A Scalable Algorithm to Explore the Gibbs Energy Landscape of Genome-Scale Metabolic Networks
Publication Date
June 21, 2012
Journal
PLOS Computational Biology
Authors
Daniele De Martino, Matteo Figliuzzi, Andrea De Martino & Enzo Marinari
Volume
8
Issue
6
Pages
e1002562
DOI
https://dx.plos.org/10.1371/journal.pcbi.1002562
Publisher URL
http://journals.plos.org/ploscompbiol/article?id=10.1371%2Fjournal.pcbi.1002562
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/22737065
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3380848
Europe PMC
http://europepmc.org/abstract/MED/22737065
Web of Science
000305965300032
Scopus
84864048927
Mendeley
http://www.mendeley.com/research/scalable-algorithm-explore-gibbs-energy-landscape-genomescale-metabolic-networks
Events
Loading … Spinner

CiteULike | Further Information

Mendeley | Further Information

{"title"=>"A scalable algorithm to explore the Gibbs energy landscape of genome-scale metabolic networks", "type"=>"journal", "authors"=>[{"first_name"=>"Daniele", "last_name"=>"de Martino", "scopus_author_id"=>"23392169300"}, {"first_name"=>"Matteo", "last_name"=>"Figliuzzi", "scopus_author_id"=>"36501851000"}, {"first_name"=>"Andrea", "last_name"=>"de Martino", "scopus_author_id"=>"7006831923"}, {"first_name"=>"Enzo", "last_name"=>"Marinari", "scopus_author_id"=>"56236528900"}], "year"=>2012, "source"=>"PLoS Computational Biology", "identifiers"=>{"scopus"=>"2-s2.0-84864048927", "sgr"=>"84864048927", "issn"=>"1553734X", "arxiv"=>"1206.5092", "doi"=>"10.1371/journal.pcbi.1002562", "pmid"=>"22737065", "isbn"=>"1553-7358", "pui"=>"365284172"}, "id"=>"a586055a-346b-3e38-9605-1b59b2b63c7a", "abstract"=>"The integration of various types of genomic data into predictive models of biological networks is one of the main challenges currently faced by computational biology. Constraint-based models in particular play a key role in the attempt to obtain a quantitative understanding of cellular metabolism at genome scale. In essence, their goal is to frame the metabolic capabilities of an organism based on minimal assumptions that describe the steady states of the underlying reaction network via suitable stoichiometric constraints, specifically mass balance and energy balance (i.e. thermodynamic feasibility). The implementation of these requirements to generate viable configurations of reaction fluxes and/or to test given flux profiles for thermodynamic feasibility can however prove to be computationally intensive. We propose here a fast and scalable stoichiometry-based method to explore the Gibbs energy landscape of a biochemical network at steady state. The method is applied to the problem of reconstructing the Gibbs energy landscape underlying metabolic activity in the human red blood cell, and to that of identifying and removing thermodynamically infeasible reaction cycles in the Escherichia coli metabolic network (iAF1260). In the former case, we produce consistent predictions for chemical potentials (or log-concentrations) of intracellular metabolites; in the latter, we identify a restricted set of loops (23 in total) in the periplasmic and cytoplasmic core as the origin of thermodynamic infeasibility in a large sample ($10^6$) of flux configurations generated randomly and compatibly with the prior information available on reaction reversibility.", "link"=>"http://www.mendeley.com/research/scalable-algorithm-explore-gibbs-energy-landscape-genomescale-metabolic-networks", "reader_count"=>96, "reader_count_by_academic_status"=>{"Unspecified"=>2, "Professor > Associate Professor"=>6, "Researcher"=>32, "Student > Doctoral Student"=>4, "Student > Ph. D. Student"=>28, "Student > Postgraduate"=>6, "Other"=>5, "Student > Master"=>9, "Student > Bachelor"=>1, "Professor"=>3}, "reader_count_by_user_role"=>{"Unspecified"=>2, "Professor > Associate Professor"=>6, "Researcher"=>32, "Student > Doctoral Student"=>4, "Student > Ph. D. Student"=>28, "Student > Postgraduate"=>6, "Other"=>5, "Student > Master"=>9, "Student > Bachelor"=>1, "Professor"=>3}, "reader_count_by_subject_area"=>{"Engineering"=>7, "Unspecified"=>6, "Biochemistry, Genetics and Molecular Biology"=>12, "Materials Science"=>1, "Mathematics"=>1, "Agricultural and Biological Sciences"=>50, "Medicine and Dentistry"=>2, "Neuroscience"=>1, "Physics and Astronomy"=>10, "Chemical Engineering"=>1, "Chemistry"=>1, "Computer Science"=>4}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>7}, "Materials Science"=>{"Materials Science"=>1}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>2}, "Neuroscience"=>{"Neuroscience"=>1}, "Chemistry"=>{"Chemistry"=>1}, "Physics and Astronomy"=>{"Physics and Astronomy"=>10}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>50}, "Computer Science"=>{"Computer Science"=>4}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>12}, "Mathematics"=>{"Mathematics"=>1}, "Unspecified"=>{"Unspecified"=>6}, "Chemical Engineering"=>{"Chemical Engineering"=>1}}, "reader_count_by_country"=>{"Canada"=>1, "Netherlands"=>1, "Argentina"=>1, "Iran"=>1, "United States"=>8, "Norway"=>1, "Japan"=>1, "Brazil"=>1, "United Kingdom"=>1, "Belarus"=>1, "Chile"=>1, "Australia"=>1}, "group_count"=>4}

Scopus | Further Information

{"@_fa"=>"true", "link"=>[{"@_fa"=>"true", "@ref"=>"self", "@href"=>"https://api.elsevier.com/content/abstract/scopus_id/84864048927"}, {"@_fa"=>"true", "@ref"=>"author-affiliation", "@href"=>"https://api.elsevier.com/content/abstract/scopus_id/84864048927?field=author,affiliation"}, {"@_fa"=>"true", "@ref"=>"scopus", "@href"=>"https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84864048927&origin=inward"}, {"@_fa"=>"true", "@ref"=>"scopus-citedby", "@href"=>"https://www.scopus.com/inward/citedby.uri?partnerID=HzOxMe3b&scp=84864048927&origin=inward"}], "prism:url"=>"https://api.elsevier.com/content/abstract/scopus_id/84864048927", "dc:identifier"=>"SCOPUS_ID:84864048927", "eid"=>"2-s2.0-84864048927", "dc:title"=>"A scalable algorithm to explore the Gibbs energy landscape of genome-scale metabolic networks", "dc:creator"=>"de Martino D.", "prism:publicationName"=>"PLoS Computational Biology", "prism:issn"=>"1553734X", "prism:eIssn"=>"15537358", "prism:volume"=>"8", "prism:issueIdentifier"=>"6", "prism:pageRange"=>nil, "prism:coverDate"=>"2012-06-01", "prism:coverDisplayDate"=>"June 2012", "prism:doi"=>"10.1371/journal.pcbi.1002562", "citedby-count"=>"19", "affiliation"=>[{"@_fa"=>"true", "affilname"=>"Università degli Studi di Roma La Sapienza", "affiliation-city"=>"Rome", "affiliation-country"=>"Italy"}], "pubmed-id"=>"22737065", "prism:aggregationType"=>"Journal", "subtype"=>"ar", "subtypeDescription"=>"Article", "article-number"=>"e1002562", "source-id"=>"4000151810", "openaccess"=>"1", "openaccessFlag"=>true}

Facebook

  • {"url"=>"http%3A%2F%2Fjournals.plos.org%2Fploscompbiol%2Farticle%3Fid%3D10.1371%252Fjournal.pcbi.1002562", "share_count"=>0, "like_count"=>0, "comment_count"=>0, "click_count"=>0, "total_count"=>0}

Counter

  • {"month"=>"6", "year"=>"2012", "pdf_views"=>"157", "xml_views"=>"11", "html_views"=>"668"}
  • {"month"=>"7", "year"=>"2012", "pdf_views"=>"83", "xml_views"=>"4", "html_views"=>"401"}
  • {"month"=>"8", "year"=>"2012", "pdf_views"=>"21", "xml_views"=>"5", "html_views"=>"130"}
  • {"month"=>"9", "year"=>"2012", "pdf_views"=>"8", "xml_views"=>"1", "html_views"=>"60"}
  • {"month"=>"10", "year"=>"2012", "pdf_views"=>"7", "xml_views"=>"2", "html_views"=>"52"}
  • {"month"=>"11", "year"=>"2012", "pdf_views"=>"16", "xml_views"=>"1", "html_views"=>"67"}
  • {"month"=>"12", "year"=>"2012", "pdf_views"=>"6", "xml_views"=>"0", "html_views"=>"38"}
  • {"month"=>"1", "year"=>"2013", "pdf_views"=>"11", "xml_views"=>"0", "html_views"=>"51"}
  • {"month"=>"2", "year"=>"2013", "pdf_views"=>"19", "xml_views"=>"2", "html_views"=>"366"}
  • {"month"=>"3", "year"=>"2013", "pdf_views"=>"13", "xml_views"=>"1", "html_views"=>"73"}
  • {"month"=>"4", "year"=>"2013", "pdf_views"=>"7", "xml_views"=>"0", "html_views"=>"46"}
  • {"month"=>"5", "year"=>"2013", "pdf_views"=>"15", "xml_views"=>"0", "html_views"=>"54"}
  • {"month"=>"6", "year"=>"2013", "pdf_views"=>"8", "xml_views"=>"0", "html_views"=>"41"}
  • {"month"=>"7", "year"=>"2013", "pdf_views"=>"12", "xml_views"=>"0", "html_views"=>"45"}
  • {"month"=>"8", "year"=>"2013", "pdf_views"=>"7", "xml_views"=>"1", "html_views"=>"42"}
  • {"month"=>"9", "year"=>"2013", "pdf_views"=>"9", "xml_views"=>"0", "html_views"=>"50"}
  • {"month"=>"10", "year"=>"2013", "pdf_views"=>"7", "xml_views"=>"2", "html_views"=>"75"}
  • {"month"=>"11", "year"=>"2013", "pdf_views"=>"12", "xml_views"=>"1", "html_views"=>"73"}
  • {"month"=>"12", "year"=>"2013", "pdf_views"=>"5", "xml_views"=>"1", "html_views"=>"62"}
  • {"month"=>"1", "year"=>"2014", "pdf_views"=>"12", "xml_views"=>"0", "html_views"=>"52"}
  • {"month"=>"2", "year"=>"2014", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"25"}
  • {"month"=>"3", "year"=>"2014", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"22"}
  • {"month"=>"4", "year"=>"2014", "pdf_views"=>"12", "xml_views"=>"1", "html_views"=>"46"}
  • {"month"=>"5", "year"=>"2014", "pdf_views"=>"6", "xml_views"=>"2", "html_views"=>"46"}
  • {"month"=>"6", "year"=>"2014", "pdf_views"=>"7", "xml_views"=>"0", "html_views"=>"31"}
  • {"month"=>"7", "year"=>"2014", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"35"}
  • {"month"=>"8", "year"=>"2014", "pdf_views"=>"4", "xml_views"=>"2", "html_views"=>"22"}
  • {"month"=>"9", "year"=>"2014", "pdf_views"=>"5", "xml_views"=>"1", "html_views"=>"20"}
  • {"month"=>"10", "year"=>"2014", "pdf_views"=>"7", "xml_views"=>"2", "html_views"=>"43"}
  • {"month"=>"11", "year"=>"2014", "pdf_views"=>"6", "xml_views"=>"0", "html_views"=>"35"}
  • {"month"=>"12", "year"=>"2014", "pdf_views"=>"4", "xml_views"=>"3", "html_views"=>"72"}
  • {"month"=>"1", "year"=>"2015", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"41"}
  • {"month"=>"2", "year"=>"2015", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"22"}
  • {"month"=>"3", "year"=>"2015", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"26"}
  • {"month"=>"4", "year"=>"2015", "pdf_views"=>"10", "xml_views"=>"1", "html_views"=>"49"}
  • {"month"=>"5", "year"=>"2015", "pdf_views"=>"8", "xml_views"=>"0", "html_views"=>"28"}
  • {"month"=>"6", "year"=>"2015", "pdf_views"=>"8", "xml_views"=>"0", "html_views"=>"22"}
  • {"month"=>"7", "year"=>"2015", "pdf_views"=>"8", "xml_views"=>"0", "html_views"=>"22"}
  • {"month"=>"8", "year"=>"2015", "pdf_views"=>"6", "xml_views"=>"0", "html_views"=>"38"}
  • {"month"=>"9", "year"=>"2015", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"14"}
  • {"month"=>"10", "year"=>"2015", "pdf_views"=>"6", "xml_views"=>"0", "html_views"=>"23"}
  • {"month"=>"11", "year"=>"2015", "pdf_views"=>"4", "xml_views"=>"1", "html_views"=>"22"}
  • {"month"=>"12", "year"=>"2015", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"25"}
  • {"month"=>"1", "year"=>"2016", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"24"}
  • {"month"=>"2", "year"=>"2016", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"24"}
  • {"month"=>"3", "year"=>"2016", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"30"}
  • {"month"=>"4", "year"=>"2016", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"22"}
  • {"month"=>"5", "year"=>"2016", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"16"}
  • {"month"=>"6", "year"=>"2016", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"20"}
  • {"month"=>"7", "year"=>"2016", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"9"}
  • {"month"=>"8", "year"=>"2016", "pdf_views"=>"6", "xml_views"=>"0", "html_views"=>"24"}
  • {"month"=>"9", "year"=>"2016", "pdf_views"=>"6", "xml_views"=>"0", "html_views"=>"29"}
  • {"month"=>"10", "year"=>"2016", "pdf_views"=>"9", "xml_views"=>"0", "html_views"=>"29"}
  • {"month"=>"11", "year"=>"2016", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"11"}
  • {"month"=>"12", "year"=>"2016", "pdf_views"=>"5", "xml_views"=>"0", "html_views"=>"20"}
  • {"month"=>"1", "year"=>"2017", "pdf_views"=>"3", "xml_views"=>"1", "html_views"=>"20"}
  • {"month"=>"2", "year"=>"2017", "pdf_views"=>"5", "xml_views"=>"0", "html_views"=>"17"}
  • {"month"=>"3", "year"=>"2017", "pdf_views"=>"5", "xml_views"=>"0", "html_views"=>"19"}
  • {"month"=>"4", "year"=>"2017", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"13"}
  • {"month"=>"5", "year"=>"2017", "pdf_views"=>"4", "xml_views"=>"2", "html_views"=>"28"}
  • {"month"=>"6", "year"=>"2017", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"19"}
  • {"month"=>"7", "year"=>"2017", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"18"}
  • {"month"=>"8", "year"=>"2017", "pdf_views"=>"6", "xml_views"=>"0", "html_views"=>"21"}
  • {"month"=>"9", "year"=>"2017", "pdf_views"=>"8", "xml_views"=>"2", "html_views"=>"17"}
  • {"month"=>"10", "year"=>"2017", "pdf_views"=>"4", "xml_views"=>"2", "html_views"=>"21"}
  • {"month"=>"11", "year"=>"2017", "pdf_views"=>"5", "xml_views"=>"0", "html_views"=>"18"}
  • {"month"=>"12", "year"=>"2017", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"25"}
  • {"month"=>"1", "year"=>"2018", "pdf_views"=>"4", "xml_views"=>"1", "html_views"=>"10"}
  • {"month"=>"2", "year"=>"2018", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"2"}
  • {"month"=>"3", "year"=>"2018", "pdf_views"=>"2", "xml_views"=>"0", "html_views"=>"5"}
  • {"month"=>"4", "year"=>"2018", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"2"}
  • {"month"=>"5", "year"=>"2018", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"9"}
  • {"month"=>"6", "year"=>"2018", "pdf_views"=>"7", "xml_views"=>"0", "html_views"=>"6"}
  • {"month"=>"7", "year"=>"2018", "pdf_views"=>"4", "xml_views"=>"3", "html_views"=>"3"}
  • {"month"=>"8", "year"=>"2018", "pdf_views"=>"4", "xml_views"=>"1", "html_views"=>"3"}
  • {"month"=>"9", "year"=>"2018", "pdf_views"=>"6", "xml_views"=>"1", "html_views"=>"5"}
  • {"month"=>"10", "year"=>"2018", "pdf_views"=>"3", "xml_views"=>"3", "html_views"=>"6"}
  • {"month"=>"11", "year"=>"2018", "pdf_views"=>"1", "xml_views"=>"0", "html_views"=>"0"}
  • {"month"=>"12", "year"=>"2018", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"1"}
  • {"month"=>"1", "year"=>"2019", "pdf_views"=>"3", "xml_views"=>"0", "html_views"=>"2"}
  • {"month"=>"2", "year"=>"2019", "pdf_views"=>"4", "xml_views"=>"2", "html_views"=>"5"}
  • {"month"=>"3", "year"=>"2019", "pdf_views"=>"3", "xml_views"=>"3", "html_views"=>"15"}
  • {"month"=>"4", "year"=>"2019", "pdf_views"=>"5", "xml_views"=>"2", "html_views"=>"6"}
  • {"month"=>"5", "year"=>"2019", "pdf_views"=>"10", "xml_views"=>"0", "html_views"=>"3"}
  • {"month"=>"6", "year"=>"2019", "pdf_views"=>"5", "xml_views"=>"0", "html_views"=>"3"}
  • {"month"=>"7", "year"=>"2019", "pdf_views"=>"4", "xml_views"=>"0", "html_views"=>"1"}

Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/620650"], "description"=>"<p>The results obtained starting from direction assignments corresponding to MBE solutions are shown here for three different methods: (a) MinOver with (this paper, free markers); (b) a penalty method using the Euclidean distance between the solution and the prior as the cost function (blue markers); (c) a relaxation method optimized to be faster (red markers). For (b), we have set while is initialized at and grows in steps of each time a minimum is found, until the configuration is feasible. These results show that MinOver roughly minimizes the average Euclidean distance between the solution and the prior (as the penalty method), albeit with running times over times shorter (see text for details).</p>", "links"=>[], "tags"=>["gibbs", "changes", "reactions", "hrbc", "metabolic"], "article_id"=>291137, "categories"=>["Biological Sciences", "Biophysics"], "users"=>["Daniele De Martino", "Matteo Figliuzzi", "Andrea De Martino", "Enzo Marinari"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1002562.g004", "stats"=>{"downloads"=>1, "page_views"=>21, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Estimated_Gibbs_energy_changes_of_reactions_in_the_hRBC_metabolic_network_comparison_of_different_algorithms_/291137", "title"=>"Estimated Gibbs energy changes of reactions in the hRBC metabolic network: comparison of different algorithms.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-06-21 00:18:57"}
  • {"files"=>["https://ndownloader.figshare.com/files/620439"], "description"=>"<p>The input information used to initialize the algorithm (with error bars) is denoted by black markers (see text for details). Values obtained starting from direction assignments corresponding to a sample of MBE and VNC solutions are shown respectively as red and green markers.</p>", "links"=>[], "tags"=>["log-concentrations", "metabolites", "hrbc", "metabolic"], "article_id"=>290922, "categories"=>["Biological Sciences", "Biophysics"], "users"=>["Daniele De Martino", "Matteo Figliuzzi", "Andrea De Martino", "Enzo Marinari"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1002562.g002", "stats"=>{"downloads"=>1, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Estimated_log_concentrations_of_metabolites_in_the_hRBC_metabolic_network_/290922", "title"=>"Estimated log-concentrations of metabolites in the hRBC metabolic network.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-06-21 00:15:22"}
  • {"files"=>["https://ndownloader.figshare.com/files/620816"], "description"=>"<p>Convergence times shown are for the identification and elimination of the thermodynamically infeasible loops and for the verification of thermodynamic feasibility of randomly generated flux configurations from the <i>Escherichia coli</i> iA1260 metabolic network model (on an Intel dual core at 3.06 GHz).</p>", "links"=>[], "tags"=>["convergence", "times"], "article_id"=>291307, "categories"=>["Biological Sciences", "Biophysics"], "users"=>["Daniele De Martino", "Matteo Figliuzzi", "Andrea De Martino", "Enzo Marinari"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1002562.g005", "stats"=>{"downloads"=>1, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Histogram_of_the_convergence_times_of_the_algorithm_/291307", "title"=>"Histogram of the convergence times of the algorithm.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-06-21 00:21:47"}
  • {"files"=>["https://ndownloader.figshare.com/files/322234", "https://ndownloader.figshare.com/files/322249", "https://ndownloader.figshare.com/files/322264", "https://ndownloader.figshare.com/files/322283"], "description"=>"<div><p>The integration of various types of genomic data into predictive models of biological networks is one of the main challenges currently faced by computational biology. Constraint-based models in particular play a key role in the attempt to obtain a quantitative understanding of cellular metabolism at genome scale. In essence, their goal is to frame the metabolic capabilities of an organism based on minimal assumptions that describe the steady states of the underlying reaction network via suitable stoichiometric constraints, specifically <em>mass balance</em> and <em>energy balance</em> (i.e. thermodynamic feasibility). The implementation of these requirements to generate viable configurations of reaction fluxes and/or to test given flux profiles for thermodynamic feasibility can however prove to be computationally intensive. We propose here a fast and scalable stoichiometry-based method to explore the Gibbs energy landscape of a biochemical network at steady state. The method is applied to the problem of reconstructing the Gibbs energy landscape underlying metabolic activity in the human red blood cell, and to that of identifying and removing thermodynamically infeasible reaction cycles in the <em>Escherichia coli</em> metabolic network (iAF1260). In the former case, we produce consistent predictions for chemical potentials (or log-concentrations) of intracellular metabolites; in the latter, we identify a restricted set of loops (23 in total) in the periplasmic and cytoplasmic core as the origin of thermodynamic infeasibility in a large sample () of flux configurations generated randomly and compatibly with the prior information available on reaction reversibility.</p> </div>", "links"=>[], "tags"=>["scalable", "algorithm", "gibbs", "genome-scale", "metabolic", "networks"], "article_id"=>123600, "categories"=>["Biological Sciences", "Biophysics"], "users"=>["Daniele De Martino", "Matteo Figliuzzi", "Andrea De Martino", "Enzo Marinari"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002562.s001", "https://dx.doi.org/10.1371/journal.pcbi.1002562.s002", "https://dx.doi.org/10.1371/journal.pcbi.1002562.s003", "https://dx.doi.org/10.1371/journal.pcbi.1002562.s004"], "stats"=>{"downloads"=>32, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/A_Scalable_Algorithm_to_Explore_the_Gibbs_Energy_Landscape_of_Genome_Scale_Metabolic_Networks/123600", "title"=>"A Scalable Algorithm to Explore the Gibbs Energy Landscape of Genome-Scale Metabolic Networks", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2012-06-21 01:00:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/620933"], "description"=>"<p>Rectangles (resp. ellipses) denote metabolites (resp. reactions). The cycles depicted here are n. 8 (A, top left), 18 (B, top right) and 22 (C, bottom) from <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002562#pcbi-1002562-t001\" target=\"_blank\">Table 1</a>. The star indicates reversible reactions according to <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002562#pcbi.1002562-Feist2\" target=\"_blank\">[21]</a>. See Supporting <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002562#pcbi.1002562.s003\" target=\"_blank\">Table S1</a> for abbreviations.</p>", "links"=>[], "tags"=>["23", "thermodynamically", "infeasible", "cycles", "metabolic"], "article_id"=>291417, "categories"=>["Biological Sciences", "Biophysics"], "users"=>["Daniele De Martino", "Matteo Figliuzzi", "Andrea De Martino", "Enzo Marinari"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1002562.g006", "stats"=>{"downloads"=>1, "page_views"=>26, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Three_of_the_23_thermodynamically_infeasible_cycles_identified_in_the_E_coli_metabolic_network_iAF1260_/291417", "title"=>"Three of the 23 thermodynamically infeasible cycles identified in the <i>E. coli</i> metabolic network iAF1260.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-06-21 00:23:37"}
  • {"files"=>["https://ndownloader.figshare.com/files/621023"], "description"=>"<p>The list provides the complete set of cycles turned out in the thermodynamic feasibility analysis of a sample of different randomly generated flux configurations. Plus (resp. minus) signs indicate that the reaction participates in the cycle in its forward (resp. backward) direction. (R) indicates that the corresponding reaction is putatively reversible according to <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002562#pcbi.1002562-Feist2\" target=\"_blank\">[21]</a>. Analyzing interdependencies in the above cycles, one sees that the directions of the putatively reversible fluxes SERt2rpp, GLUt2rpp, ACt2rpp, GLYCLTt2rpp, THRt2rpp, SUCOAS, PPAKr, PROt2rpp, CAt6pp and GLUABUTt7pp are in fact constrained. See Supporting <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002562#pcbi.1002562.s003\" target=\"_blank\">Table S1</a> for abbreviations.</p>", "links"=>[], "tags"=>["infeasible", "cycles", "metabolic"], "article_id"=>291516, "categories"=>["Biological Sciences", "Biophysics"], "users"=>["Daniele De Martino", "Matteo Figliuzzi", "Andrea De Martino", "Enzo Marinari"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1002562.t001", "stats"=>{"downloads"=>6, "page_views"=>49, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Thermodynamically_infeasible_cycles_for_the_E_coli_metabolic_reaction_network_iAF1260_/291516", "title"=>"Thermodynamically infeasible cycles for the <i>E. coli</i> metabolic reaction network iAF1260.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2012-06-21 00:25:16"}
  • {"files"=>["https://ndownloader.figshare.com/files/620531"], "description"=>"<p>The input information used to initialize the algorithm (with error bars) is denoted by black markers; the values obtained starting from direction assignments corresponding to MBE and VNC solutions are shown respectively as red and green markers. Note that the input information is consistent with reactions operating in the reverse direction for GAPDH, PGK, PGM, LDH, G6PDH, TA and PNPase. The algorithm is able to correct these inconsistencies starting from both MBE- and VNC-compatible direction assignments.</p>", "links"=>[], "tags"=>["gibbs", "changes", "reactions", "hrbc", "metabolic"], "article_id"=>291018, "categories"=>["Biological Sciences", "Biophysics"], "users"=>["Daniele De Martino", "Matteo Figliuzzi", "Andrea De Martino", "Enzo Marinari"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1002562.g003", "stats"=>{"downloads"=>2, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Estimated_Gibbs_energy_changes_of_reactions_in_the_hRBC_metabolic_network_/291018", "title"=>"Estimated Gibbs energy changes of reactions in the hRBC metabolic network.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-06-21 00:16:58"}
  • {"files"=>["https://ndownloader.figshare.com/files/620324"], "description"=>"<p>Given a stoichiometric matrix and a generic vector of reaction directions, the algorithm generates a vector of chemical potentials if is thermodynamically feasible. may for instance be taken from a steady state flux configuration.</p>", "links"=>[], "tags"=>["Computational biology", "biophysics"], "article_id"=>290815, "categories"=>["Biological Sciences", "Biophysics"], "users"=>["Daniele De Martino", "Matteo Figliuzzi", "Andrea De Martino", "Enzo Marinari"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1002562.g001", "stats"=>{"downloads"=>1, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Flowchart_of_the_algorithm_/290815", "title"=>"Flowchart of the algorithm.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-06-21 00:13:35"}

PMC Usage Stats | Further Information

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

Relative Metric

{"start_date"=>"2012-01-01T00:00:00Z", "end_date"=>"2012-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Biology and life sciences/Computational biology", "average_usage"=>[375, 629, 760, 889, 1000, 1110, 1203, 1298, 1399, 1492, 1603, 1699, 1774, 1855, 1918, 1998, 2062, 2152, 2227, 2312, 2378, 2461, 2528, 2600, 2664]}, {"subject_area"=>"/Biology and life sciences/Organisms", "average_usage"=>[331, 557, 677, 777, 868, 960, 1050, 1136, 1223, 1307, 1390, 1466, 1536, 1603, 1673, 1741, 1814, 1889, 1954, 2028, 2096, 2164, 2233, 2305, 2362]}, {"subject_area"=>"/Computer and information sciences/Network analysis", "average_usage"=>[388, 661, 797, 921, 1016, 1101, 1200, 1314, 1391, 1476, 1588, 1693, 1772, 1858, 1918, 2003, 2085, 2158, 2232, 2309, 2385, 2448, 2517, 2595, 2658]}, {"subject_area"=>"/Medicine and health sciences/Pathology and laboratory medicine", "average_usage"=>[321, 553, 683, 785, 880, 973, 1072, 1162, 1249, 1336, 1425, 1504, 1574, 1642, 1711, 1785, 1852, 1923, 1987, 2050, 2129, 2192, 2259, 2325, 2393]}, {"subject_area"=>"/Physical sciences/Mathematics", "average_usage"=>[325, 522, 627, 718, 804, 884, 969, 1052, 1131, 1207, 1277, 1346, 1415, 1478, 1542, 1605, 1663, 1723, 1776, 1839, 1895, 1955, 2008, 2066, 2123]}, {"subject_area"=>"/Physical sciences/Physics", "average_usage"=>[298, 476, 578, 665, 743, 821, 891, 962, 1036, 1108, 1174, 1240, 1312, 1371, 1430, 1494, 1551, 1609, 1673, 1736, 1795, 1857, 1913, 1976, 2035]}]}
Loading … Spinner
There are currently no alerts