Functional Genome Annotation by Combined Analysis across Microarray Studies of Trypanosoma brucei
Events
Loading … Spinner

Mendeley | Further Information

{"title"=>"Functional genome annotation by combined analysis across microarray studies of Trypanosoma brucei", "type"=>"journal", "authors"=>[{"first_name"=>"Hamed Shateri", "last_name"=>"Najafabadi", "scopus_author_id"=>"55891600100"}, {"first_name"=>"Reza", "last_name"=>"Salavati", "scopus_author_id"=>"6603665188"}], "year"=>2010, "source"=>"PLoS Neglected Tropical Diseases", "identifiers"=>{"pmid"=>"20824174", "sgr"=>"78149277399", "doi"=>"10.1371/journal.pntd.0000810", "scopus"=>"2-s2.0-78149277399", "pui"=>"359899857", "isbn"=>"5143987857", "issn"=>"1935-2735"}, "id"=>"29aae5a9-628e-3011-a5ef-f2ff9991142b", "abstract"=>"BACKGROUND: Functional annotation of trypanosomatid genomes has been a daunting task due to the low similarity of their genes with annotated genes of other organisms. Three recent studies have provided gene expression profiles in several different conditions and life stages for one of the main disease-causing trypanosomatids, Trypanosoma brucei. These data can be used to study the gene functions and regulatory mechanisms in this organism.\\n\\nMETHODOLOGY/PRINCIPAL FINDINGS: Combining the data from three different microarray studies of T. brucei, we show that functional linkages among T. brucei genes can be identified based on gene coexpression, leading to a powerful approach for gene function prediction. These predictions can be further improved by considering the expression profiles of orthologous genes from other trypanosomatids. Furthermore, gene expression profiles can be used to discover potential regulatory elements within 3' untranslated regions.\\n\\nCONCLUSIONS/SIGNIFICANCE: These results suggest that although trypanosomatids do not regulate genes at transcription level, trypanosomatid genes with related functions are coregulated post-transcriptionally via modulation of mRNA stability, implying the presence of complex regulatory networks in these organisms. Our analysis highlights the demand for a thorough transcript profiling of T. brucei genome in parallel with other trypanosomatid genomes, which can provide a powerful means to improve their functional annotation.", "link"=>"http://www.mendeley.com/research/functional-genome-annotation-combined-analysis-across-microarray-studies-trypanosoma-brucei-1", "reader_count"=>22, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>2, "Researcher"=>2, "Student > Doctoral Student"=>1, "Student > Ph. D. Student"=>4, "Student > Postgraduate"=>2, "Student > Master"=>9, "Professor"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>2, "Researcher"=>2, "Student > Doctoral Student"=>1, "Student > Ph. D. Student"=>4, "Student > Postgraduate"=>2, "Student > Master"=>9, "Professor"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>1, "Biochemistry, Genetics and Molecular Biology"=>2, "Agricultural and Biological Sciences"=>18, "Computer Science"=>1}, "reader_count_by_subdiscipline"=>{"Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>18}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}, "Unspecified"=>{"Unspecified"=>1}}, "reader_count_by_country"=>{"Brazil"=>1, "United Kingdom"=>1, "Peru"=>1, "Germany"=>1}, "group_count"=>0}

Scopus | Further Information

{"@_fa"=>"true", "link"=>[{"@_fa"=>"true", "@ref"=>"self", "@href"=>"https://api.elsevier.com/content/abstract/scopus_id/78149277399"}, {"@_fa"=>"true", "@ref"=>"author-affiliation", "@href"=>"https://api.elsevier.com/content/abstract/scopus_id/78149277399?field=author,affiliation"}, {"@_fa"=>"true", "@ref"=>"scopus", "@href"=>"https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=78149277399&origin=inward"}, {"@_fa"=>"true", "@ref"=>"scopus-citedby", "@href"=>"https://www.scopus.com/inward/citedby.uri?partnerID=HzOxMe3b&scp=78149277399&origin=inward"}], "prism:url"=>"https://api.elsevier.com/content/abstract/scopus_id/78149277399", "dc:identifier"=>"SCOPUS_ID:78149277399", "eid"=>"2-s2.0-78149277399", "dc:title"=>"Functional genome annotation by combined analysis across microarray studies of Trypanosoma brucei", "dc:creator"=>"Najafabadi H.", "prism:publicationName"=>"PLoS Neglected Tropical Diseases", "prism:volume"=>"4", "prism:issueIdentifier"=>"8", "prism:pageRange"=>nil, "prism:coverDate"=>"2010-08-01", "prism:coverDisplayDate"=>"August 2010", "prism:doi"=>"10.1371/journal.pntd.0000810", "citedby-count"=>"6", "pubmed-id"=>"20824174", "prism:aggregationType"=>"Journal", "subtype"=>"ar", "subtypeDescription"=>"Article", "article-number"=>"e810", "source-id"=>"11900154404", "openaccess"=>"1", "openaccessFlag"=>true}

Facebook

  • {"url"=>"http%3A%2F%2Fjournals.plos.org%2Fplosntds%2Farticle%3Fid%3D10.1371%252Fjournal.pntd.0000810", "share_count"=>0, "like_count"=>0, "comment_count"=>0, "click_count"=>0, "total_count"=>0}

Counter

  • {"month"=>"8", "year"=>"2010", "pdf_views"=>"6", "xml_views"=>"0", "html_views"=>"29"}
  • {"month"=>"9", "year"=>"2010", "pdf_views"=>"55", "xml_views"=>"6", "html_views"=>"223"}
  • {"month"=>"10", "year"=>"2010", "pdf_views"=>"12", "xml_views"=>"2", "html_views"=>"41"}
  • {"month"=>"11", "year"=>"2010", "pdf_views"=>"17", "xml_views"=>"0", "html_views"=>"38"}
  • {"month"=>"12", "year"=>"2010", "pdf_views"=>"12", "xml_views"=>"0", "html_views"=>"35"}
  • {"month"=>"1", "year"=>"2011", "pdf_views"=>"4", "xml_views"=>"2", "html_views"=>"34"}
  • {"month"=>"2", "year"=>"2011", "pdf_views"=>"5", "xml_views"=>"0", "html_views"=>"27"}
  • {"month"=>"3", "year"=>"2011", "pdf_views"=>"6", "xml_views"=>"0", "html_views"=>"28"}
  • {"month"=>"4", "year"=>"2011", "pdf_views"=>"7", "xml_views"=>"0", "html_views"=>"16"}
  • {"month"=>"5", "year"=>"2011", "pdf_views"=>"6", "xml_views"=>"0", "html_views"=>"20"}
  • {"month"=>"6", "year"=>"2011", "pdf_views"=>"4", "xml_views"=>"1", "html_views"=>"16"}
  • {"month"=>"7", "year"=>"2011", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"18"}
  • {"month"=>"8", "year"=>"2011", "pdf_views"=>"1", "xml_views"=>"1", "html_views"=>"18"}
  • {"month"=>"9", "year"=>"2011", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"36"}
  • {"month"=>"10", "year"=>"2011", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"21"}
  • {"month"=>"11", "year"=>"2011", "pdf_views"=>"5", "xml_views"=>"1", "html_views"=>"20"}
  • {"month"=>"12", "year"=>"2011", "pdf_views"=>"8", "xml_views"=>"0", "html_views"=>"24"}
  • {"month"=>"1", "year"=>"2012", "pdf_views"=>"5", "xml_views"=>"0", "html_views"=>"15"}
  • {"month"=>"2", "year"=>"2012", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"17"}
  • {"month"=>"3", "year"=>"2012", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"29"}
  • {"month"=>"4", "year"=>"2012", "pdf_views"=>"9", "xml_views"=>"3", "html_views"=>"20"}
  • {"month"=>"5", "year"=>"2012", "pdf_views"=>"7", "xml_views"=>"0", "html_views"=>"28"}
  • {"month"=>"6", "year"=>"2012", "pdf_views"=>"1", "xml_views"=>"1", "html_views"=>"20"}
  • {"month"=>"7", "year"=>"2012", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"16"}
  • {"month"=>"8", "year"=>"2012", "pdf_views"=>"2", "xml_views"=>"4", "html_views"=>"8"}
  • {"month"=>"9", "year"=>"2012", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"37"}
  • {"month"=>"10", "year"=>"2012", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"10"}
  • {"month"=>"11", "year"=>"2012", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"20"}
  • {"month"=>"12", "year"=>"2012", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"12"}
  • {"month"=>"1", "year"=>"2013", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"39"}
  • {"month"=>"2", "year"=>"2013", "pdf_views"=>"5", "xml_views"=>"1", "html_views"=>"31"}
  • {"month"=>"3", "year"=>"2013", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"34"}
  • {"month"=>"4", "year"=>"2013", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"25"}
  • {"month"=>"5", "year"=>"2013", "pdf_views"=>"5", "xml_views"=>"0", "html_views"=>"23"}
  • {"month"=>"6", "year"=>"2013", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"23"}
  • {"month"=>"7", "year"=>"2013", "pdf_views"=>"0", "xml_views"=>"0", "html_views"=>"59"}
  • {"month"=>"8", "year"=>"2013", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"93"}
  • {"month"=>"9", "year"=>"2013", "pdf_views"=>"10", "xml_views"=>"2", "html_views"=>"88"}
  • {"month"=>"10", "year"=>"2013", "pdf_views"=>"5", "xml_views"=>"1", "html_views"=>"28"}
  • {"month"=>"11", "year"=>"2013", "pdf_views"=>"2", "xml_views"=>"1", "html_views"=>"25"}
  • {"month"=>"12", "year"=>"2013", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"68"}
  • {"month"=>"1", "year"=>"2014", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"132"}
  • {"month"=>"2", "year"=>"2014", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"165"}
  • {"month"=>"3", "year"=>"2014", "pdf_views"=>"0", "xml_views"=>"2", "html_views"=>"67"}
  • {"month"=>"4", "year"=>"2014", "pdf_views"=>"0", "xml_views"=>"2", "html_views"=>"8"}
  • {"month"=>"5", "year"=>"2014", "pdf_views"=>"1", "xml_views"=>"1", "html_views"=>"38"}
  • {"month"=>"6", "year"=>"2014", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"12"}
  • {"month"=>"7", "year"=>"2014", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"6"}
  • {"month"=>"8", "year"=>"2014", "pdf_views"=>"2", "xml_views"=>"2", "html_views"=>"19"}
  • {"month"=>"9", "year"=>"2014", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"21"}
  • {"month"=>"10", "year"=>"2014", "pdf_views"=>"3", "xml_views"=>"3", "html_views"=>"19"}
  • {"month"=>"11", "year"=>"2014", "pdf_views"=>"4", "xml_views"=>"2", "html_views"=>"80"}
  • {"month"=>"12", "year"=>"2014", "pdf_views"=>"3", "xml_views"=>"3", "html_views"=>"21"}
  • {"month"=>"1", "year"=>"2015", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"20"}
  • {"month"=>"2", "year"=>"2015", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"10"}
  • {"month"=>"3", "year"=>"2015", "pdf_views"=>"7", "xml_views"=>"1", "html_views"=>"11"}
  • {"month"=>"4", "year"=>"2015", "pdf_views"=>"6", "xml_views"=>"2", "html_views"=>"18"}
  • {"month"=>"5", "year"=>"2015", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"6"}
  • {"month"=>"6", "year"=>"2015", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"9"}
  • {"month"=>"7", "year"=>"2015", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"9"}
  • {"month"=>"8", "year"=>"2015", "pdf_views"=>"0", "xml_views"=>"0", "html_views"=>"2"}
  • {"month"=>"9", "year"=>"2015", "pdf_views"=>"0", "xml_views"=>"0", "html_views"=>"4"}
  • {"month"=>"10", "year"=>"2015", "pdf_views"=>"3", "xml_views"=>"1", "html_views"=>"7"}
  • {"month"=>"11", "year"=>"2015", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"11"}
  • {"month"=>"12", "year"=>"2015", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"7"}
  • {"month"=>"1", "year"=>"2016", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"6"}
  • {"month"=>"2", "year"=>"2016", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"7"}
  • {"month"=>"3", "year"=>"2016", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"14"}
  • {"month"=>"4", "year"=>"2016", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"16"}
  • {"month"=>"5", "year"=>"2016", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"17"}
  • {"month"=>"6", "year"=>"2016", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"6"}
  • {"month"=>"7", "year"=>"2016", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"2"}
  • {"month"=>"8", "year"=>"2016", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"13"}
  • {"month"=>"9", "year"=>"2016", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"13"}
  • {"month"=>"10", "year"=>"2016", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"4"}
  • {"month"=>"11", "year"=>"2016", "pdf_views"=>"0", "xml_views"=>"0", "html_views"=>"8"}
  • {"month"=>"12", "year"=>"2016", "pdf_views"=>"6", "xml_views"=>"1", "html_views"=>"2"}
  • {"month"=>"1", "year"=>"2017", "pdf_views"=>"2", "xml_views"=>"1", "html_views"=>"8"}
  • {"month"=>"2", "year"=>"2017", "pdf_views"=>"5", "xml_views"=>"2", "html_views"=>"16"}
  • {"month"=>"3", "year"=>"2017", "pdf_views"=>"4", "xml_views"=>"1", "html_views"=>"29"}
  • {"month"=>"4", "year"=>"2017", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"17"}
  • {"month"=>"5", "year"=>"2017", "pdf_views"=>"0", "xml_views"=>"0", "html_views"=>"7"}
  • {"month"=>"6", "year"=>"2017", "pdf_views"=>"0", "xml_views"=>"0", "html_views"=>"8"}
  • {"month"=>"7", "year"=>"2017", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"13"}
  • {"month"=>"8", "year"=>"2017", "pdf_views"=>"1", "xml_views"=>"1", "html_views"=>"3"}
  • {"month"=>"9", "year"=>"2017", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"10"}
  • {"month"=>"10", "year"=>"2017", "pdf_views"=>"2", "xml_views"=>"1", "html_views"=>"10"}
  • {"month"=>"11", "year"=>"2017", "pdf_views"=>"1", "xml_views"=>"1", "html_views"=>"7"}
  • {"month"=>"12", "year"=>"2017", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"7"}
  • {"month"=>"1", "year"=>"2018", "pdf_views"=>"5", "xml_views"=>"0", "html_views"=>"3"}
  • {"month"=>"2", "year"=>"2018", "pdf_views"=>"9", "xml_views"=>"0", "html_views"=>"3"}
  • {"month"=>"3", "year"=>"2018", "pdf_views"=>"0", "xml_views"=>"0", "html_views"=>"5"}
  • {"month"=>"4", "year"=>"2018", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"7"}
  • {"month"=>"5", "year"=>"2018", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"3"}
  • {"month"=>"6", "year"=>"2018", "pdf_views"=>"0", "xml_views"=>"0", "html_views"=>"2"}
  • {"month"=>"7", "year"=>"2018", "pdf_views"=>"0", "xml_views"=>"3", "html_views"=>"3"}
  • {"month"=>"8", "year"=>"2018", "pdf_views"=>"0", "xml_views"=>"1", "html_views"=>"0"}
  • {"month"=>"9", "year"=>"2018", "pdf_views"=>"0", "xml_views"=>"0", "html_views"=>"3"}
  • {"month"=>"10", "year"=>"2018", "pdf_views"=>"8", "xml_views"=>"1", "html_views"=>"6"}
  • {"month"=>"11", "year"=>"2018", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"2"}
  • {"month"=>"12", "year"=>"2018", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"3"}
  • {"month"=>"1", "year"=>"2019", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"4"}
  • {"month"=>"2", "year"=>"2019", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"7"}
  • {"month"=>"3", "year"=>"2019", "pdf_views"=>"4", "xml_views"=>"1", "html_views"=>"4"}
  • {"month"=>"4", "year"=>"2019", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"4"}
  • {"month"=>"5", "year"=>"2019", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"1"}

Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/832503"], "description"=>"<p>Precision-recall curve for each function is plotted separately. Recall or sensitivity for a particular pathway is defined as the fraction of genes of that pathway within the coexpression network whose function is correctly predicted. Precision indicates the fraction of the predictions that are correct. The CoExp<sup>1</sup><sub>Tbr</sub> network can successfully predict ribosome, oxidative phosphorylation, and purine metabolism genes (<b>A</b>), while CoExp<sup>2</sup><sub>Tbr</sub> is best at predicting ribosome, inositol phosphate metabolism, phosphatidylinositol signalling system, and glycolysis genes (<b>B</b>). The p-value thresholds were chosen to be at most 0.05 and result in a precision of at least 0.8. See Supplementary <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0000810#pntd.0000810.s006\" target=\"_blank\">Tables S1</a> and <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0000810#pntd.0000810.s007\" target=\"_blank\">S2</a> for complete set of predictions.</p>", "links"=>[], "tags"=>["coexpression"], "article_id"=>502880, "categories"=>["Genetics", "Virology", "Infectious Diseases", "Medicine"], "users"=>["Hamed Shateri Najafabadi", "Reza Salavati"], "doi"=>"https://dx.doi.org/10.1371/journal.pntd.0000810.g002", "stats"=>{"downloads"=>0, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Function_prediction_based_on_T_brucei_coexpression_networks_/502880", "title"=>"Function prediction based on <i>T. brucei</i> coexpression networks.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-08-31 00:48:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/832613"], "description"=>"<p>(<b>A</b>) Gene pairs that are functionally related are coexpressed in both <i>T. brucei</i> and <i>L. infantum</i>. Therefore, an enrichment of functional linkages can be observed where correlation coefficients are high for both <i>T. brucei</i> and <i>L. infantum</i> (the <i>x</i>-axis represents the correlation coefficients of gene pairs in <i>L. infantum</i>, while the <i>y</i>-axis represents that correlation coefficients in <i>T. brucei</i>). Enrichment was calculated as Pr(<i>c<sub>tbr</sub></i> = <i>x</i>±Δ,<i>c<sub>lif</sub></i> = <i>y</i>±Δ|<i>I</i>)/Pr(<i>c<sub>tbr</sub></i> = <i>x</i>±Δ,<i>c<sub>lif</sub></i> = <i>y</i>±Δ|<i>I′</i>), where <i>I</i> and <i>I′</i> represent sets of functionally associated and non-associated gene pairs according to KEGG, respectively. Also, <i>c<sub>tbr</sub></i> and <i>c<sub>lif</sub></i> respectively represent correlation coefficients in <i>T. brucei</i> and <i>L. infantum</i>. Δ was chosen to be 0.05. (<b>B</b>) By considering the conservation of coexpression between <i>T. brucei</i> and <i>L. infantum</i> (red), we can more accurately predict functional linkages, compared to predictions that are based solely on <i>T. brucei</i> data (yellow) or <i>L. infantum</i> (light blue). About 50% of gene pairs whose expression profiles have correlation coefficients greater than 0.89 in <i>T. brucei</i> and 0.56 in <i>L. infantum</i> are estimated to be functionally related (black circle). These gene pairs cover ∼11.9% of all <i>T. brucei</i> genes with unambiguous <i>L. infantum</i> orthologs. The resultant conserved coexpression network is provided in Supplementary <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0000810#pntd.0000810.s001\" target=\"_blank\">Dataset S1</a> and can also be downloaded at <a href=\"http://webpages.mcgill.ca/staff/Group2/rsalav/web/Suppl/20100109/index.htm\" target=\"_blank\">http://webpages.mcgill.ca/staff/Group2/rsalav/web/Suppl/20100109/index.htm</a>. (<b>C</b>) Ribosome, proteasome and oxidative phosphrylation genes can be identified based on the conserved coexpression network. See Supplementary <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0000810#pntd.0000810.s014\" target=\"_blank\">Table S9</a> for complete set of predictions.</p>", "links"=>[], "tags"=>["linkages"], "article_id"=>502992, "categories"=>["Genetics", "Virology", "Infectious Diseases", "Medicine"], "users"=>["Hamed Shateri Najafabadi", "Reza Salavati"], "doi"=>"https://dx.doi.org/10.1371/journal.pntd.0000810.g003", "stats"=>{"downloads"=>0, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Prediction_of_functional_linkages_based_on_conservation_of_coexpression_/502992", "title"=>"Prediction of functional linkages based on conservation of coexpression.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-08-31 00:49:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/414768", "https://ndownloader.figshare.com/files/414795", "https://ndownloader.figshare.com/files/414828", "https://ndownloader.figshare.com/files/414868", "https://ndownloader.figshare.com/files/414894", "https://ndownloader.figshare.com/files/414933", "https://ndownloader.figshare.com/files/414953", "https://ndownloader.figshare.com/files/414970", "https://ndownloader.figshare.com/files/414986", "https://ndownloader.figshare.com/files/414996", "https://ndownloader.figshare.com/files/415010", "https://ndownloader.figshare.com/files/415040", "https://ndownloader.figshare.com/files/415077", "https://ndownloader.figshare.com/files/415131", "https://ndownloader.figshare.com/files/415160"], "description"=>"<div><h3>Background</h3><p>Functional annotation of trypanosomatid genomes has been a daunting task due to the low similarity of their genes with annotated genes of other organisms. Three recent studies have provided gene expression profiles in several different conditions and life stages for one of the main disease-causing trypanosomatids, <em>Trypanosoma brucei</em>. These data can be used to study the gene functions and regulatory mechanisms in this organism.</p><h3>Methodology/Principal Findings</h3><p>Combining the data from three different microarray studies of <em>T. brucei</em>, we show that functional linkages among <em>T. brucei</em> genes can be identified based on gene coexpression, leading to a powerful approach for gene function prediction. These predictions can be further improved by considering the expression profiles of orthologous genes from other trypanosomatids. Furthermore, gene expression profiles can be used to discover potential regulatory elements within 3′ untranslated regions.</p><h3>Conclusions/Significance</h3><p>These results suggest that although trypanosomatids do not regulate genes at transcription level, trypanosomatid genes with related functions are coregulated post-transcriptionally via modulation of mRNA stability, implying the presence of complex regulatory networks in these organisms. Our analysis highlights the demand for a thorough transcript profiling of <em>T. brucei</em> genome in parallel with other trypanosomatid genomes, which can provide a powerful means to improve their functional annotation.</p></div>", "links"=>[], "tags"=>["genome", "annotation", "microarray", "studies"], "article_id"=>141894, "categories"=>["Genetics", "Cancer", "Medicine"], "users"=>["Hamed Shateri Najafabadi", "Reza Salavati"], "doi"=>["https://dx.doi.org/10.1371/journal.pntd.0000810.s001", "https://dx.doi.org/10.1371/journal.pntd.0000810.s002", "https://dx.doi.org/10.1371/journal.pntd.0000810.s003", "https://dx.doi.org/10.1371/journal.pntd.0000810.s004", "https://dx.doi.org/10.1371/journal.pntd.0000810.s005", "https://dx.doi.org/10.1371/journal.pntd.0000810.s006", "https://dx.doi.org/10.1371/journal.pntd.0000810.s007", "https://dx.doi.org/10.1371/journal.pntd.0000810.s008", "https://dx.doi.org/10.1371/journal.pntd.0000810.s009", "https://dx.doi.org/10.1371/journal.pntd.0000810.s010", "https://dx.doi.org/10.1371/journal.pntd.0000810.s011", "https://dx.doi.org/10.1371/journal.pntd.0000810.s012", "https://dx.doi.org/10.1371/journal.pntd.0000810.s013", "https://dx.doi.org/10.1371/journal.pntd.0000810.s014", "https://dx.doi.org/10.1371/journal.pntd.0000810.s015"], "stats"=>{"downloads"=>24, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Functional_Genome_Annotation_by_Combined_Analysis_across_Microarray_Studies_of_Trypanosoma_brucei_/141894", "title"=>"Functional Genome Annotation by Combined Analysis across Microarray Studies of <em>Trypanosoma brucei</em>", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2010-08-31 00:31:34"}
  • {"files"=>["https://ndownloader.figshare.com/files/832803"], "description"=>"<p>(<b>A</b>) <i>T. brucei</i> genes were grouped into 19 clusters based on their expression profiles (top panel; red: high expression, blue: low expression). FIRE <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0000810#pntd.0000810-Elemento1\" target=\"_blank\">[18]</a> was used to find potential regulatory motifs in the 3′ UTRs (lower panel; yellow and blue represent over-representation and under-representation of a motif within a cluster, respectively). (<b>B</b>) The motif [AC]U[AU]UUAAC occurs preferably between nucleotides 40 and 100 downstream of the stop codon in clusters 16 and 19, while its position is random in other clusters, such as cluster 1. Interestingly, both clusters 16 and 19 are enriched with genes involved in interspecies interaction (mostly surface antigens). (<b>C</b>) Some motif pairs co-occur in the 3′ UTRs. In this symmetric heat map, each row and each column corresponds to a predicted motif. Light color indicates that the presence of a motif in a 3′ UTR implies the presence of another motif within the same UTR. Significant spatial co-localization between pairs of motifs is shown by “+”. The full set of results along with additional analyses can be found at <a href=\"http://webpages.mcgill.ca/staff/Group2/rsalav/web/Suppl/20100109/index.htm\" target=\"_blank\">http://webpages.mcgill.ca/staff/Group2/rsalav/web/Suppl/20100109/index.htm</a>.</p>", "links"=>[], "tags"=>["elements", "microarray"], "article_id"=>503174, "categories"=>["Genetics", "Virology", "Infectious Diseases", "Medicine"], "users"=>["Hamed Shateri Najafabadi", "Reza Salavati"], "doi"=>"https://dx.doi.org/10.1371/journal.pntd.0000810.g004", "stats"=>{"downloads"=>1, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Finding_potential_regulatory_elements_based_on_a_combined_microarray_dataset_/503174", "title"=>"Finding potential regulatory elements based on a combined microarray dataset.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-08-31 00:52:54"}
  • {"files"=>["https://ndownloader.figshare.com/files/832361"], "description"=>"<p>(<b>A</b>) The correlation coefficients between genes were calculated for each <i>T. brucei</i> dataset separately, for the combination of the three datasets, and for a selected subset of the experiments. The probability density function (PDF) of correlation coefficients among functionally associated and non-associated genes is shown by blue and red, respectively. It can be seen that the data from the work by Kabani et al. <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0000810#pntd.0000810-Kabani1\" target=\"_blank\">[9]</a> are poorly correlated with functional linkages. This is while the other two datasets from Queiroz et al. and Jensen et al. <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0000810#pntd.0000810-Queiroz1\" target=\"_blank\">[10]</a>, <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0000810#pntd.0000810-Jensen1\" target=\"_blank\">[11]</a> can discriminate functionally linked gene pairs based on the higher correlations of their expression profiles. Consequently, the procedure that we used for selection of the best subset of the experiments automatically excluded the data from Kabani et al. <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0000810#pntd.0000810-Kabani1\" target=\"_blank\">[9]</a>, while retaining most of the experiments from the other two datasets (the right panel). The enrichment of functional linkages at a given correlation coefficient, shown by the thick black line, was calculated by dividing the values of the two PDFs. (<b>B</b>) Precision (positive predictive value, PPV) vs. ORFeome coverage for prediction of functional linkages based on coexpression is shown in this graph. ORFeome coverage is defined as the fraction of ORFs (open reading frames) with associated expression profiles that are coexpressed with at least one other ORF. By decreasing the threshold for identification of coexpressed pairs, more ORFs are included in the network, but the fraction of coexpression relationships that reflect functional linkages (i.e. precision) decreases. At a precision of 0.75, CoExp<sup>1</sup><sub>Tbr</sub> and CoExp<sup>2</sup><sub>Tbr</sub> include 10.7% and 55.4% of <i>T. brucei</i> ORFeome, respectively. The correlation coefficient cutoff for CoExp<sup>1</sup><sub>Tbr</sub> is 0.94 and for CoExp<sup>2</sup><sub>Tbr</sub> is 0.957. (<b>C</b>) In CoExp<sup>1</sup><sub>Tbr</sub>, functionally related genes cluster together. A global view of CoExp<sup>2</sup><sub>Tbr</sub> is also provided in panel (<b>D</b>). Stage-specific expressions are shown by node colors, with yellow for PF-specific and blue for BF-specific proteins. These two networks are provided in Supplementary <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0000810#pntd.0000810.s001\" target=\"_blank\">Dataset S1</a> and can also be downloaded at <a href=\"http://webpages.mcgill.ca/staff/Group2/rsalav/web/Suppl/20100109/index.htm\" target=\"_blank\">http://webpages.mcgill.ca/staff/Group2/rsalav/web/Suppl/20100109/index.htm</a>.</p>", "links"=>[], "tags"=>["microarray", "linkages"], "article_id"=>502734, "categories"=>["Genetics", "Virology", "Infectious Diseases", "Medicine"], "users"=>["Hamed Shateri Najafabadi", "Reza Salavati"], "doi"=>"https://dx.doi.org/10.1371/journal.pntd.0000810.g001", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Integration_of_microarray_data_for_identification_of_functional_linkages_among_genes_/502734", "title"=>"Integration of microarray data for identification of functional linkages among genes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-08-31 00:45:34"}

PMC Usage Stats | Further Information

  • {"scanned-page-browse"=>"0", "month"=>"9", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"20", "unique-ip"=>"19", "pdf"=>"10", "year"=>"2010", "figure"=>"9", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"month"=>"10", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"1", "full-text"=>"15", "year"=>"2010", "pdf"=>"14", "unique-ip"=>"19", "figure"=>"3", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"scanned-page-browse"=>"0", "month"=>"11", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"31", "unique-ip"=>"26", "pdf"=>"17", "year"=>"2010", "figure"=>"8", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"month"=>"12", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"1", "full-text"=>"25", "year"=>"2010", "pdf"=>"11", "unique-ip"=>"21", "figure"=>"7", "scanned-summary"=>"0", "supp-data"=>"2"}
  • {"scanned-page-browse"=>"0", "month"=>"1", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"13", "unique-ip"=>"12", "pdf"=>"6", "year"=>"2011", "figure"=>"3", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"month"=>"2", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"15", "year"=>"2011", "pdf"=>"7", "unique-ip"=>"11", "figure"=>"0", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"scanned-page-browse"=>"0", "month"=>"3", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"13", "unique-ip"=>"11", "pdf"=>"5", "year"=>"2011", "figure"=>"9", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"month"=>"4", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"2", "full-text"=>"12", "year"=>"2011", "pdf"=>"2", "unique-ip"=>"12", "figure"=>"3", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"scanned-page-browse"=>"0", "month"=>"5", "cited-by"=>"0", "abstract"=>"1", "full-text"=>"16", "unique-ip"=>"12", "pdf"=>"3", "year"=>"2011", "figure"=>"4", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"month"=>"6", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"9", "year"=>"2011", "pdf"=>"8", "unique-ip"=>"16", "figure"=>"7", "scanned-summary"=>"0", "supp-data"=>"3"}
  • {"scanned-page-browse"=>"0", "month"=>"7", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"7", "unique-ip"=>"6", "pdf"=>"2", "year"=>"2011", "figure"=>"0", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"month"=>"8", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"10", "year"=>"2011", "pdf"=>"4", "unique-ip"=>"7", "figure"=>"5", "scanned-summary"=>"0", "supp-data"=>"7"}
  • {"scanned-page-browse"=>"0", "month"=>"9", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"4", "unique-ip"=>"4", "pdf"=>"1", "year"=>"2011", "figure"=>"0", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"month"=>"10", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"8", "year"=>"2011", "pdf"=>"4", "unique-ip"=>"8", "figure"=>"1", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"scanned-page-browse"=>"0", "month"=>"11", "cited-by"=>"0", "abstract"=>"1", "full-text"=>"11", "unique-ip"=>"10", "pdf"=>"8", "year"=>"2011", "figure"=>"4", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"month"=>"12", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"5", "year"=>"2011", "pdf"=>"1", "unique-ip"=>"4", "figure"=>"1", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"scanned-page-browse"=>"0", "month"=>"1", "cited-by"=>"0", "abstract"=>"1", "full-text"=>"2", "unique-ip"=>"3", "pdf"=>"1", "year"=>"2012", "figure"=>"0", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"month"=>"2", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"4", "year"=>"2012", "pdf"=>"3", "unique-ip"=>"3", "figure"=>"4", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"scanned-page-browse"=>"0", "month"=>"3", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"6", "unique-ip"=>"6", "pdf"=>"4", "year"=>"2012", "figure"=>"1", "scanned-summary"=>"0", "supp-data"=>"4"}
  • {"month"=>"4", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"4", "year"=>"2012", "pdf"=>"0", "unique-ip"=>"4", "figure"=>"0", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"scanned-page-browse"=>"0", "month"=>"5", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"3", "unique-ip"=>"4", "pdf"=>"0", "year"=>"2012", "figure"=>"2", "scanned-summary"=>"0", "supp-data"=>"1"}
  • {"month"=>"6", "scanned-page-browse"=>"0", "cited-by"=>"0", "abstract"=>"0", "full-text"=>"5", "year"=>"2012", "pdf"=>"2", "unique-ip"=>"5", "figure"=>"0", "scanned-summary"=>"0", "supp-data"=>"0"}
  • {"unique-ip"=>"6", "full-text"=>"5", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"3", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2012", "month"=>"7"}
  • {"unique-ip"=>"2", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"3", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2012", "month"=>"8"}
  • {"unique-ip"=>"11", "full-text"=>"9", "pdf"=>"4", "abstract"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2012", "month"=>"9"}
  • {"unique-ip"=>"2", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2012", "month"=>"10"}
  • {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2012", "month"=>"12"}
  • {"unique-ip"=>"4", "full-text"=>"5", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"4", "cited-by"=>"0", "year"=>"2013", "month"=>"1"}
  • {"unique-ip"=>"4", "full-text"=>"3", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2013", "month"=>"3"}
  • {"unique-ip"=>"7", "full-text"=>"7", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"2", "cited-by"=>"0", "year"=>"2013", "month"=>"2"}
  • {"unique-ip"=>"3", "full-text"=>"4", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2013", "month"=>"4"}
  • {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2012", "month"=>"11"}
  • {"unique-ip"=>"1", "full-text"=>"2", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2013", "month"=>"5"}
  • {"unique-ip"=>"5", "full-text"=>"4", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2013", "month"=>"6"}
  • {"unique-ip"=>"2", "full-text"=>"4", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"2", "cited-by"=>"0", "year"=>"2013", "month"=>"7"}
  • {"unique-ip"=>"4", "full-text"=>"2", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2013", "month"=>"8"}
  • {"unique-ip"=>"3", "full-text"=>"4", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2013", "month"=>"9"}
  • {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2013", "month"=>"10"}
  • {"unique-ip"=>"4", "full-text"=>"3", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2013", "month"=>"11"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2013", "month"=>"12"}
  • {"unique-ip"=>"2", "full-text"=>"3", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2014", "month"=>"1"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2014", "month"=>"2"}
  • {"unique-ip"=>"4", "full-text"=>"15", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2014", "month"=>"3"}
  • {"unique-ip"=>"11", "full-text"=>"10", "pdf"=>"4", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"3", "cited-by"=>"0", "year"=>"2014", "month"=>"5"}
  • {"unique-ip"=>"1", "full-text"=>"0", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2014", "month"=>"6"}
  • {"unique-ip"=>"4", "full-text"=>"2", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2014", "month"=>"7"}
  • {"unique-ip"=>"14", "full-text"=>"8", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2014", "month"=>"8"}
  • {"unique-ip"=>"21", "full-text"=>"6", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"18", "cited-by"=>"0", "year"=>"2014", "month"=>"9"}
  • {"unique-ip"=>"13", "full-text"=>"5", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"8", "cited-by"=>"0", "year"=>"2014", "month"=>"10"}
  • {"unique-ip"=>"9", "full-text"=>"4", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"5", "cited-by"=>"0", "year"=>"2014", "month"=>"11"}
  • {"unique-ip"=>"8", "full-text"=>"2", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"5", "cited-by"=>"0", "year"=>"2014", "month"=>"12"}
  • {"unique-ip"=>"9", "full-text"=>"1", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"5", "cited-by"=>"0", "year"=>"2015", "month"=>"1"}
  • {"unique-ip"=>"3", "full-text"=>"4", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2015", "month"=>"2"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"3", "supp-data"=>"0", "cited-by"=>"1", "year"=>"2015", "month"=>"3"}
  • {"unique-ip"=>"4", "full-text"=>"3", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"4"}
  • {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2015", "month"=>"5"}
  • {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"7"}
  • {"unique-ip"=>"3", "full-text"=>"2", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"8"}
  • {"unique-ip"=>"8", "full-text"=>"6", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"9"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"10"}
  • {"unique-ip"=>"4", "full-text"=>"2", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"2", "year"=>"2015", "month"=>"11"}
  • {"unique-ip"=>"2", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"12"}
  • {"unique-ip"=>"7", "full-text"=>"6", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"1"}
  • {"unique-ip"=>"3", "full-text"=>"3", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"3"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"4"}
  • {"unique-ip"=>"4", "full-text"=>"3", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"5"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"7"}
  • {"unique-ip"=>"2", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"8"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"9"}
  • {"unique-ip"=>"3", "full-text"=>"0", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"10"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"11"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"12"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2017", "month"=>"2"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"3"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"4"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"5"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"9"}
  • {"unique-ip"=>"6", "full-text"=>"5", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"4", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"10"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"11"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"12"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"1"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"1"}
  • {"unique-ip"=>"12", "full-text"=>"5", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"7", "cited-by"=>"0", "year"=>"2018", "month"=>"7"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"8"}
  • {"unique-ip"=>"5", "full-text"=>"3", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"14", "cited-by"=>"0", "year"=>"2018", "month"=>"11"}
  • {"unique-ip"=>"3", "full-text"=>"3", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"12"}
  • {"unique-ip"=>"4", "full-text"=>"9", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"2", "year"=>"2019", "month"=>"2"}
  • {"unique-ip"=>"3", "full-text"=>"3", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2019", "month"=>"3"}
  • {"unique-ip"=>"1", "full-text"=>"0", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"4"}

Relative Metric

{"start_date"=>"2010-01-01T00:00:00Z", "end_date"=>"2010-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Biology and life sciences/Biochemistry", "average_usage"=>[283, 565, 720, 852, 970, 1070, 1168, 1258, 1336, 1411, 1487, 1571, 1640, 1709, 1776, 1843, 1906, 1969, 2031, 2086, 2152, 2221, 2286, 2361, 2419, 2480, 2543, 2598, 2665, 2731, 2802, 2868, 2932, 2996, 3053, 3114, 3169, 3232, 3289, 3355, 3413, 3473, 3530, 3595, 3648, 3711, 3764, 3810, 3863]}, {"subject_area"=>"/Biology and life sciences/Computational biology", "average_usage"=>[334, 662, 847, 1004, 1136, 1245, 1346, 1439, 1513, 1595, 1657, 1726, 1787, 1853, 1905, 1972, 2049, 2112, 2182, 2254, 2335, 2411, 2473, 2537, 2587, 2662, 2729, 2786, 2849, 2932, 2997, 3055, 3122, 3190, 3270, 3331, 3398, 3472, 3534, 3611, 3684, 3766, 3814, 3865, 3909, 3956, 4011, 4073, 4112]}, {"subject_area"=>"/Computer and information sciences", "average_usage"=>[375, 666, 837, 949, 1062, 1171, 1233, 1318, 1399, 1470, 1550, 1608, 1701, 1771, 1835, 1908, 1973, 2046, 2091, 2160, 2220, 2285, 2359, 2455, 2537, 2610, 2687, 2778, 2836, 2908, 2974, 3021, 3082, 3169, 3224, 3300, 3382, 3469, 3550, 3640, 3728, 3765, 3814, 3858, 3915, 3952, 3991, 4067, 4107]}, {"subject_area"=>"/Computer and information sciences/Network analysis", "average_usage"=>[399, 789, 941, 1097, 1225, 1305, 1400, 1510, 1584, 1665, 1742, 1822, 1905, 1966, 2041, 2117, 2167, 2238, 2294, 2357, 2413, 2488, 2564, 2616, 2671, 2743, 2812, 2900, 2979, 3034, 3090, 3151, 3205, 3257, 3412, 3457, 3538, 3624, 3719, 3780, 3832, 3860, 3909, 3973, 4008, 4032, 4069, 4095, 4119]}]}
Loading … Spinner
There are currently no alerts