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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/19090?offset=1370</link>
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	<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/view/138</guid>
	<pubDate>Wed, 10 Jul 2013 16:30:58 -0500</pubDate>
	<link>https://bioinformaticsonline.com/view/138</link>
	<title><![CDATA[Selecting between Python 2 and Python 3?]]></title>
	<description><![CDATA[<p>Which version is best for bioinformatician to work on?</p>]]></description>
	<dc:creator>Rahul Agarwal</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/31526/sequenceserver</guid>
	<pubDate>Fri, 10 Mar 2017 08:51:55 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/31526/sequenceserver</link>
	<title><![CDATA[sequenceserver]]></title>
	<description><![CDATA[<p><span>SequenceServer lets you rapidly set up a BLAST+ server with an intuitive user interface for use locally or over the web.</span></p>
<p><span><span>More at&nbsp;</span><a href="http://sequenceserver.com/">http://sequenceserver.com</a><span>.</span></span></p><p>Address of the bookmark: <a href="https://github.com/wurmlab/sequenceserver" rel="nofollow">https://github.com/wurmlab/sequenceserver</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/841/research-fellow</guid>
  <pubDate>Sat, 13 Jul 2013 11:23:20 -0500</pubDate>
  <link></link>
  <title><![CDATA[Research Fellow]]></title>
  <description><![CDATA[
<p>UNIVERSITY OF CALCUTTA</p>

<p>A walk-in-interview will be held on 15.7.2013 at 12 noon in the Department of Biophysics, Molecular Biology and Bioinformatics, 92 A.P.C Road, Kolkata-700 009 to select one trainee research fellow and two students under DIC. The positions are purely temporary and would be for a period of six months from the date of joining which may be extended by another six months subject to successful performance.</p>

<p>Qualification:</p>

<p>For the Trainee Research Fellow: Should have a master degree in Bioinformatics or allied subjects and should have biological database development experience. Must have at least one publication.</p>

<p>For the Students: Should have a master degree in Bioinformatics or allied subjects and should be proficient in C-programming language. Must be familiar with techniques of Developmental Biology.</p>

<p>The Trainee Research Fellow would be paid a consolidated sum of Rs 10000/- per month and the students would be paid a sum amount Rs. 7000/- per month during the tenure of the project.</p>

<p>Advertisement:<br />www.caluniv.ac.in/News%20&amp;%20Announcement/trainee_rf_DIC.pdf</p>
]]></description>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/862/dumontier-lab</guid>
  <pubDate>Sun, 14 Jul 2013 12:51:42 -0500</pubDate>
  <link></link>
  <title><![CDATA[Dumontier Lab]]></title>
  <description><![CDATA[
<p>Our research aims to better understand how living systems respond to chemical agents. A key aspect of our approach involves using computational frameworks that are powered by formal (i.e. machine understandable) semantics to make effectively use of vast and diverse amounts of biomedical knowledge. We are particularly interested in understanding how the response to chemical exposure is modulated by genetic and physiological variation among individuals and how this translates into altered capabilities at the molecular level.</p>

<p>Research Area</p>

<p>the discovery and on-demand use of biomedical data and services<br />the formulation, discovery and evaluation of scientific hypotheses<br />the simulation of biological systems at the level of individual molecules</p>

<p>Link @ http://dumontierlab.com/</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/32129/lordec-a-hybrid-error-correction-program-for-long-pacbio-reads</guid>
	<pubDate>Mon, 10 Apr 2017 04:16:09 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/32129/lordec-a-hybrid-error-correction-program-for-long-pacbio-reads</link>
	<title><![CDATA[LoRDEC: a hybrid error correction program for long, PacBio reads]]></title>
	<description><![CDATA[<p>LoRDEC is a program to correct sequencing errors in long reads from 3rd generation sequencing with high error rate, and is especially intended for PacBio reads. It uses a hybrid strategy, meaning that it uses two sets of reads: the reference read set, whose error rate is assumed to be small, and the PacBio read set, which is then corrected using the reference set. Typically, the reference set contains Illumina reads.</p>
<p><br> Usually, errors in PacBio reads include many insertions and deletions, and comparatively less substitutions. LoRDEC can correct errors of all these types.<br> After correction, a larger portion of the sequence of PacBio reads is usable for detection of region of similarity with other sequences, for aligning them to the contigs of an assembly, etc.</p>
<p>Why is LoRDEC different?</p>
<ul>
<li>It is efficient and can process large read data sets, included from eukaryotic or vertebrate species, on a usual computing server, and even works on desktop/laptop computers.</li>
<li>It adopts a novel graph based approach: it builds a succinct De Bruijn Graph (DBG) representing the short reads, and seeks a corrective sequence for each erroneous region of a long read by traversing chosen paths in the graph.</li>
</ul><p>Address of the bookmark: <a href="http://www.atgc-montpellier.fr/lordec/" rel="nofollow">http://www.atgc-montpellier.fr/lordec/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/868/the-upton-vbrc-lab</guid>
  <pubDate>Sun, 14 Jul 2013 13:25:41 -0500</pubDate>
  <link></link>
  <title><![CDATA[The Upton (VBRC) lab]]></title>
  <description><![CDATA[
<p>This Bioinformatics Resource (Virology.ca, the Canadian half of the now defunct VBRC)  focuses on large DNA viruses:<br />Poxviruses<br />African Swine Fever Viruses<br />Iridoviruses<br />Baculoviruses</p>

<p>Research Area</p>

<p>Custom searches of the viral databases<br />Building new tools .<br />The genome annotation<br /> <br />Link @ http://athena.bioc.uvic.ca/</p>
]]></description>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/32374/ra-bioinformatics-at-jnu-new-delhi-india</guid>
  <pubDate>Thu, 27 Apr 2017 03:29:58 -0500</pubDate>
  <link></link>
  <title><![CDATA[RA Bioinformatics at JNU, New Delhi, INDIA]]></title>
  <description><![CDATA[
<p>School of Computational &amp; Integrative Sciences<br />Jawaharlal Nehru University<br />New Delhi-110067, INDIA</p>

<p>Date: April 24th. 2017	Last Date: May 6th 2017<br />PROJECT ID: 632</p>

<p>The following posts are urgently required to be filled for the Department of Biotechnology, Government of India funded project jointly running with IIIT-Hyderabad &amp; JNU, entitled "Computational Core for Plant Metabolomics" administrated by Prof Indira Ghosh, School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi-110 067.<br />NB: For all the posts, preference will be given to candidates with a good knowledge of Python and/or R in UNIX platform , knowledge of JAVA will also get a special consideration.</p>

<p>1.	RA / Research Associate (Metabolic engineering/Computational Biologist)</p>

<p>Salary: Rs. 36000/- + HRA</p>

<p>Vacancy: 1</p>

<p>Essential Qualifications: PhD in Bioinformatics /Mathematics/Computer Science with experience in analyzing high throughput omics-based data/Analysis of Network Biology/Chemoinformatics/Computational Biology related Software development. Published paper in the field is a must to prove the experience. Special consideration will be given if have experience in Industry, teaching &amp; product development.</p>

<p>Desired Skills: Prior experience in handling and guiding bioinformatics, metabolomics data, planning of new research area in metabolic driven network , collaborating with industry , preparing and filing reports etc. Will be expected to communicate with user groups and coordinate with LIMS group in Hyderabad and the Cheminformatics group in Delhi.</p>

<p>2.	Project SRF (Network model building/Systems biology integration)</p>

<p>Salary*: Rs.18000/- + HRA</p>

<p>Vacancy: 1</p>

<p>Essential Qualifications: M.Tech in Computational Biology with project experience or Masters / B.Tech in Basic Sciences with at least 2yrs of research experience in Bioinformatics/Mathematical Model building using Computational Biology tools &amp; related Database / Network analysis etc. For M.Sc/B.Tech, Published paper in peer-reviewed Journal whereas for M.Tech, the degree obtained in computational biology is a must.</p>

<p>Desired Skills: Will be expected to manage ongoing research activities in LIMS, interact with LIMS group, build network model using data compiled by experimentalist, prepare and file reports and associated project work etc. Familiarity with plant systems biology and genomics /metabolite resources related to plant metabolomics is desirable.</p>

<p>More at http://www.jnu.ac.in/Career/currentjobs.htm</p>
]]></description>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/914/welch-lab</guid>
  <pubDate>Mon, 15 Jul 2013 18:21:13 -0500</pubDate>
  <link></link>
  <title><![CDATA[Welch Lab]]></title>
  <description><![CDATA[
<p>They are based in the Department of Genetics at the University of Cambridge. </p>

<p>The research covers diverse areas of evolutionary biology, and molecular evolution in particular. It combines theoretical and empirical approaches, and particularly evolutionary inference from genome sequence data.</p>

<p>Links @ http://www.gen.cam.ac.uk/research/welch/GroupPage/Home.html</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/32483/cla-contig-layout-authenticator</guid>
	<pubDate>Fri, 05 May 2017 05:58:36 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/32483/cla-contig-layout-authenticator</link>
	<title><![CDATA[CLA: Contig-Layout-Authenticator]]></title>
	<description><![CDATA[<p><span>To improve upon the shortcomings associated with the construction of draft genomes with Illumina paired-end sequencing, we developed Contig-Layout-Authenticator (CLA). The CLA pipeline can scaffold reference-sorted contigs based on paired reads, resulting in better assembled genomes. Moreover, CLA also hints at probable misassemblies and contaminations, for the users to cross-check before constructing the consensus draft. The CLA pipeline was designed and trained extensively on various bacterial genome datasets for the ordering and scaffolding of large repetitive contigs. The tool has been validated and compared favorably with other widely-used scaffolding and ordering tools using both simulated and real sequence datasets. CLA is a user friendly tool that requires a single command line input to generate ordered scaffolds.</span></p>
<p><span>Script&nbsp;https://sourceforge.net/projects/c-l-authenticator/files/</span></p><p>Address of the bookmark: <a href="http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0155459" rel="nofollow">http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0155459</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/32629/bienko-and-crosetto-labs</guid>
  <pubDate>Fri, 12 May 2017 07:42:15 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bienko and Crosetto Labs]]></title>
  <description><![CDATA[
<p>We are two groups of scientists doing frontier research in quantitative biology and biomedicine. The Bienko group is interested in exploring the fundamental design principles controlling how DNA is packed in the eukaryotic nucleus and its relation to gene expression regulation. The Crosetto group engineers new molecular methods for single-cell and spatially resolved omic measurements of DNA, RNA, and proteins, with a strong focus on tumor heterogeneity. By sharing ideas and resources, we work synergistically towards a more quantitative understanding of life’s processes in healthy and diseased conditions.</p>

<p>https://bienkocrosettolabs.org/</p>
]]></description>
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