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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/26309?offset=1200</link>
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	<description><![CDATA[]]></description>
	
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43725/comparative-genomics-workshops</guid>
	<pubDate>Tue, 25 Jan 2022 20:39:58 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43725/comparative-genomics-workshops</link>
	<title><![CDATA[Comparative Genomics Workshops !]]></title>
	<description><![CDATA[<p><span>This meeting's objective was to obtain a big picture look at the current state of the field of comparative&nbsp;genomics with a focus on commonalities across genomic investigations into humans, model organisms&nbsp;(both traditional and non-traditional), agricultural species, wildlife species and microbes.</span></p>
<p>https://www.genome.gov/event-calendar/perspectives-in-comparative-genomics-and-evolution</p><p>Address of the bookmark: <a href="https://www.genome.gov/event-calendar/perspectives-in-comparative-genomics-and-evolution" rel="nofollow">https://www.genome.gov/event-calendar/perspectives-in-comparative-genomics-and-evolution</a></p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/17515/ngs-online-training</guid>
  <pubDate>Sat, 27 Sep 2014 07:42:29 -0500</pubDate>
  <link></link>
  <title><![CDATA[NGS Online Training]]></title>
  <description><![CDATA[
<p>ArrayGen Technologies announces to provide online NGS training through out the globe. Now analyze your own NGS datasets from anywhere.For more information contact us at training@arraygen.com</p>

<p>Please visit our site at www.arraygen.com</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/44491/cgviewjs-is-a-circular-genome-viewing-tool</guid>
	<pubDate>Wed, 27 Mar 2024 11:16:24 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/44491/cgviewjs-is-a-circular-genome-viewing-tool</link>
	<title><![CDATA[CGView.js is a Circular Genome Viewing tool]]></title>
	<description><![CDATA[<p>CGView.js is a&nbsp;<span>C</span>ircular&nbsp;<span>G</span>enome&nbsp;<span>View</span>ing tool for visualizing and interacting with small genomes. This software is an adaptation of the Java program&nbsp;<a href="https://paulstothard.github.io/cgview/">CGView</a>.</p>
<div>
<p>CGView.js is the genome viewer of Proksee, an expert system for genome assembly, annotation and visualization.</p>
<a href="https://proksee.ca/"></a></div>
<h1 id="features">Features</h1>
<ul>
<li>
<p>Circular and linear views of genomes</p>
</li>
<li>
<p>Capable of drawing genomes up to 10 Mbp with 1000's of features and 100's contigs</p>
</li>
<li>
<p>Smooth zooming down to the sequence level</p>
</li>
<li>
<p>Easily generate features and plots directly form the sequence (e.g. ORFs, GC-content and GC-Skew)</p>
</li>
<li>
<p>Save high resolution PNG maps up to 8000x8000px</p>
</li>
<li>
<p>Fully documented API for interacting with CGView.js maps</p>
</li>
</ul><p>Address of the bookmark: <a href="https://js.cgview.ca/" rel="nofollow">https://js.cgview.ca/</a></p>]]></description>
	<dc:creator>LEGE</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/44754/early-genome-screening-the-new-health-horoscope</guid>
	<pubDate>Thu, 02 Jan 2025 19:44:36 -0600</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/44754/early-genome-screening-the-new-health-horoscope</link>
	<title><![CDATA[Early Genome Screening: The New Health Horoscope!]]></title>
	<description><![CDATA[<p>In an era where precision medicine is reshaping healthcare, genome screening is emerging as the modern equivalent of a health horoscope. It offers insights into our biological "stars," unraveling predispositions to various conditions and empowering individuals with knowledge to navigate their health journeys proactively. But how reliable is this "horoscope," and how does it impact our lives?</p><h3>Understanding Genome Screening</h3><p>Genome screening involves analyzing an individual's DNA to identify genetic variations that may influence health and disease susceptibility. This can range from simple single-gene tests to comprehensive whole-genome sequencing. By peering into our genetic blueprint, we can uncover risks for conditions like cancer, diabetes, cardiovascular diseases, and even rare genetic disorders.</p><p>The process is straightforward: a saliva or blood sample is collected, and advanced sequencing technologies decipher the genetic code. The results provide a personalized health map, guiding lifestyle modifications, preventive measures, or medical interventions.</p><h3>A Shift from Reactive to Proactive Healthcare</h3><p>Traditional healthcare often focuses on treating diseases after they manifest. Genome screening flips this model on its head, enabling a shift toward prevention and early intervention. For instance:</p><ul>
<li>
<p><strong>Cancer Risk Management</strong>: Individuals with BRCA1 or BRCA2 gene mutations can opt for enhanced screening programs or preventive surgeries to mitigate their risk of breast and ovarian cancers.</p>
</li>
<li>
<p><strong>Cardiovascular Health</strong>: Genetic predispositions to conditions like familial hypercholesterolemia can prompt early cholesterol monitoring and lifestyle adjustments.</p>
</li>
<li>
<p><strong>Rare Diseases</strong>: Identifying carriers of genetic disorders can aid in family planning and reduce the incidence of inherited conditions.</p>
</li>
</ul><h3>The Ethical and Practical Concerns</h3><p>While genome screening offers incredible promise, it is not without challenges:</p><ol>
<li>
<p><strong>Accuracy and Interpretation</strong>: Genetic predisposition does not guarantee disease. Misinterpretation of results can lead to unnecessary anxiety or unwarranted medical interventions.</p>
</li>
<li>
<p><strong>Privacy and Data Security</strong>: Genetic data is highly sensitive. Ensuring robust data protection measures is crucial to prevent misuse.</p>
</li>
<li>
<p><strong>Accessibility and Equity</strong>: High costs and limited availability may restrict access to genome screening, exacerbating health disparities.</p>
</li>
</ol><h3>Balancing Science and Pseudoscience</h3><p>The comparison of genome screening to horoscopes isn&rsquo;t entirely unfounded. Both offer predictive insights, but the scientific foundation of genome screening distinguishes it from astrology. Unlike the alignment of celestial bodies, genetic predictions are based on rigorous data and evidence. However, the probabilistic nature of genetic predispositions underscores the importance of interpreting results in conjunction with clinical and lifestyle factors.</p><h3>The Road Ahead</h3><p>As genome screening becomes more affordable and integrated into routine healthcare, its potential to transform lives is immense. Policymakers, healthcare providers, and genetic counselors must collaborate to ensure ethical implementation, public awareness, and equitable access.</p><p>Imagine a future where your genetic "horoscope" is a trusted guide, not just a prediction. Early genome screening could help chart a healthier path for generations, making it a cornerstone of personalized medicine. After all, our genes might just hold the key to unlocking a future of better health and well-being.</p><p>&nbsp;</p>]]></description>
	<dc:creator>LEGE</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/17966/internship-program-for-bioinformatics-biotechnology-professionals-no-of-vacancy-2</guid>
  <pubDate>Wed, 08 Oct 2014 01:10:08 -0500</pubDate>
  <link></link>
  <title><![CDATA[Internship Program for Bioinformatics / Biotechnology Professionals (No. Of Vacancy: 2)]]></title>
  <description><![CDATA[
<p>ArrayGen is offering an Internship Program for Post graduate Bioinformatics / Biotechnology students and professionals. ArrayGen Technologies provide an excellent opportunity to gain research experience and explore if a scientific career is right for you. Currently we offer positions to outstanding students interested in Next Generation Sequencing (NGS) data analysis. Applications are accepted throughout the year. Accepted students will be listed on web with their schedules. Accepted students can attend our future workshops and trainings freely at the specified venue.</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/view/2044</guid>
	<pubDate>Mon, 12 Aug 2013 12:19:29 -0500</pubDate>
	<link>https://bioinformaticsonline.com/view/2044</link>
	<title><![CDATA[Does anyone have Nanopore latest updates?]]></title>
	<description><![CDATA[<p>There was a lot of buzz about&nbsp;<span>Oxford Nanopore Technologies&reg; is developing the GridION&trade; system and miniaturised MinION&trade; device. These are a new generation of electronic molecular analysis system for use in scientific research, personalised medicine, crop science, security/defence and more. The platform technology uses nanopores to analyse single molecules including DNA/RNA and proteins. With a broad patent portfolio, the Oxford Nanopore pipeline includes biological nanopores and solid-state nanopores.</span></p><p>Is this available, or still under trial mode?&nbsp;</p><p><a href="https://www.nanoporetech.com/">https://www.nanoporetech.com/</a></p><p><a href="https://www.nanoporetech.com/technology/the-minion-device-a-miniaturised-sensing-system/the-minion-device-a-miniaturised-sensing-system">https://www.nanoporetech.com/technology/the-minion-device-a-miniaturised-sensing-system/the-minion-device-a-miniaturised-sensing-system</a></p>]]></description>
	<dc:creator>Poonam Mahapatra</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/21150/webinar-on-an-integrated-rna-and-dna-approach-to-unravel-genetic-regulation-in-cancer</guid>
	<pubDate>Wed, 11 Feb 2015 04:59:57 -0600</pubDate>
	<link>https://bioinformaticsonline.com/news/view/21150/webinar-on-an-integrated-rna-and-dna-approach-to-unravel-genetic-regulation-in-cancer</link>
	<title><![CDATA[Webinar on 'An integrated RNA and DNA approach to unravel genetic regulation in cancer']]></title>
	<description><![CDATA[<div><p><strong>Webinar on 'An integrated RNA and DNA approach to unravel genetic regulation in cancer'</strong></p><p><strong>Abstract</strong></p><p>Whole exome DNA sequencing (WES) or whole genome DNA sequencing (WGS) allows detection of mutations and polymorphisms in all exonic and genomic regions, respectively, while messenger RNA sequencing (RNA-Seq) enables quantitative analysis of gene expression. Mutations in the genome result in diverse transcriptional aberrations that can be missed in a stand-alone WES/WGS analysis. An integration of DNA variant analysis and RNA-Seq analysis enables one to investigate the consequences of genomic changes in the RNA transcripts including germline and somatic changes, imprinting, RNA editing and allele specific expression (ASE). In this webinar, we will demonstrate this integrated approach using Strand NGS to identify high confidence mutations, RNA editing events and ASE in cancer.</p><p><strong>Webinar Details</strong></p><table width="100%" border="1" cellspacing="0" cellpadding="0">
<tbody>
<tr>
<td valign="top">
<p style="text-align: center;"><br /> <strong>Sessions</strong></p>
</td>
<td valign="top">
<p style="text-align: center;"><a href="http://www.strand-ngs.com/webinar_registration"><strong>San Francisco Time<br /> (PST)</strong></a></p>
</td>
<td valign="top">
<p style="text-align: center;"><a href="http://www.strand-ngs.com/webinar_registration"><strong>Tokyo Time<br /> (GMT+09:00)</strong></a></p>
</td>
<td valign="top">
<p style="text-align: center;"><a href="http://www.strand-ngs.com/webinar_registration"><strong>Berlin Time<br /> (GMT+01:00)</strong></a></p>
</td>
<td valign="top">
<p style="text-align: center;"><a href="http://www.strand-ngs.com/webinar_registration"><strong>Mumbai Time<br /> (GMT+05:30)</strong></a></p>
</td>
</tr>
<tr>
<td>
<p style="text-align: center;"><a href="http://www.strand-ngs.com/webinar_registration"><strong>Session 1</strong></a></p>
</td>
<td valign="top">
<p style="text-align: center;">25 Feb&nbsp;<br /> 12:30 AM</p>
</td>
<td>
<p style="text-align: center;">25 Feb&nbsp;<br /> 5:30 PM</p>
</td>
<td>
<p style="text-align: center;">25 Feb&nbsp;<br /> 9:30 AM</p>
</td>
<td>
<p style="text-align: center;">25 Feb&nbsp;<br /> 2:00 PM</p>
</td>
</tr>
<tr>
<td valign="top">
<p style="text-align: center;"><a href="http://www.strand-ngs.com/webinar_registration"><strong>Session 2</strong></a></p>
</td>
<td valign="top">
<p style="text-align: center;">25 Feb&nbsp;<br /> 9:00 AM</p>
</td>
<td>
<p style="text-align: center;">26 Feb<br /> 2:00 AM</p>
</td>
<td>
<p style="text-align: center;">25 Feb&nbsp;<br /> 6:00 PM</p>
</td>
<td>
<p style="text-align: center;">25 Feb&nbsp;<br /> 10:30 PM</p>
</td>
</tr>
</tbody>
</table><p><strong style="font-size: 12.8000001907349px;">Register here: </strong><a href="http://www.strand-ngs.com/webinar_registration">http://www.strand-ngs.com/webinar_registration</a></p><p><strong>About Speaker:</strong></p><p>Dr. Veena Hedatale, has a PhD in Plant Genetics from The Radboud University, Netherlands focused on meiosis and recombination. Her prior academic experience at Cornell University was on genetic mapping and gene transformation in Rice. She has worked with Monsanto, and contributed to data mining, database development as well as gene/promoter/pathway discovery for traits related to yield and stress in crop species. At Strand, Veena has worked on Pharmacogenomic analysis of targets and Gene family analysis projects. Currently, she is part of the Strand NGS Application Science team and is involved in the analysis of next generation sequencing data.</p><p>Please feel free to contact us 24/5, for availing free online training or if you have any questions.</p></div><div><p><strong style="font-size: 12.8000001907349px;">Email:</strong> sales@strandngs.com</p><p><strong>Phone (USA):</strong> 1-800-752-9122</p><p><strong>Phone (ROW):</strong> +1-650-353-5060</p><p>&nbsp;</p></div>]]></description>
	<dc:creator>Yeshodari</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/29407/live-webinar-on-rna-seq-data-analysis-on-9-nov-2016</guid>
	<pubDate>Wed, 19 Oct 2016 05:25:27 -0500</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/29407/live-webinar-on-rna-seq-data-analysis-on-9-nov-2016</link>
	<title><![CDATA[Live Webinar on RNA-Seq Data Analysis on 9 Nov 2016]]></title>
	<description><![CDATA[<p><strong><a href="http://www.strand-ngs.com/webinar_registration">Live Webinar on RNA-Seq Data Analysis</a></strong></p><p><a href="http://www.strand-ngs.com/webinar_registration">Abstract: </a>Strand NGS supports an extensive workflow for the analysis and visualization of RNA-Seq data. The workflow includes Transcriptome / Genome alignment, Differential expression analysis with Statistical approach and Splicing events detection. Strand NGS also supports novel discovery like identification of novel genes, exons and Novel splice junctions, alongside it can also detect gene fusion events. Further downstream analysis such as GO and pathway analysis can be performed on the set of interesting genes. The product has an option to create pipelines for time consuming jobs which automates analysis and leaves more time for end data interpretation. This webinar will give an overview of the features in the RNA-Seq data analysis workflow in Strand NGS and also highlights on parameters within each feature that can be optimized depending on datasets and analysis needs.</p><p><a href="http://www.strand-ngs.com/webinar_registration">Speaker:</a> Mr. Sugandan Sivamani, Senior Application Scientist, Strand Life Sciences</p><p>Date: 9th Nov, <a href="http://www.strand-ngs.com/webinar_registration">Session 1</a> for SAPK/ APFO: 2:30 PM IST Date: 9th Nov, <a href="http://www.strand-ngs.com/webinar_registration">Session 2</a> for AFO/ EMEA: 9:00 AM PST</p><p>Register here <a href="http://www.strand-ngs.com/webinar_registration">http://www.strand-ngs.com/webinar_registration</a></p>]]></description>
	<dc:creator>Strand</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>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/33486/quick-next-generation-sequencing-ngs-terms-definition</guid>
	<pubDate>Fri, 09 Jun 2017 04:52:26 -0500</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/33486/quick-next-generation-sequencing-ngs-terms-definition</link>
	<title><![CDATA[Quick next generation sequencing (NGS) terms definition]]></title>
	<description><![CDATA[<p><strong>fragment size:</strong><span>&nbsp;the Illumina WGS protocol generates paired-end reads from both ends of longer fragments. The lengths of these fragments are assumed to be sampled from a normal distribution. Therefore, in the absence of structural variants, mapping locations of the paired ends span within an interval [&delta;min,&delta;max]. Most (&gt;90%) of paired-end reads are sampled from no-SV regions, therefore the fragment size distribution can be learned empirically for each WGS data set separately.</span><br /><br /><strong>concordant reads:</strong><span>&nbsp;a read pair is called concordant if they can be mapped to the reference genome as &ldquo;expected&rdquo;: (a) mapped to opposing strands where the upstream read is mapped to the forward strand and the downstream read is mapped to the reverse strand2, (b) the distance between ends is between the minimum and maximum expected fragment size.</span><br /><br /><strong>discordant reads:</strong><span>&nbsp;briefly, any non-concordant read pair is considered discordant. Note that, by definition, the discordant read pairs signal potential SVs. The sequence signature produced by these type of reads is known as read-pair signature.</span><br /><br /><strong>split reads:</strong><span>&nbsp;a read that can only be mapped to the reference genome by breaking into two sub-reads is called a split-read. These types of reads also indicate a potential SV or a short insertion or deletion (indel).</span><br /><br /><strong>read depth:</strong><span>&nbsp;number of reads that map within a region of the genome. Overall genome-wide read depth is also referred to as depth of coverage. It is expected that the number of reads that &ldquo;cover&rdquo; each base-pair to follow a Poisson distribution. Therefore, if the read depth over a certain region deviates significantly from this distribution, it signals for a potential copy number variation (CNV).</span></p>]]></description>
	<dc:creator>Neel</dc:creator>
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