<?xml version="1.0" encoding="ISO-8859-1"?><article xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
<front>
<journal-meta>
<journal-id>1405-5546</journal-id>
<journal-title><![CDATA[Computación y Sistemas]]></journal-title>
<abbrev-journal-title><![CDATA[Comp. y Sist.]]></abbrev-journal-title>
<issn>1405-5546</issn>
<publisher>
<publisher-name><![CDATA[Instituto Politécnico Nacional, Centro de Investigación en Computación]]></publisher-name>
</publisher>
</journal-meta>
<article-meta>
<article-id>S1405-55462018000401595</article-id>
<article-id pub-id-type="doi">10.13053/cys-22-4-2883</article-id>
<title-group>
<article-title xml:lang="es"><![CDATA[Evaluación de la influencia de los recursos computacionales en la variabilidad y calidad de ensamblaje de novo de transcriptoma]]></article-title>
<article-title xml:lang="en"><![CDATA[Evaluation of the Influence of Computational Resources on Transcriptome de Novo Assembly Variability and Quality]]></article-title>
</title-group>
<contrib-group>
<contrib contrib-type="author">
<name>
<surname><![CDATA[Carvajal López]]></surname>
<given-names><![CDATA[Patricia]]></given-names>
</name>
<xref ref-type="aff" rid="Aff"/>
</contrib>
<contrib contrib-type="author">
<name>
<surname><![CDATA[Von Borstel Luna]]></surname>
<given-names><![CDATA[Fernando D.]]></given-names>
</name>
<xref ref-type="aff" rid="Aff"/>
</contrib>
<contrib contrib-type="author">
<name>
<surname><![CDATA[Gutiérrez Jagüey]]></surname>
<given-names><![CDATA[Joaquín]]></given-names>
</name>
<xref ref-type="aff" rid="Aff"/>
</contrib>
<contrib contrib-type="author">
<name>
<surname><![CDATA[Mejía Ruiz]]></surname>
<given-names><![CDATA[Humberto]]></given-names>
</name>
<xref ref-type="aff" rid="Aff"/>
</contrib>
<contrib contrib-type="author">
<name>
<surname><![CDATA[Rustici]]></surname>
<given-names><![CDATA[Gabriela]]></given-names>
</name>
<xref ref-type="aff" rid="Aff"/>
</contrib>
<contrib contrib-type="author">
<name>
<surname><![CDATA[Romero Vivas]]></surname>
<given-names><![CDATA[Eduardo]]></given-names>
</name>
<xref ref-type="aff" rid="Aff"/>
</contrib>
</contrib-group>
<aff id="Af1">
<institution><![CDATA[,Instituto Politécnico Nacional  ]]></institution>
<addr-line><![CDATA[ ]]></addr-line>
<country>Mexico</country>
</aff>
<aff id="Af2">
<institution><![CDATA[,Cambridge University Genetics Department ]]></institution>
<addr-line><![CDATA[ ]]></addr-line>
<country>UK</country>
</aff>
<pub-date pub-type="pub">
<day>00</day>
<month>12</month>
<year>2018</year>
</pub-date>
<pub-date pub-type="epub">
<day>00</day>
<month>12</month>
<year>2018</year>
</pub-date>
<volume>22</volume>
<numero>4</numero>
<fpage>1595</fpage>
<lpage>1612</lpage>
<copyright-statement/>
<copyright-year/>
<self-uri xlink:href="http://www.scielo.org.mx/scielo.php?script=sci_arttext&amp;pid=S1405-55462018000401595&amp;lng=en&amp;nrm=iso"></self-uri><self-uri xlink:href="http://www.scielo.org.mx/scielo.php?script=sci_abstract&amp;pid=S1405-55462018000401595&amp;lng=en&amp;nrm=iso"></self-uri><self-uri xlink:href="http://www.scielo.org.mx/scielo.php?script=sci_pdf&amp;pid=S1405-55462018000401595&amp;lng=en&amp;nrm=iso"></self-uri><abstract abstract-type="short" xml:lang="es"><p><![CDATA[Resumen: El contenido de ARN se descifra con fragmentación aleatoria, lo que genera millones de secuencias, que en ausencia de referencias se reconstruyen basándose en algoritmos que usan intensivamente recursos computacionales. Diversos factores afectan el resultado de dicho proceso. Este estudio considera por primera vez cómo la asignación de memoria/núcleos influye sobre la calidad y variabilidad del ensamblaje. Se realizaron múltiples ensamblajespara 2 organismos modelo, en una plataforma monolítica y dos de cómputo de alto desempeño. Se encontraron mayores variabilidades decontigsen equipos monolíticos con poca memoria (1.98 y 2.10 veces más que HPC); sin embargo, gran parte de estos (99.16% y 75.79%) mapearon al transcriptoma de referencia demostrando ser de calidad. Por tanto, contrariamente a lo esperado, se observó que una estrategia de ensamblajes múltiples en un equipo de bajos recursos supera el uso de plataformas de alto rendimiento para el descubrimiento de ARNs.]]></p></abstract>
<abstract abstract-type="short" xml:lang="en"><p><![CDATA[Abstract: RNA content is deciphered by random fragmentation of biomolecules, generating millions of sequences. In lack of references these sequences are reconstructed relying on algorithms that require intensive use of computational resources. Numerous factors affect this process. This study explores for the first time how memory/core allocation on reconstruction processes influences assembly quality and variability. Multiple de novo assemblies for two model organisms were obtained from one monolithic platform and two High Performance Computers. Low memory monolithic platforms observed greater variability (1.98 &amp; 2.10 times greater than HPC); however, most of the obtained contigs (99.16% &amp; 75.79%) mapped to the reference transcriptome, thus proving good quality. Therefore, contrary to what was expected, using low-resource equipment when applying assembly strategies that unify numerous assemblies outperforms HPCs on RNA discovery.]]></p></abstract>
<kwd-group>
<kwd lng="es"><![CDATA[ARN]]></kwd>
<kwd lng="es"><![CDATA[secuenciación NGS]]></kwd>
<kwd lng="es"><![CDATA[RNA-Seq]]></kwd>
<kwd lng="es"><![CDATA[efecto de memoria en ensamblaje]]></kwd>
<kwd lng="es"><![CDATA[HPC]]></kwd>
<kwd lng="es"><![CDATA[optimización de ensamblaje]]></kwd>
<kwd lng="en"><![CDATA[RNA]]></kwd>
<kwd lng="en"><![CDATA[NGS sequencing]]></kwd>
<kwd lng="en"><![CDATA[RNS-Seq]]></kwd>
<kwd lng="en"><![CDATA[memory effect on assembly]]></kwd>
<kwd lng="en"><![CDATA[HPC]]></kwd>
<kwd lng="en"><![CDATA[assembly optimization]]></kwd>
</kwd-group>
</article-meta>
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