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	<title><![CDATA[BOL: Related items]]></title>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/29217/bioinformatics-openings-at-sri-venkateswara-college-university-of-delhi</guid>
  <pubDate>Tue, 20 Sep 2016 05:43:24 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics openings at Sri Venkateswara College, University of Delhi]]></title>
  <description><![CDATA[
<p>Bioinformatics center</p>

<p>Sri Venkateswara College (University of Delhi)</p>

<p>New Delhi- 110021</p>

<p>1. Junior Research Fellow (1 Post)</p>

<p>Applications are invited for the post of Junior Research Fellow (JRF) under DST funded project which is purely temporary and is strictly for project duration only.</p>

<p>Title of project</p>

<p>No. of post</p>

<p>Remuneration (Rs.)</p>

<p>“Computational assisted Design and Synthesis of Novel Antimalarial Agents Embodying Structural Diversity Suitable for Protease Inhibitors”</p>

<p>(One)</p>

<p>Fellowship and HRA as per DST guidelines</p>

<p>Qualification</p>

<p>Post Graduate Degree in Basic Science (M.Sc./M.Tech in Bioinformatics/Biophysics) from a recognized University in India or abroad with at least 55% marks with NET qualification or Graduate Degree in Professional Course with NET Qualification or Post Graduate Degree in Professional Course.</p>

<p>Desirable</p>

<p>Fair knowledge of Computer Aided Drug Designing (CADD), Protein Structure modeling, molecular docking, and simulations are preferable.</p>

<p>2. Traineeship (1 Post)</p>

<p>Applications are invited for the position of traineeship in DBT-BTISnet funded Bioinformatics Infrastructure Facility (BIF) to carry out project work in the area of Bioinformatics.</p>

<p>Qualification</p>

<p>Applicant should be possess PG degree/PG diploma in Bioinformatics for traineeship. The traineeship is awarded for a period of six months from the date of joining and is not extendable. The selected candidates are entitled to receive a stipend of Rs. 8000/- per month (consolidate) for a period of 6 months.</p>

<p>=====================================================================</p>

<p>3. Studentship (1 Post)</p>

<p>Applications are invited for the position of Studentship in DBT-BTISnet funded Bioinformatics Infrastructure Facility (BIF) to carry out project work in the area of Bioinformatics.</p>

<p>Qualification</p>

<p>Candidates pursuing the Final Year of Post Graduate Degree in Basic Science (M.Sc.) or Post Graduate/ Graduate Degree in Professional Course (M.Tech/B.Tech) in Bioinformatics from a recognized University in India or abroad. The selected candidates are entitled to receive a stipend of Rs. 8000/- per month (consolidate) for a period of 6 months.</p>

<p>How to Apply?</p>

<p>Applicants are required to send applications on plain paper, stating the name, address, date of birth, educational qualification, experience and Institute, along with attested photocopies of mark sheets and certificates etc. by September 20, 2016 to:</p>

<p>The Coordinator</p>

<p>Bioinformatics Center, Sri Venkateswara College</p>

<p>Benito Juarez Road, Dhaula Kuan, New Delhi- 110021</p>

<p>Applications may also be sent by email to contact@bic-svc.ac.in. Strictly mention "Application for JRF, Traineeship or Studentship" in the subject line as the case may be.</p>

<p>Short listed candidates will be called for an interview. Canvassing in any form will be a disqualification. No TA/DA will be paid either for attending the interview or joining the post.</p>

<p>For more details visit our lab webpage: http://www.bic-svc.ac.in</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/29272/decipher</guid>
	<pubDate>Fri, 30 Sep 2016 09:33:12 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/29272/decipher</link>
	<title><![CDATA[DECIPHER]]></title>
	<description><![CDATA[<p>DECIPHER is a software toolset that can be used to maintain, analyze, and decipher large amounts of DNA sequence data. To install DECIPHER, see the <a href="http://DECIPHER.cee.wisc.edu/Download.html">Downloads</a> page.<br><br> To begin using DECIPHER read the "Getting Started DECIPHERing" tutorial. Refer to the PDF documents below for instructions on how to use DECIPHER for various tasks.</p><p>Address of the bookmark: <a href="http://decipher.cee.wisc.edu/Documentation.html" rel="nofollow">http://decipher.cee.wisc.edu/Documentation.html</a></p>]]></description>
	<dc:creator>Anjana</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/29282/cosmic</guid>
	<pubDate>Sat, 01 Oct 2016 15:04:10 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/29282/cosmic</link>
	<title><![CDATA[COSMIC]]></title>
	<description><![CDATA[<p>The accurate description and annotation of structural variants can be complex. &nbsp;This is due to the different resolution that variants are reported from traditional&nbsp;cytogenetic coordinates down to the actual base pair positions. Furthermore, multiple&nbsp;rearrangements in a single area of the genome can make cataloguing and interpreting&nbsp;their effects challenging.&nbsp;</p>
<p>The Rearrangement Overview page describes the one or more breakpoints which make up a structural&nbsp;variant. A breakpoint is defined as a region or point where the sample sequence has altered&nbsp;from the reference sequence. Minimum interpretation is made of this data. One variant event&nbsp;can consist of one or multiple breakpoints. The Syntax (shown above the table) gives a detailed description of the variant and its location &nbsp;(e.g. chr11:g.36585230_76606619del, a deletion of&nbsp;roughly 40Mb on chromosome 11). Syntax is based on HGVS mutation nomenclature recommendations&nbsp;[http://www.hgvs.org/rec.html].&nbsp;</p>
<p>http://cancer.sanger.ac.uk/cosmic/help/rearrangement/overview</p><p>Address of the bookmark: <a href="http://cancer.sanger.ac.uk/cosmic/help/rearrangement/overview" rel="nofollow">http://cancer.sanger.ac.uk/cosmic/help/rearrangement/overview</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/39098/sda-long-read-sequence-and-assembly-of-segmental-duplications</guid>
	<pubDate>Tue, 05 Mar 2019 10:00:57 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/39098/sda-long-read-sequence-and-assembly-of-segmental-duplications</link>
	<title><![CDATA[SDA: Long-read sequence and assembly of segmental duplications]]></title>
	<description><![CDATA[<p><span><span>Segmental Duplication Assembler (SDA; https://github.com/mvollger/SDA) constructs graphs in which paralogous sequence variants define the nodes and long-read sequences provide attraction and repulsion edges, enabling the partition and assembly of long reads corresponding to distinct paralogs.<br></span></span></p>
<p><span><span>https://github.com/mvollger/SDA</span></span></p><p>Address of the bookmark: <a href="https://www.nature.com/articles/s41592-018-0236-3" rel="nofollow">https://www.nature.com/articles/s41592-018-0236-3</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/40099/contiguator</guid>
	<pubDate>Fri, 04 Oct 2019 01:27:58 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/40099/contiguator</link>
	<title><![CDATA[CONTIGuator !]]></title>
	<description><![CDATA[<p><span>CONTIGuator is a Python script for Linux environments whose purpose is to speed-up the bacterial genome assembly process and to obtain a first insight of the genome structure using the well-known artemis comparison tool (ACT).</span></p>
<p>&nbsp;</p><p>Address of the bookmark: <a href="https://sourceforge.net/projects/contiguator/" rel="nofollow">https://sourceforge.net/projects/contiguator/</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41493/coronavirus-resources</guid>
	<pubDate>Wed, 25 Mar 2020 17:11:33 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41493/coronavirus-resources</link>
	<title><![CDATA[Coronavirus Resources !]]></title>
	<description><![CDATA[<p><span>2019nCoVR features comprehensive integration of genomic and proteomic sequences as well as their metadata information from the GISAID, NCBI, NMDC and CNCB/NGDC. It also incorporates a wide range of relevant information including scientific literatures, news, and popular articles for science dissemination, and provides visualization functionalities for genome variation analysis results based on all collected 2019-nCoV strains.</span></p>
<p><span>Annotation</span></p>
<p><span><a href="https://bigd.big.ac.cn/ncov/variation/annotation">https://bigd.big.ac.cn/ncov/variation/annotation</a></span></p>
<p><span>Genome wharehouse&nbsp;</span></p>
<p><span><a href="https://bigd.big.ac.cn/gwh/browse/index">https://bigd.big.ac.cn/gwh/browse/index</a></span></p>
<p>Released Genome</p>
<p><a href="https://bigd.big.ac.cn/ncov/release_genome">https://bigd.big.ac.cn/ncov/release_genome</a></p>
<p>Download data&nbsp;</p>
<p><a href="ftp://download.big.ac.cn/Genome/Viruses/Coronaviridae/">ftp://download.big.ac.cn/Genome/Viruses/Coronaviridae/</a></p>
<p>Raw data</p>
<p><a href="https://bigd.big.ac.cn/gsa/browse/run/?tag=Coronaviridae">https://bigd.big.ac.cn/gsa/browse/run/?tag=Coronaviridae</a></p><p>Address of the bookmark: <a href="https://bigd.big.ac.cn/ncov/about" rel="nofollow">https://bigd.big.ac.cn/ncov/about</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/file/view/42559/sample-bandage-input-file-for-visual-analysis</guid>
	<pubDate>Wed, 06 Jan 2021 03:51:50 -0600</pubDate>
	<link>https://bioinformaticsonline.com/file/view/42559/sample-bandage-input-file-for-visual-analysis</link>
	<title><![CDATA[Sample bandage input file for visual analysis]]></title>
	<description><![CDATA[<p>Sample bandage input file for visual analysis ...</p>]]></description>
	<dc:creator>Jit</dc:creator>
	<enclosure url="https://bioinformaticsonline.com/file/download/42559" length="112199" type="text/plain" />
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/42267/hapsolo-an-optimization-approach-for-removing-secondary-haplotigs-during-diploid-genome-assembly-and-scaffolding</guid>
	<pubDate>Mon, 26 Oct 2020 21:23:36 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/42267/hapsolo-an-optimization-approach-for-removing-secondary-haplotigs-during-diploid-genome-assembly-and-scaffolding</link>
	<title><![CDATA[HapSolo: An optimization approach for removing secondary haplotigs during diploid genome assembly and scaffolding.]]></title>
	<description><![CDATA[<p><span>Despite marked recent improvements in long-read sequencing technology, the assembly of diploid genomes remains a difficult task. A major obstacle is distinguishing between alternative contigs that represent highly heterozygous regions. If primary and secondary contigs are not properly identified, the primary assembly will overrepresent both the size and complexity of the genome, which complicates downstream analysis such as scaffolding.</span></p>
<p><span>More at&nbsp;https://github.com/esolares/HapSolo</span></p><p>Address of the bookmark: <a href="https://github.com/esolares/HapSolo" rel="nofollow">https://github.com/esolares/HapSolo</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/file/view/29654/randomness-and-probability</guid>
	<pubDate>Tue, 08 Nov 2016 07:17:32 -0600</pubDate>
	<link>https://bioinformaticsonline.com/file/view/29654/randomness-and-probability</link>
	<title><![CDATA[Randomness and Probability]]></title>
	<description><![CDATA[<p>Randomness and Probability</p><p>Randomness and probability are two differnet concepts: probaility is a measure (according to measure theory) which measures the randomness. Randomness is the object to be measured by probability.&nbsp;For example, probability is a mapping from randomness to the real number between 0 and 1. The similar examples are that the entropy measures the uncertanity; product of length and width measures the area of rectangle etc.</p><p><strong>Please see &ldquo;A mathematical theory of ability measure&rdquo; by N. Kong ets for more examples to answer&nbsp;this question.</strong></p>]]></description>
	<dc:creator>Jit</dc:creator>
	<enclosure url="https://bioinformaticsonline.com/file/download/29654" length="598559" type="application/pdf" />
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43057/hapsolo-an-optimization-approach-for-removing-secondary-haplotigs-during-diploid-genome-assembly-and-scaffolding</guid>
	<pubDate>Sat, 08 May 2021 21:25:00 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43057/hapsolo-an-optimization-approach-for-removing-secondary-haplotigs-during-diploid-genome-assembly-and-scaffolding</link>
	<title><![CDATA[HapSolo: An optimization approach for removing secondary haplotigs during diploid genome assembly and scaffolding]]></title>
	<description><![CDATA[<p><span>HapSolo, that identifies secondary contigs and defines a primary assembly based on multiple pairwise contig alignment metrics. HapSolo evaluates candidate primary assemblies using BUSCO scores and then distinguishes among candidate assemblies using a cost function. The cost function can be defined by the user but by default considers the number of missing, duplicated and single BUSCO genes within the assembly. HapSolo performs hill climbing to minimize cost over thousands of candidate assemblies.&nbsp;</span></p><p>Address of the bookmark: <a href="https://github.com/esolares/HapSolo" rel="nofollow">https://github.com/esolares/HapSolo</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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