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                  <text>Dominio científico: Coronavirus</text>
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                <text>Tetranucleotide usage highlights genomic heterogeneity among mycobacteriophages [version 2; referees: 2 approved]</text>
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                <text>Benjamin Siranosian, Sudheesha Perera, Edward Williams, Chen Ye, Christopher de Graffenried, Peter Shank</text>
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                <text>Background The genomic sequences of mycobacteriophages, phages infecting mycobacterial hosts, are diverse and mosaic. Mycobacteriophages often share little nucleotide similarity, but most of them have been grouped into lettered clusters and further into subclusters. Traditionally, mycobacteriophage genomes are analyzed based on sequence alignment or knowledge of gene content. However, these approaches are computationally expensive and can be ineffective for significantly diverged sequences. As an alternative to alignment-based genome analysis, we evaluated tetranucleotide usage in mycobacteriophage genomes. These methods make it easier to characterize features of the mycobacteriophage population at many scales. Description We computed tetranucleotide usage deviation (TUD), the ratio of observed counts of 4-mers in a genome to the expected count under a null model. TUD values are comparable between members of a phage subcluster and distinct between subclusters. With few exceptions, neighbor joining phylogenetic trees and hierarchical clustering dendrograms constructed using TUD values place phages in a monophyletic clade with members of the same subcluster. Regions in a genome with exceptional TUD values can point to interesting features of genomic architecture. Finally, we found that subcluster B3 mycobacteriophages contain significantly overrepresented 4-mers and 6-mers that are atypical of phage genomes. Conclusions Statistics based on tetranucleotide usage support established clustering of mycobacteriophages and can uncover interesting relationships within and between sequenced phage genomes. These methods are efficient to compute and do not require sequence alignment or knowledge of gene content. The code to download mycobacteriophage genome sequences and reproduce our analysis is freely available at https://github.com/bsiranosian/tango_final.</text>
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                <text>2015</text>
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                <text>Bioinformatics, Genomics</text>
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                <text>DOI: 10.12688/f1000research.6077.2</text>
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                <text>F1000 Research Ltd</text>
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                <text>Biology (General), Medicine</text>
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                <text>Significant relaxation of SARS-CoV-2-targeted non-pharmaceutical interventions may result in profound mortality: A New York state modelling study.</text>
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                <text>Benjamin U Hoffman</text>
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                <text>Severe acute respiratory syndrome-coronavirus 2 (SARS-CoV-2) is the most significant global health crisis of the 21st century. The aim of this study was to develop a model to simulate the effect of undocumented infections, seasonal infectivity, immunity, and non-pharmaceutical interventions (NPIs) on the transmission, morbidity, and mortality of SARS-CoV-2 in New York State (NYS) based on data collected between March 4 and April 28, 2020. Simulations predict that undocumented infections significantly contribute to infectivity, NPIs are effective in reducing morbidity and mortality, and relaxation &gt;50% of NPIs from initial lock-down levels may result in tens-of-thousands more deaths. Endemic infection is likely to occur in the absence of sustained immunity. As a result, until an effective vaccine or other effective pharmaceutical intervention is developed, the risks of significantly reducing NPIs should be carefully considered. This study employs modelling to simulate fundamental characteristics of SARS-CoV-2 transmission, which can help policymakers navigate combating this virus in the coming years.</text>
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                <text>2020</text>
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                <text>10.1371/journal.pone.0239647</text>
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                <text>Epidemiology and Health</text>
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                <text>Korean Society of Epidemiology</text>
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                  <text>Agricultura sostenible</text>
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                  <text>Dominio científico: Agricultura sostenible</text>
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                <text>Elementos objetivos y subjetivos en la calidad de vida de hogares rurales en Yehualtepec, Puebla</text>
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                <text>Benjamín Valeriano Peña Olvera, Nila Marcial Romero, José Sergio Escobedo Garrido, Antonio Macías López</text>
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              <elementText elementTextId="202132">
                <text>Estudios recientes consideran aspectos objetivos y subjetivos para medir la calidad de vida. En el presente estudio el objetivo es cuantificar la calidad de vida de hogares en cuatro localidades de alta marginación en Yehualtepec, Puebla, considerando elementos objetivos y subjetivos, lo que permite identificar factores de riesgo que deben formar parte de la agenda municipal. La metodología aplicada consistió en talleres participativos y una encuesta estructurada en 72 hogares, con ello se construyó un indicador sintético de Calidad de vida. Entre los principales resultados, se encontro que 40% de los hogares sobreviven en condiciones de baja calidad de vida; los factores que explican esa situacion se ubican en las dimensiones subjetiva y objetiva, es decir, material, humana y de seguridad alimentaria. Limitaciones: el trabajo realizado en la región sur del estado de Puebla, aborda la situación de las familias en varias localidades de un municipio rural, con características específicas, representativo de esta zona del estado. Difícilmente resulta pertinente para intentar explicar la situación de todos los municipios con características similares. Quizá esa sea una limitación del estudio, no obstante, es superada por la propuesta metodológica, para medir esa situación, explicarla y atenderla, rescatando lo valioso del documento. Como conclusion se identifican factores objetivos en la diversidad dietética, y la percepcion subjetiva y salud, como factores asociados con calidad de vida en el hogar.</text>
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                <text>2016</text>
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                <text>agenda, desarrollo regional, factores, indicador sintético, salud y seguridad alimentaria</text>
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                <text>Estudios Sociales</text>
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                <text>Centro de Investigación en Alimentación y Desarrollo</text>
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            <description>The spatial or temporal topic of the resource, the spatial applicability of the resource, or the jurisdiction under which the resource is relevant</description>
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                <text>Social sciences (General), Nutrition. Foods and food supply</text>
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                <text>&lt;a href="http://www.redalyc.org/articulo.oa?id=41746402010" target="_blank" rel="noreferrer noopener"&gt;http://www.redalyc.org/articulo.oa?id=41746402010&lt;/a&gt;</text>
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                <text>The difficult clearance of the elective surgical backlog caused by the cancellation of cases due to the COVID-19 pandemic.</text>
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                <text>Benoit Samson</text>
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                <text>Canadian journal of anaesthesia = Journal canadien d'anesthesie</text>
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                <text>A sinopsis of the genus Puya (Bromeliaceae) in department of Antioquia (Colombia) is provided. Four species are recognized, and the first records for the Central Cordillera are presented. Two new species, P. ochroleuca and P. roldanií, are described, illustrated and their relationships, ecology and geographical distribution discussed.Se presenta una sinopsis del género Puya (Bromeliaceae) para el departamento de Antioquia (Colombia). Se reconocen cuatro especies, entre las que se incluyen los primeros registros del género para la cordillera central. Se describen e ilustran dos especies nuevas, P. ochroleuca y P. roldanií, y se discuten sus relaciones taxonómicas, ecología y distribución geográfica.</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="40">
            <name>Date</name>
            <description>A point or period of time associated with an event in the lifecycle of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="174482">
                <text>1997</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="49">
            <name>Subject</name>
            <description>The topic of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="174483">
                <text>Bromeliaceae, Distribución geográfica, Nuevas especies, Puya, ecología, páramo, taxonomia, vegetación paramuna</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="48">
            <name>Source</name>
            <description>A related resource from which the described resource is derived</description>
            <elementTextContainer>
              <elementText elementTextId="174484">
                <text>Caldasia</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="45">
            <name>Publisher</name>
            <description>An entity responsible for making the resource available</description>
            <elementTextContainer>
              <elementText elementTextId="174485">
                <text>Universidad Nacional de Colombia</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="38">
            <name>Coverage</name>
            <description>The spatial or temporal topic of the resource, the spatial applicability of the resource, or the jurisdiction under which the resource is relevant</description>
            <elementTextContainer>
              <elementText elementTextId="174486">
                <text>Science, Botany, Zoology</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="46">
            <name>Relation</name>
            <description>A related resource</description>
            <elementTextContainer>
              <elementText elementTextId="174487">
                <text>&lt;a href="http://www.revistas.unal.edu.co/index.php/cal/article/view/17388" target="_blank" rel="noreferrer noopener"&gt;http://www.revistas.unal.edu.co/index.php/cal/article/view/17388&lt;/a&gt;</text>
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  </item>
  <item itemId="2068" public="1" featured="0">
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        <src>https://www.socictopen.socict.org/files/original/4138d780ffd7d191a271036f0590d720.pdf</src>
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            <element elementId="50">
              <name>Title</name>
              <description>A name given to the resource</description>
              <elementTextContainer>
                <elementText elementTextId="1">
                  <text>Coronavirus</text>
                </elementText>
              </elementTextContainer>
            </element>
            <element elementId="41">
              <name>Description</name>
              <description>An account of the resource</description>
              <elementTextContainer>
                <elementText elementTextId="2">
                  <text>Dominio científico: Coronavirus</text>
                </elementText>
              </elementTextContainer>
            </element>
          </elementContainer>
        </elementSet>
      </elementSetContainer>
    </collection>
    <itemType itemTypeId="1">
      <name>Text</name>
      <description>A resource consisting primarily of words for reading. Examples include books, letters, dissertations, poems, newspapers, articles, archives of mailing lists. Note that facsimiles or images of texts are still of the genre Text.</description>
    </itemType>
    <elementSetContainer>
      <elementSet elementSetId="1">
        <name>Dublin Core</name>
        <description>The Dublin Core metadata element set is common to all Omeka records, including items, files, and collections. For more information see, http://dublincore.org/documents/dces/.</description>
        <elementContainer>
          <element elementId="50">
            <name>Title</name>
            <description>A name given to the resource</description>
            <elementTextContainer>
              <elementText elementTextId="19865">
                <text>Rapid phylogenetic and functional classification of short genomic fragments with signature peptides</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="39">
            <name>Creator</name>
            <description>An entity primarily responsible for making the resource</description>
            <elementTextContainer>
              <elementText elementTextId="19866">
                <text>Berendzen Joel, Bruno William J, Cohn Judith D, Hengartner Nicolas W, Kuske Cheryl R, McMahon Benjamin H, Wolinsky Murray A, Xie Gary</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="41">
            <name>Description</name>
            <description>An account of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="19867">
                <text>Abstract Background Classification is difficult for shotgun metagenomics data from environments such as soils, where the diversity of sequences is high and where reference sequences from close relatives may not exist. Approaches based on sequence-similarity scores must deal with the confounding effects that inheritance and functional pressures exert on the relation between scores and phylogenetic distance, while approaches based on sequence alignment and tree-building are typically limited to a small fraction of gene families. We describe an approach based on finding one or more exact matches between a read and a precomputed set of peptide 10-mers. Results At even the largest phylogenetic distances, thousands of 10-mer peptide exact matches can be found between pairs of bacterial genomes. Genes that share one or more peptide 10-mers typically have high reciprocal BLAST scores. Among a set of 403 representative bacterial genomes, some 20 million 10-mer peptides were found to be shared. We assign each of these peptides as a signature of a particular node in a phylogenetic reference tree based on the RNA polymerase genes. We classify the phylogeny of a genomic fragment (e.g., read) at the most specific node on the reference tree that is consistent with the phylogeny of observed signature peptides it contains. Using both synthetic data from four newly-sequenced soil-bacterium genomes and ten real soil metagenomics data sets, we demonstrate a sensitivity and specificity comparable to that of the MEGAN metagenomics analysis package using BLASTX against the NR database. Phylogenetic and functional similarity metrics applied to real metagenomics data indicates a signal-to-noise ratio of approximately 400 for distinguishing among environments. Our method assigns ~6.6 Gbp/hr on a single CPU, compared with 25 kbp/hr for methods based on BLASTX against the NR database. Conclusions Classification by exact matching against a precomputed list of signature peptides provides comparable results to existing techniques for reads longer than about 300 bp and does not degrade severely with shorter reads. Orders of magnitude faster than existing methods, the approach is suitable now for inclusion in analysis pipelines and appears to be extensible in several different directions.</text>
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            </elementTextContainer>
          </element>
          <element elementId="40">
            <name>Date</name>
            <description>A point or period of time associated with an event in the lifecycle of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="19868">
                <text>2012</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="43">
            <name>Identifier</name>
            <description>An unambiguous reference to the resource within a given context</description>
            <elementTextContainer>
              <elementText elementTextId="19869">
                <text>DOI: 10.1186/1756-0500-5-460</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="48">
            <name>Source</name>
            <description>A related resource from which the described resource is derived</description>
            <elementTextContainer>
              <elementText elementTextId="19870">
                <text>BMC Research Notes</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="45">
            <name>Publisher</name>
            <description>An entity responsible for making the resource available</description>
            <elementTextContainer>
              <elementText elementTextId="19871">
                <text>BMC</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="38">
            <name>Coverage</name>
            <description>The spatial or temporal topic of the resource, the spatial applicability of the resource, or the jurisdiction under which the resource is relevant</description>
            <elementTextContainer>
              <elementText elementTextId="19872">
                <text>Biology (General), Science (General), Medicine</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="44">
            <name>Language</name>
            <description>A language of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="19873">
                <text>EN</text>
              </elementText>
            </elementTextContainer>
          </element>
        </elementContainer>
      </elementSet>
    </elementSetContainer>
  </item>
  <item itemId="26308" public="1" featured="0">
    <fileContainer>
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        <src>https://www.socictopen.socict.org/files/original/0e076dc067a6d0e52faf9b7cb03e1b96.pdf</src>
        <authentication>742769a30b4fb531e42ad9673d2327cd</authentication>
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    </fileContainer>
    <collection collectionId="2">
      <elementSetContainer>
        <elementSet elementSetId="1">
          <name>Dublin Core</name>
          <description>The Dublin Core metadata element set is common to all Omeka records, including items, files, and collections. For more information see, http://dublincore.org/documents/dces/.</description>
          <elementContainer>
            <element elementId="50">
              <name>Title</name>
              <description>A name given to the resource</description>
              <elementTextContainer>
                <elementText elementTextId="88121">
                  <text>Agricultura sostenible</text>
                </elementText>
              </elementTextContainer>
            </element>
            <element elementId="41">
              <name>Description</name>
              <description>An account of the resource</description>
              <elementTextContainer>
                <elementText elementTextId="88122">
                  <text>Dominio científico: Agricultura sostenible</text>
                </elementText>
              </elementTextContainer>
            </element>
          </elementContainer>
        </elementSet>
      </elementSetContainer>
    </collection>
    <itemType itemTypeId="1">
      <name>Text</name>
      <description>A resource consisting primarily of words for reading. Examples include books, letters, dissertations, poems, newspapers, articles, archives of mailing lists. Note that facsimiles or images of texts are still of the genre Text.</description>
    </itemType>
    <elementSetContainer>
      <elementSet elementSetId="1">
        <name>Dublin Core</name>
        <description>The Dublin Core metadata element set is common to all Omeka records, including items, files, and collections. For more information see, http://dublincore.org/documents/dces/.</description>
        <elementContainer>
          <element elementId="50">
            <name>Title</name>
            <description>A name given to the resource</description>
            <elementTextContainer>
              <elementText elementTextId="229127">
                <text>POTENCIAL DE Canavalia maritima E Indigofera hirsuta COMO FORRAJE PARA RUMIANTES</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="39">
            <name>Creator</name>
            <description>An entity primarily responsible for making the resource</description>
            <elementTextContainer>
              <elementText elementTextId="229128">
                <text>Berenice Pinacho López, José Roberto Sanginés García, Jaime Arroyo Ledezma, Hector Magaña Sevilla</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="41">
            <name>Description</name>
            <description>An account of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="229129">
                <text>Para evaluar el potencial de Canavalia maritima e Indigofera hirsuta en la alimentación de rumiantes en zonas costeras tropicales, se colectaron muestras de las plantas y se analizaron para Proteína cruda (PC), Fibra detergente neutro (FDN), Fibra detergente ácido (FDA), extracto etéreo (EE) y digestibilidad in vitro (DIV) en un digestor Daisy II (Ankom Technology). Para las hojas de C. maritima se encontraron valores porcentuales 14.89 PC, 23.13 FDN, 37.50 FDA, 3.21 EE y 65.84 DIV, los tallos de 6.74 PC, 47.99 FDN, 66.73FDA, 1.45 EE, 58.33 DIV; las semillas 28.18 PC, 32.21 FDN, 43.78 FDA, 1.25 EE y 82.86 DIV. Para las hojas de I. hirsuta, 23.04 PC, 18.57 FDN, 35.25 FDA, 3.14 EE, y 44.55 DIV los tallos 4.84 PC, 62.63 FDN, 77.98 FDA, 1.41 EE y 26.05 DIV. Hojas y tallos de C. marítima pueden emplearse en la alimentación de rumiantes. Los valores de digestibilidad de I. hirsuta son bajos, pero por el porcentaje de proteína en las hojas puede ser utilizada como abono verde. Se recomiendan evaluaciones a diferentes edades de corte y pruebas de consumo.</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="40">
            <name>Date</name>
            <description>A point or period of time associated with an event in the lifecycle of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="229130">
                <text>2009</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="49">
            <name>Subject</name>
            <description>The topic of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="229131">
                <text>Forrajes nativos, Silvopastoril</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="48">
            <name>Source</name>
            <description>A related resource from which the described resource is derived</description>
            <elementTextContainer>
              <elementText elementTextId="229132">
                <text>Revista Verde de Agroecologia e Desenvolvimento Sustentável</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="45">
            <name>Publisher</name>
            <description>An entity responsible for making the resource available</description>
            <elementTextContainer>
              <elementText elementTextId="229133">
                <text>Grupo Verde de Agroecologia e Abelhas (GVAA)</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="38">
            <name>Coverage</name>
            <description>The spatial or temporal topic of the resource, the spatial applicability of the resource, or the jurisdiction under which the resource is relevant</description>
            <elementTextContainer>
              <elementText elementTextId="229134">
                <text>Agriculture (General), Geography. Anthropology. Recreation, Environmental sciences</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="46">
            <name>Relation</name>
            <description>A related resource</description>
            <elementTextContainer>
              <elementText elementTextId="229135">
                <text>&lt;a href="https://www.gvaa.com.br/revista/index.php/RVADS/article/view/181" target="_blank" rel="noreferrer noopener"&gt;https://www.gvaa.com.br/revista/index.php/RVADS/article/view/181&lt;/a&gt;</text>
              </elementText>
            </elementTextContainer>
          </element>
        </elementContainer>
      </elementSet>
    </elementSetContainer>
  </item>
  <item itemId="9118" public="1" featured="0">
    <fileContainer>
      <file fileId="9118">
        <src>https://www.socictopen.socict.org/files/original/0d1eb731ec5d0fdeb8866cf9c98bca01.pdf</src>
        <authentication>420bda9f6339fa32a511f851554ff4e8</authentication>
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    <collection collectionId="1">
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        <elementSet elementSetId="1">
          <name>Dublin Core</name>
          <description>The Dublin Core metadata element set is common to all Omeka records, including items, files, and collections. For more information see, http://dublincore.org/documents/dces/.</description>
          <elementContainer>
            <element elementId="50">
              <name>Title</name>
              <description>A name given to the resource</description>
              <elementTextContainer>
                <elementText elementTextId="1">
                  <text>Coronavirus</text>
                </elementText>
              </elementTextContainer>
            </element>
            <element elementId="41">
              <name>Description</name>
              <description>An account of the resource</description>
              <elementTextContainer>
                <elementText elementTextId="2">
                  <text>Dominio científico: Coronavirus</text>
                </elementText>
              </elementTextContainer>
            </element>
          </elementContainer>
        </elementSet>
      </elementSetContainer>
    </collection>
    <itemType itemTypeId="1">
      <name>Text</name>
      <description>A resource consisting primarily of words for reading. Examples include books, letters, dissertations, poems, newspapers, articles, archives of mailing lists. Note that facsimiles or images of texts are still of the genre Text.</description>
    </itemType>
    <elementSetContainer>
      <elementSet elementSetId="1">
        <name>Dublin Core</name>
        <description>The Dublin Core metadata element set is common to all Omeka records, including items, files, and collections. For more information see, http://dublincore.org/documents/dces/.</description>
        <elementContainer>
          <element elementId="50">
            <name>Title</name>
            <description>A name given to the resource</description>
            <elementTextContainer>
              <elementText elementTextId="76345">
                <text>Beyond political affiliation: an examination of the relationships between social factors and perceptions of and responses to COVID-19.</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="39">
            <name>Creator</name>
            <description>An entity primarily responsible for making the resource</description>
            <elementTextContainer>
              <elementText elementTextId="76346">
                <text>Berkeley Franz, Lindsay Y Dhanani</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="41">
            <name>Description</name>
            <description>An account of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="76347">
                <text>A significant challenge in the United States' response to COVID-19 continues to be wide variation in the extent to which individuals believe the virus is a credible health threat and are willing to undertake measures to protect personal and public health. In this study, data were collected from a national sample of 1141 participants from the United States to examine how beliefs and behavioral responses to COVID-19 have been shaped by sociopolitical characteristics. The relationships between social predictors; perceived severity, knowledge, and fear of the virus; and health behaviors were tested using path analysis. Social characteristics significantly predicted perceived severity, knowledge, and fear, as well as health behaviors, even after controlling for an objective indicator of the risk of contracting the virus. Our findings suggest that perceptions and knowledge of the virus, especially believing that the virus poses a serious threat to one's individual health, are important determinants of behavior, but also that perceptions and knowledge are strongly driven by social and cultural factors above and beyond political affiliation.</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="40">
            <name>Date</name>
            <description>A point or period of time associated with an event in the lifecycle of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="76348">
                <text>2021</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="49">
            <name>Subject</name>
            <description>The topic of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="76349">
                <text>covid-19, risk, Health behaviors, politics, Social Factors, health beliefs</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="43">
            <name>Identifier</name>
            <description>An unambiguous reference to the resource within a given context</description>
            <elementTextContainer>
              <elementText elementTextId="76350">
                <text>10.1007/s10865-021-00226-w</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="48">
            <name>Source</name>
            <description>A related resource from which the described resource is derived</description>
            <elementTextContainer>
              <elementText elementTextId="76351">
                <text>Journal of behavioral medicine</text>
              </elementText>
            </elementTextContainer>
          </element>
        </elementContainer>
      </elementSet>
    </elementSetContainer>
  </item>
  <item itemId="1946" public="1" featured="0">
    <fileContainer>
      <file fileId="1946">
        <src>https://www.socictopen.socict.org/files/original/4262d453400b98f662a9cd04068cc12c.pdf</src>
        <authentication>e4397339dcb0fdf721349958eaa419c8</authentication>
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    </fileContainer>
    <collection collectionId="1">
      <elementSetContainer>
        <elementSet elementSetId="1">
          <name>Dublin Core</name>
          <description>The Dublin Core metadata element set is common to all Omeka records, including items, files, and collections. For more information see, http://dublincore.org/documents/dces/.</description>
          <elementContainer>
            <element elementId="50">
              <name>Title</name>
              <description>A name given to the resource</description>
              <elementTextContainer>
                <elementText elementTextId="1">
                  <text>Coronavirus</text>
                </elementText>
              </elementTextContainer>
            </element>
            <element elementId="41">
              <name>Description</name>
              <description>An account of the resource</description>
              <elementTextContainer>
                <elementText elementTextId="2">
                  <text>Dominio científico: Coronavirus</text>
                </elementText>
              </elementTextContainer>
            </element>
          </elementContainer>
        </elementSet>
      </elementSetContainer>
    </collection>
    <itemType itemTypeId="1">
      <name>Text</name>
      <description>A resource consisting primarily of words for reading. Examples include books, letters, dissertations, poems, newspapers, articles, archives of mailing lists. Note that facsimiles or images of texts are still of the genre Text.</description>
    </itemType>
    <elementSetContainer>
      <elementSet elementSetId="1">
        <name>Dublin Core</name>
        <description>The Dublin Core metadata element set is common to all Omeka records, including items, files, and collections. For more information see, http://dublincore.org/documents/dces/.</description>
        <elementContainer>
          <element elementId="50">
            <name>Title</name>
            <description>A name given to the resource</description>
            <elementTextContainer>
              <elementText elementTextId="18664">
                <text>Human coronavirus 229E encodes a single ORF4 protein between the spike and the envelope genes</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="39">
            <name>Creator</name>
            <description>An entity primarily responsible for making the resource</description>
            <elementTextContainer>
              <elementText elementTextId="18665">
                <text>Berkhout Ben, Franklin Sally, Minor Philip D, Zaaijer Hans L, Pyrc Krzysztof, Wilbrink Berry, Jebbink Maarten F, Dijkman Ronald, Thiel Volker, van der Hoek Lia</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="41">
            <name>Description</name>
            <description>An account of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="18666">
                <text>Abstract Background The genome of coronaviruses contains structural and non-structural genes, including several so-called accessory genes. All group 1b coronaviruses encode a single accessory protein between the spike and envelope genes, except for human coronavirus (HCoV) 229E. The prototype virus has a split gene, encoding the putative ORF4a and ORF4b proteins. To determine whether primary HCoV-229E isolates exhibit this unusual genome organization, we analyzed the ORF4a/b region of five current clinical isolates from The Netherlands and three early isolates collected at the Common Cold Unit (CCU) in Salisbury, UK. Results All Dutch isolates were identical in the ORF4a/b region at amino acid level. All CCU isolates are only 98% identical to the Dutch isolates at the nucleotide level, but more closely related to the prototype HCoV-229E (&gt;98%). Remarkably, our analyses revealed that the laboratory adapted, prototype HCoV-229E has a 2-nucleotide deletion in the ORF4a/b region, whereas all clinical isolates carry a single ORF, 660 nt in size, encoding a single protein of 219 amino acids, which is a homologue of the ORF3 proteins encoded by HCoV-NL63 and PEDV. Conclusion Thus, the genome organization of the group 1b coronaviruses HCoV-NL63, PEDV and HCoV-229E is identical. It is possible that extensive culturing of the HCoV-229E laboratory strain resulted in truncation of ORF4. This may indicate that the protein is not essential in cell culture, but the highly conserved amino acid sequence of the ORF4 protein among clinical isolates suggests that the protein plays an important role in vivo.</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="40">
            <name>Date</name>
            <description>A point or period of time associated with an event in the lifecycle of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="18667">
                <text>2006</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="43">
            <name>Identifier</name>
            <description>An unambiguous reference to the resource within a given context</description>
            <elementTextContainer>
              <elementText elementTextId="18668">
                <text>DOI: 10.1186/1743-422X-3-106</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="48">
            <name>Source</name>
            <description>A related resource from which the described resource is derived</description>
            <elementTextContainer>
              <elementText elementTextId="18669">
                <text>Virology Journal</text>
              </elementText>
            </elementTextContainer>
          </element>
          <element elementId="45">
            <name>Publisher</name>
            <description>An entity responsible for making the resource available</description>
            <elementTextContainer>
              <elementText elementTextId="18670">
                <text>BMC</text>
              </elementText>
            </elementTextContainer>
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            <description>The spatial or temporal topic of the resource, the spatial applicability of the resource, or the jurisdiction under which the resource is relevant</description>
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                <text>Infectious and parasitic diseases</text>
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        <src>https://www.socictopen.socict.org/files/original/23f06c445f360e1ae68dfcb456fc0808.pdf</src>
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              <name>Title</name>
              <description>A name given to the resource</description>
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                  <text>Coronavirus</text>
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                  <text>Dominio científico: Coronavirus</text>
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                <text>A novel pancoronavirus RT-PCR assay: frequent detection of human coronavirus NL63 in children hospitalized with respiratory tract infections in Belgium</text>
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                <text>Berkhout Ben, Pyrc Krzysztof, Maes Piet, Li Sandra, Zlateva Kalina, Keyaerts Els, Vijgen Leen, Moës Elien, van der Hoek Lia, Van Ranst Marc</text>
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                <text>Abstract Background Four human coronaviruses are currently known to infect the respiratory tract: human coronaviruses OC43 (HCoV-OC43) and 229E (HCoV-229E), SARS associated coronavirus (SARS-CoV) and the recently identified human coronavirus NL63 (HCoV-NL63). In this study we explored the incidence of HCoV-NL63 infection in children diagnosed with respiratory tract infections in Belgium. Methods Samples from children hospitalized with respiratory diseases during the winter seasons of 2003 and 2004 were evaluated for the presence of HCoV-NL63 using a optimized pancoronavirus RT-PCR assay. Results Seven HCoV-NL63 positive samples were identified, six were collected during January/February 2003 and one at the end of February 2004. Conclusions Our results support the notation that HCoV-NL63 can cause serious respiratory symptoms in children. Sequence analysis of the S gene showed that our isolates could be classified into two subtypes corresponding to the two prototype HCoV-NL63 sequences isolated in The Netherlands in 1988 and 2003, indicating that these two subtypes may currently be cocirculating.</text>
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                <text>2005</text>
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                <text>DOI: 10.1186/1471-2334-5-6</text>
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            <name>Source</name>
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                <text>BMC Infectious Diseases</text>
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                <text>BMC</text>
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            <name>Coverage</name>
            <description>The spatial or temporal topic of the resource, the spatial applicability of the resource, or the jurisdiction under which the resource is relevant</description>
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              <elementText elementTextId="9519">
                <text>Infectious and parasitic diseases</text>
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            <name>Language</name>
            <description>A language of the resource</description>
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                <text>EN</text>
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