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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/31345?offset=1040</link>
	<atom:link href="https://bioinformaticsonline.com/related/31345?offset=1040" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43641/refseq-viraal-genome-sequences</guid>
	<pubDate>Sat, 11 Dec 2021 08:35:18 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43641/refseq-viraal-genome-sequences</link>
	<title><![CDATA[Refseq viraal genome sequences !]]></title>
	<description><![CDATA[<p>List of all viruses on NCBI&nbsp;</p>
<p>https://ftp.ncbi.nlm.nih.gov/refseq/release/viral/</p><p>Address of the bookmark: <a href="https://ftp.ncbi.nlm.nih.gov/refseq/release/viral/" rel="nofollow">https://ftp.ncbi.nlm.nih.gov/refseq/release/viral/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/5957/assistant-professor-in-molecular-synthesis-for-drug-discovery-and-development-cbmr-lucknow</guid>
  <pubDate>Wed, 30 Oct 2013 06:42:27 -0500</pubDate>
  <link></link>
  <title><![CDATA[Assistant Professor in Molecular Synthesis for Drug Discovery and Development @ CBMR, Lucknow]]></title>
  <description><![CDATA[
<p>ADVERTISEMENT FOR FACULTY POSITIONS AT CENTRE OF BIOMEDICAL RESEARCH (CBMR), LUCKNOW</p>

<p>Details of the Positions and Pay Structure:</p>

<p>03 Posts for Assistant Professor in Molecular Synthesis for Drug Discovery and Development</p>

<p>Essential Qualifications and Requirements:</p>

<p>1. PhD in Synthetic Organic Chemistry/Medicinal Chemistry with research publications in high quality international journals and first class grade at the preceding degree from recognised University/Institute in India or abroad with consistently good academic record.<br />2. Three Yrs of Post-doctoral experience in relevant area.<br />3. Below 35 Yrs of age at the time of application</p>

<p>Desirable Experience: Candidates having strong research background in organic synthesis, total synthesis of structurally complex and medicinally important natural products/drugs related to cancer, neurodegenerative diseases (neurotropically active molecules for Alzheimer's, Parkinson’s, dementia etc) and infectious diseases such as malaria, TB etc. will be preferred.</p>

<p>Interested candidates may apply with:</p>

<p>1. Filled up Application Form (download from CBMR Website: http://www.cbmr.res.in) along with the Cover Letter, Curriculum Vitae including academic record (Bachelor degree onwards), awards, honours, list of Publications and reprints of 5 best publications.<br />2. Proposed research plan (max 3-4 pages).<br />3. Names and address (with valid e-mail and Phone number) of at least 3 academic referees.<br />4. Online Payment Receipt with transaction reference no. of Rs. 1000/- (USD 100 or equivalent foreign currency) on following details.<br />Account Number: 30054847814 Name: Director, Centre of Biomedical Research<br />Bank: STATE BANK OF INDIA, SGPGI Campus Branch, LUCKNOW</p>

<p>IFSC Code: SBIN0007789<br />MICR No: 22602034</p>

<p>Applications can be sent by registered/speed post or by e-mail to the following address:</p>

<p>The Director,<br />Centre of Biomedical Research (CBMR),<br />Sanjay Gandhi PGI Campus,<br />Raebareli Road, Lucknow-226014<br />e-mail: cbmr.admin@cbmr.res.in,<br />gp.pandey@cbmr.res.in</p>

<p>More Info:</p>

<p>http://www.cbmr.res.in/career/Advertisement%20for%20the%20post%20of%20Professors%20and%20Assistant%20Professors.pdf</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43722/crossmap-program-for-genome-coordinates-conversion-between-different-assemblies</guid>
	<pubDate>Tue, 25 Jan 2022 17:59:32 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43722/crossmap-program-for-genome-coordinates-conversion-between-different-assemblies</link>
	<title><![CDATA[CrossMap: program for genome coordinates conversion between different assemblies]]></title>
	<description><![CDATA[<p><span>CrossMap is a program for genome coordinates conversion between&nbsp;</span><em>different assemblies</em><span>&nbsp;(such as&nbsp;</span><a href="http://www.ncbi.nlm.nih.gov/assembly/2928/">hg18 (NCBI36)</a><span>&nbsp;&lt;=&gt;&nbsp;</span><a href="http://www.ncbi.nlm.nih.gov/assembly/2758/">hg19 (GRCh37)</a><span>). It supports commonly used file formats including&nbsp;</span><a href="https://samtools.github.io/hts-specs/SAMv1.pdf">BAM</a><span>,&nbsp;</span><a href="https://en.wikipedia.org/wiki/CRAM_(file_format)">CRAM</a><span>,&nbsp;</span><a href="https://en.wikipedia.org/wiki/SAM_(file_format)">SAM</a><span>,&nbsp;</span><a href="https://genome.ucsc.edu/goldenPath/help/wiggle.html">Wiggle</a><span>,&nbsp;</span><a href="https://genome.ucsc.edu/goldenPath/help/bigWig.html">BigWig</a><span>,&nbsp;</span><a href="https://genome.ucsc.edu/FAQ/FAQformat.html#format1">BED</a><span>,&nbsp;</span><a href="https://genome.ucsc.edu/FAQ/FAQformat.html#format3">GFF</a><span>,&nbsp;</span><a href="https://genome.ucsc.edu/FAQ/FAQformat.html#format4">GTF</a><span>,&nbsp;</span><a href="https://docs.gdc.cancer.gov/Data/File_Formats/MAF_Format/">MAF</a><span>&nbsp;</span><a href="https://samtools.github.io/hts-specs/VCFv4.2.pdf">VCF</a><span>, and&nbsp;</span><a href="https://sites.google.com/site/gvcftools/home/about-gvcf">gVCF</a><span>.</span></p><p>Address of the bookmark: <a href="http://crossmap.sourceforge.net/" rel="nofollow">http://crossmap.sourceforge.net/</a></p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
</item>

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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24041/junior-bioinformatic-position</guid>
  <pubDate>Wed, 26 Aug 2015 05:35:28 -0500</pubDate>
  <link></link>
  <title><![CDATA[Junior Bioinformatic position]]></title>
  <description><![CDATA[
<p>Junior Bioinformatic position in the laboratory of Inflammation and immunology in cardiovascular pathologies at Humanitas:</p>

<p>We are seeking a highly motivated young PhD student with strong interest in high throughput data analysis.<br />Detailed descriptions of our recent research activities may be found here:<br />http://www.humanitas-research.org/condorelli-gianluigi-md-phd/</p>

<p>Position is available starting from October/November. A probationary period of one month will be required.<br /> <br />Please send a CV along with a cover letter stating the reasons for applying and contact details of one or more referees to Dr. Paolo Kunderfranco (paolo.kunderfranco@humanitasresearch.it).</p>
]]></description>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/6268/project-fellow-national-institute-of-malaria-research</guid>
  <pubDate>Tue, 12 Nov 2013 07:40:51 -0600</pubDate>
  <link></link>
  <title><![CDATA[Project Fellow @ National Institute of Malaria Research]]></title>
  <description><![CDATA[
<p>National Institute of Malaria Research</p>

<p>Sector 8, Dwarka, Delhi -110077</p>

<p>WALK IN INTERVIEW</p>

<p>One position of project fellow is to be filled up in a DRL- funded research project on Molecular and morphological characterization of An. fluviatilis in North-eastern states and bordering areas. The position is purely temporary for one year and can be extended</p>

<p>Essential qualifications</p>

<p>Master’s degree in any branch of Life Sciences with hands on experience in molecular biology and/or bioinformatics.</p>

<p>Age limit: 28 years, (relaxation for SC/ST/OBC candidates as per government of India rules)</p>

<p>Stipend: Rs.12, 000.00 per month (fixed)</p>

<p>Eligible candidates may walk in for an interview on 15 November 2013 at 11 AM at the above mentioned address along with a copy of CV (with a passport size photograph affixed), photocopies of all mark sheets/certificates and originals (for verifications). No TA/DA will be paid for attending the interview .Registration of candidates will start at 10:00AM and end at 10:45 AM.</p>

<p>Advertisement: http://www.mrcindia.org/vacancy/add-4.doc</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/44307/genomenotebook</guid>
	<pubDate>Thu, 20 Apr 2023 13:19:01 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/44307/genomenotebook</link>
	<title><![CDATA[genomenotebook]]></title>
	<description><![CDATA[<p><a href="https://dbikard.github.io/genomenotebook/">https://dbikard.github.io/genomenotebook/</a></p>
<h2>Install<a href="https://dbikard.github.io/genomenotebook/#install"></a></h2>
<pre><code>pip install genomenotebook</code></pre>
<h2>How to use<a href="https://dbikard.github.io/genomenotebook/#how-to-use"></a></h2>
<p>Create a simple genome browser with a search bar. The sequence appears when zooming in.</p>
<div>
<div id="cb2">
<pre><code><span><a href="https://dbikard.github.io/genomenotebook/#cb2-1"></a><span>import</span> genomenotebook <span>as</span> gn</span>
<span><a href="https://dbikard.github.io/genomenotebook/#cb2-2"></a></span>
<span><a href="https://dbikard.github.io/genomenotebook/#cb2-3"></a>g<span>=</span>gn.GenomeBrowser(genome_path, gff_path, init_pos<span>=</span><span>10000</span>)</span>
<span><a href="https://dbikard.github.io/genomenotebook/#cb2-4"></a>g.show()</span></code><button title="Copy to Clipboard"></button></pre>
</div>
</div>
<p>Tracks can be added to visualize your favorite genomics data. See&nbsp;<code>Examples</code>&nbsp;for more !!!!</p><p>Address of the bookmark: <a href="https://dbikard.github.io/genomenotebook/" rel="nofollow">https://dbikard.github.io/genomenotebook/</a></p>]]></description>
	<dc:creator>Abhi</dc:creator>
</item>

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  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/6560/the-graveley-lab</guid>
  <pubDate>Tue, 19 Nov 2013 18:02:48 -0600</pubDate>
  <link></link>
  <title><![CDATA[The Graveley Lab]]></title>
  <description><![CDATA[
<p>Research in the Graveley lab is primarily focused on the regulation of alternative splicing and small RNA mediated gene regulation. These are fascinating and extraordinarily important mechanisms by which genes can be regulated. Our long-term goals are to understand how these processes are regulated at a mechanistic level and to understand the logic of these processes in significant biological settings. To achieve these goals, we strive to think outside the box to creatively attack the problems being addressed using a wide variety of approaches that include biochemistry, genetics, imaging, deep sequencing, large-scale RNAi screening and bioinformatics.</p>

<p>Lab page @ http://graveleylab.cam.uchc.edu/Graveley/index.html</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/44773/genetic-basis-of-tail-loss-evolution</guid>
	<pubDate>Tue, 04 Mar 2025 12:12:36 -0600</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/44773/genetic-basis-of-tail-loss-evolution</link>
	<title><![CDATA[Genetic basis of tail-loss evolution]]></title>
	<description><![CDATA[<p>The paper <em>"On the genetic basis of tail-loss evolution in humans and apes (https://www.nature.com/articles/s41586-024-07095-8)"</em>, published in <em>Nature</em>, investigates the genetic mechanisms that led to the loss of tails in humans and apes. The study suggests that a specific genetic mutation, involving the insertion of an <em>Alu</em> element (a type of transposable DNA sequence), played a critical role in the evolutionary transition from tailed primates to tailless hominoids.</p><h3><strong>Key Findings of the Study:</strong></h3><ol>
<li>
<p><strong>Alu Insertion and Tail Loss:</strong><br /> The researchers discovered an <em>Alu</em>-mediated genetic change in a common ancestor of modern apes and humans. This change disrupted the normal function of a gene involved in tail development, leading to the suppression of tail formation.</p>
</li>
<li>
<p><strong>Gene Disruption Mechanism:</strong><br /> The <em>Alu</em> insertion was found within a regulatory region of the <em>TBXT</em> gene (also known as <em>T</em> or <em>Brachyury</em>), which is crucial for tail development in vertebrates. This insertion likely altered the gene's expression patterns, leading to tail reduction over evolutionary time.</p>
</li>
<li>
<p><strong>Functional Evidence from Model Organisms:</strong><br /> To test their hypothesis, the researchers introduced similar genetic modifications in mice. The modified mice exhibited shortened or absent tails, supporting the idea that the identified mutation played a role in tail loss in hominoids.</p>
</li>
<li>
<p><strong>Evolutionary Implications:</strong><br /> The findings suggest that small, random genomic changes&mdash;such as transposable element insertions&mdash;can have profound effects on body morphology. This study provides evidence that mobile DNA elements (like <em>Alu</em>) can drive major evolutionary transitions.</p>
</li>
<li>
<p><strong>Relevance to Human Evolution:</strong><br /> Understanding the genetic basis of tail loss helps in reconstructing the evolutionary history of hominins (the lineage that includes humans and our extinct relatives). It also sheds light on how genetic variations contribute to anatomical diversity among primates.</p>
</li>
</ol><h3><strong>Significance of the Study:</strong></h3><p>This research highlights the role of transposable elements in shaping evolutionary traits and provides a concrete genetic explanation for a defining characteristic of humans and great apes. It also demonstrates how mutations in regulatory regions of developmental genes can lead to significant anatomical changes.</p>]]></description>
	<dc:creator>LEGE</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/7153/phd-student-in-computational-systems-biology</guid>
  <pubDate>Tue, 10 Dec 2013 18:46:05 -0600</pubDate>
  <link></link>
  <title><![CDATA[Ph.D. student in Computational Systems Biology]]></title>
  <description><![CDATA[
<p>Ph.D. student in Computational Systems Biology</p>

<p>Location : The Luxembourg Centre for Systems Biomedicine (LCSB) at the University of Luxembourg, Luxembourg, Luxembourg<br />Deadline for applications : unknown.<br />Description :</p>

<p>The Luxembourg Centre for Systems Biomedicine (LCSB) was created within the Health Technologies Initiative from the Government of Luxembourg as one of the research priorities of the University of Luxembourg. The LCSB is an Interdisciplinary Centre of the University that combines experimental and computational approaches to analyse complex biological systems and disease processes. The Computational Biology Group (CBG) provides the LCSB with a solid infrastructure in developing theoretical framework for computational modeling on biomedical problems, especially in the area of network biology in the context of cellular programming/reprogramming. The CBG group includes researchers with theoretical, computational and wet lab backgrounds, thereby providing an unusually interdisciplinary environment.<br />The Computational Biology Group seeks a highly-skilled Ph.D. student to work on an exciting project on reconstruction and analysis of an integrated gene regulatory network model to elucidate key mechanisms of cellular reprogramming. The model will rely on the integration and mining of diverse transcriptomics and epigenomics data of different cell types from the Central Nervous System. The Ph.D. student is expected to collaborate with other members of the CBG to develop a computational methodology aiming at designing, in-silico, cellular reprogramming events, with a focus on the nervous system. This project will be carried out in collaboration with Prof. Noel Buckleys lab at Kings College London.<br />Requirements of the ideal candidate:<br />Master degree in Bioinformatics, Computer Science, Biology or a related discipline<br />Prior experience in mathematical modelling of biological networks, especially in network inference and analysis<br />Excellent working knowledge in English.<br />.<br />We offer:<br />Full contract for Ph.D. student for three years with possibility of renewal<br />Opportunity to do applied research to medical problems within a highly dynamic research institution (LCSB) and in collaboration with internationally recognized partners<br />An exciting international environment<br />A very competitive salary</p>

<p>For further information, please contact:</p>

<p>Prof. Dr. Antonio del Sol<br />E-mail: antonio.delsol@uni.lu</p>

<p>Applications should contain the following documents:<br />A detailed curriculum vitae<br />cover letter mentioning the reference number<br />description of past research experience and future interests<br />name and addresses of three referees</p>

<p>All applications should be sent preferably in electronic version until December 31st, 2013 to the following address:</p>

<p>Luxembourg Centre for Systems Biomedicine (LCSB)<br />University of Luxembourg<br />7, avenue des Hauts-Fourneaux<br />L-4362 Esch-sur-Alzette<br />Tel: +352-466644-6982 (Office)<br />Email: antonio.delsol@uni.lu<br />http://www.lcsb.lu</p>
]]></description>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/42958/claus-peter-stelzer-lab</guid>
  <pubDate>Mon, 15 Mar 2021 15:24:41 -0500</pubDate>
  <link></link>
  <title><![CDATA[Claus-Peter Stelzer Lab]]></title>
  <description><![CDATA[
<p>Interested in various topics at the intersection of ecology and evolution. In my research I use rotifers as model organisms for experimental studies at the individual and population level. Rotifers are ideally suited for this, because populations of thousands can be kept in small containers in the lab, while single individuals can still be handled conveniently. </p>

<p>More at https://www.uibk.ac.at/limno/personnel/stelzer/index.html.en#research</p>
]]></description>
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