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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/38176?offset=430</link>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/44775/genomic-architecture-surrounding-the-fusion-site-of-human-chromosome-2</guid>
	<pubDate>Tue, 04 Mar 2025 12:26:29 -0600</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/44775/genomic-architecture-surrounding-the-fusion-site-of-human-chromosome-2</link>
	<title><![CDATA[Genomic architecture surrounding the fusion site of human chromosome 2]]></title>
	<description><![CDATA[<p>The article <strong>"Genomic Structure and Evolution of the Ancestral Chromosome Fusion Site in 2q13&ndash;2q14.1 and Paralogous Regions on Other Human Chromosomes (https://pmc.ncbi.nlm.nih.gov/articles/PMC187548/)"</strong> explores the genomic architecture surrounding the fusion site of human chromosome 2. This fusion event is a key evolutionary marker distinguishing humans from other great apes, as humans have 46 chromosomes while chimpanzees, gorillas, and orangutans possess 48. The fusion occurred through an end-to-end joining of two ancestral chromosomes, which remain separate in nonhuman primates.</p><h3><strong>Key Findings:</strong></h3><ol>
<li>
<p><strong>Chromosomal Fusion and Its Molecular Signature:</strong></p>
<ul>
<li>The fusion site is located at <strong>2q13&ndash;2q14.1</strong> and is characterized by <strong>degenerate telomeric sequences</strong> appearing interstitially, indicating the historical head-to-head joining of ancestral chromosomes.</li>
<li>Despite being a signature of a past fusion event, these telomeric repeats are no longer functional and have undergone sequence degradation over time.</li>
</ul>
</li>
<li>
<p><strong>Extensive Duplications in the Surrounding Genomic Region:</strong></p>
<ul>
<li>The study identifies <strong>large-scale segmental duplications</strong> flanking the fusion site, with several of these regions duplicated and scattered across multiple chromosomes.</li>
<li>These duplications are predominantly located in <strong>subtelomeric and pericentromeric regions</strong>, suggesting their role in genomic instability and chromosomal evolution.</li>
</ul>
</li>
<li>
<p><strong>Paralogous Regions and Their Evolutionary Relationships:</strong></p>
<ul>
<li>A <strong>168-kilobase (kb) segment</strong> near the fusion site has <strong>98%&ndash;99% sequence identity</strong> with three regions on <strong>chromosome 9 (9pter, 9p11.2, and 9q13)</strong>.</li>
<li>Another <strong>67-kb region distal to the fusion site</strong> shows a high degree of homology to sequences in <strong>chromosome 22qter</strong>.</li>
<li>Additionally, a <strong>100-kb segment</strong> exhibits <strong>96% sequence identity</strong> with a region in <strong>chromosome 2q11.2</strong>.</li>
</ul>
</li>
<li>
<p><strong>Comparative Genomics and Evolutionary Implications:</strong></p>
<ul>
<li>By comparing the duplicated sequences and their arrangement in primates, the researchers traced the order of duplication events leading to their present distribution.</li>
<li>The presence of specific repetitive elements within these duplicated segments serves as <strong>evolutionary markers</strong> that help infer their historical rearrangements.</li>
<li>Some of these <strong>duplicated regions are associated with chromosomal inversion breakpoints</strong>, potentially contributing to evolutionary changes in primates.</li>
<li>Recurrent <strong>structural rearrangements</strong> in these regions have been linked to human chromosomal disorders.</li>
</ul>
</li>
</ol><h3><strong>Conclusions and Implications:</strong></h3><ul>
<li>The findings provide valuable insights into <strong>the structural evolution of human chromosome 2</strong>, which played a crucial role in human speciation.</li>
<li>Understanding these <strong>segmental duplications</strong> and their evolutionary trajectories sheds light on <strong>genomic instability</strong>, which may contribute to <strong>human genetic diseases</strong>.</li>
<li>The study highlights how large-scale chromosomal rearrangements, such as fusion and duplication, have influenced the <strong>evolutionary divergence of humans</strong> from other primates.</li>
</ul><p>This research advances our understanding of <strong>human genome evolution</strong> and offers a foundation for studying the effects of <strong>structural variants in genetic disorders</strong>.</p>]]></description>
	<dc:creator>LEGE</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/9204/keep-your-important-ssh-session-running-when-you-disconnect-from-server</guid>
	<pubDate>Sat, 15 Mar 2014 21:39:17 -0500</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/9204/keep-your-important-ssh-session-running-when-you-disconnect-from-server</link>
	<title><![CDATA[Keep Your Important SSH Session Running when You Disconnect from Server !!!]]></title>
	<description><![CDATA[<p>As a Bioinformatician/ Computational biologist we swim in the ocean of genomic/proteomics data, and play with them with an ease. In our day to day simulation, analysis, comparative study we do need to run exhaustive programs, which might take more than a week. In such cases we do need to disconnect from sever in a way that our program/session should not get terminated. To do so there are lots of software, tools such as tmux ( <a href="http://tmux.sourceforge.net/">http://tmux.sourceforge.net/</a>, nohup (<a href="http://ss64.com/bash/nohup.html">http://ss64.com/bash/nohup.html</a>) , byobu (<a href="https://help.ubuntu.com/10.04/serverguide/byobu.html">https://help.ubuntu.com/10.04/serverguide/byobu.html</a>) and other commands (disown -a &amp;&amp; exit), but following are the ones I use the most.</p><p>Screen is like a window manager for your console. It will allow you to keep multiple terminal sessions running and easily switch between them. It also protects you from disconnection, because the screen session doesn&rsquo;t end when you get disconnected.<br /><br />You&rsquo;ll need to make sure that screen is installed on the server you are connecting to. If that server is Ubuntu or Debian, just use this command:<br /><br />sudo apt-get install screen<br /><br />Now you can start a new screen session by just typing screen at the command line. You&rsquo;ll be shown some information about screen. Hit enter, and you&rsquo;ll be at a normal prompt.<br /><br /><strong>To disconnect (but leave the session running)</strong><br /><br />Hit Ctrl + A and then Ctrl + D in immediate succession. You will see the message [detached]<br /><br /><strong>To reconnect to an already running session</strong><br /><br />screen -r<br /><br /><strong>To reconnect to an existing session, or create a new one if none exists</strong><br /><br />screen -D -r<br /><br /><strong>To create a new window inside of a running screen session</strong><br /><br />Hit Ctrl + A and then C in immediate succession. You will see a new prompt.<br /><br /><strong>To switch from one screen window to another</strong><br /><br />Hit Ctrl + A and then Ctrl + A in immediate succession.<br /><br /><strong>To list open screen windows</strong><br /><br />Hit Ctrl + A and then W in immediate succession</p>]]></description>
	<dc:creator>Jitendra Narayan</dc:creator>
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