  industry experience in clinical genomics will be preferred for this position.</p>

<p>Requirement:</p>

<p>1.  Must have basic understanding of molecular biology and Genomics.</p>

<p>2. Experience in application development or must have expertise in programming using either of Perl/Python.</p>

<p>3.  Experience in statistical programming using R/Bioconductor/Matlab.</p>

<p>4. Strong concept in statistical and mathematical modelling.</p>

<p>5.  Experience in designing and developing the bioinformatics pipeline.</p>

<p>6.  Must have minimum 2+ years of hands on experience in NSG data analysis such as RNA-Seq,Exome-Seq ,Chip-Seq and downstream analysis.</p>

<p>7. Knowledge in WGS ,WES, Targeted re-sequencing,GWAS and population genomics will be preferred.</p>

<p>8. Must have experience working on opensource software/Framework and commercial software for NGS data analysis and reporting.</p>

<p>9. Should be aware of handling big data and guiding team members on multiple projects simultaneously.</p>

<p>10. Should have experience coordinating with different groups of clinical research scientist for various project requirements.</p>

<p>11. Ability to work as team as well as independently with minimal support.</p>

<p>More at http://www.ocimumbio.com/careers1/</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41464/phytozome-v121-plant-science-community-hub-for-accessing-palnts-genomic-data</guid>
	<pubDate>Tue, 17 Mar 2020 07:30:17 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41464/phytozome-v121-plant-science-community-hub-for-accessing-palnts-genomic-data</link>
	<title><![CDATA[Phytozome  v12.1: plant science community hub for accessing palnts genomic data]]></title>
	<description><![CDATA[<p>Phytozome, the Plant Comparative Genomics portal of the Department of Energy's Joint Genome Institute, provides JGI users and the broader plant science community a hub for accessing, visualizing and analyzing JGI-sequenced plant genomes, as well as selected genomes and datasets that have been sequenced elsewhere. As of release v12.1.6, Phytozome hosts 93 assembled and annotated genomes, from 82 Viridiplantae species. More than half of these genomes have been sequenced, assembled and/or annotated with JGI Plant Science program resources. By integrating this large collection of plant genomes into a single resource and performing comprehensive and uniform annotation and analyses, Phytozome facilitates accurate and insightful comparative genomics studies.</p><p>Address of the bookmark: <a href="https://phytozome.jgi.doe.gov/pz/portal.html" rel="nofollow">https://phytozome.jgi.doe.gov/pz/portal.html</a></p>]]></description>
	<dc:creator>Surabhi Chaudhary</dc:creator>
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