Journal article Open Access

COSIFER: a Python package for the consensus inference of molecular interaction networks

Manica, M.; Bunne, C.; Mathis, R.; Cadow, J.; Ahsen, M.; Stolovitzky; Martínez, M.


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{
  "inLanguage": {
    "alternateName": "eng", 
    "@type": "Language", 
    "name": "English"
  }, 
  "description": "<p>The advent of high-throughput technologies has provided researchers with measurements of thousands of molecular entities and enable the investigation of the internal regulatory apparatus of the cell. However, network inference from high-throughput data is far from being a solved problem. While a plethora of different inference methods have been proposed, they often lead to non-overlapping predictions, and many of them lack user-friendly implementations to enable their broad utilization. Here, we present Consensus Interaction Network Inference Service (COSIFER), a package and a companion web-based platform to infer molecular networks from expression data using state-of-the-art consensus approaches. COSIFER includes a selection of state-of-the-art methodologies for network inference and different consensus strategies to integrate the predictions of individual methods and generate robust networks.<br>\n&nbsp;</p>", 
  "license": "https://creativecommons.org/licenses/by/4.0/legalcode", 
  "creator": [
    {
      "affiliation": "IBM Research Europe", 
      "@type": "Person", 
      "name": "Manica, M."
    }, 
    {
      "affiliation": "IBM Research Europe", 
      "@type": "Person", 
      "name": "Bunne, C."
    }, 
    {
      "affiliation": "IBM Research Europe", 
      "@type": "Person", 
      "name": "Mathis, R."
    }, 
    {
      "affiliation": "IBM Research Europe", 
      "@type": "Person", 
      "name": "Cadow, J."
    }, 
    {
      "affiliation": "Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai", 
      "@type": "Person", 
      "name": "Ahsen, M."
    }, 
    {
      "affiliation": "Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai", 
      "@type": "Person", 
      "name": "Stolovitzky"
    }, 
    {
      "affiliation": "IBM Research Europe", 
      "@type": "Person", 
      "name": "Mart\u00ednez, M."
    }
  ], 
  "headline": "COSIFER: a Python package for the consensus inference of molecular interaction networks", 
  "image": "https://zenodo.org/static/img/logos/zenodo-gradient-round.svg", 
  "datePublished": "2020-11-02", 
  "url": "https://zenodo.org/record/4748570", 
  "@context": "https://schema.org/", 
  "identifier": "https://doi.org/10.1093/bioinformatics/btaa942", 
  "@id": "https://doi.org/10.1093/bioinformatics/btaa942", 
  "@type": "ScholarlyArticle", 
  "name": "COSIFER: a Python package for the consensus inference of molecular interaction networks"
}
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