WHAT IS COMPBIO™?

CompBio is a platform developed to rapidly accelerate the often difficult and time consuming interpretative and hypothesis generation efforts that accompany large biological data sets.

 

Created by a small group of computational biologists with broad disease domain expertise and over 50 years combined experience interpreting omics data to drive decision processes in industry and academic environments.

 

CompBio was designed to overcome many of the shortcomings common to tools in this space and to algorithmically mimic the interpretative thought processes of these domain experts, thereby reducing the time to hypothesis and/or conclusion by an order of magnitude or more.

LIMITATIONS OF EXISTING TOOLS

EXISTING TOOLS PROVIDE SOME INSIGHT - WITH SIGNIFICANT LIMITATIONS

Most current tools designed to aid in analysis and interpretation of omics data fall into two major classes, overlap/enrichment and natural language processing. While quite different in mechanism, both can provide some degree of insight but with substantial limitations.

Some of these limitations are common, such as the need for existing definitions such as ontologies or pathway/gene associations, while others are unique to the class but both limit what can be identified. Most importantly, all lack the ability to provide a “big picture” overview of the data.

PATHWAY & PROCESS OVERLAP/ENRICHMENT

• Many output lists required to cover all facets

• Lists tend to be highly redundant

• No interconnectivity within or across lists

NATURAL LANGUAGE
PROCESSING

• Creates structured data to return assertions

• Samples the “conscious” (bias) of writers

• Context is lost; Localized associations

OMICS DATA
  • Most limited to single omics type

  • Predefined ontology/pathways

  • All lack "big picture" view

WHAT MAKES COMPBIO DIFFERENT?

SO IF YOU COULD...

Assemble Information from Numerous Knowledge Bases for Multiple Omics Types

Remove Highly Redundant Information

Interconnect All Related Information

Display as a Holistic Interactive Map

YOU WOULD HAVE A TOOL SIMILAR TO...

As highly-experienced translators of large-scale omics data, the developers of CompBio sought a platform that could that could accelerate the discovery and hypothesis generation process. Through its unique design, CompBio addresses many of the knowledge assembly and assimilation limitations of existing methods, thus enabling rapid interpretation.

HOW DOES COMPBIO WORK?

  • CompBio identifies the entire literature corpus associated with the input entities

  • Contextual Language Processing (CLP) identifies concepts enriched in this corpus

  • Inter-related concepts form biological themes

  • Themes are displayed in 3D with spatial relationships and inter-connectivity

  • In effect, CompBio samples the “subconscious” of literature specific to entity list

CompBio enhances the knowledge assembly process through the use of Contextual Language Processing (CLP) in and ontology-free manor. CLP recognizes the fact that the meaning of a concept as well as the relevance of gene, protein, metabolite, or other biological entity may differ with context. Thus, CLP engine breaks language down to the “atomic” level of words and then reassembles those words as concepts and then themes in a contextually relevant framework.

Assembly of information represents only half of the challenge in the interpretation of complex biology. If that information cannot be absorbed by a researcher in a meaningful and helpful way, it never becomes knowledge. With this in mind, CompBio was developed with an advanced, intuitive visualization platform to enable rapid assimilation of complex information.

KNOWLEDGE GENERATION

CompBio vastly reduces data complexity and identifies explicit and implicit associations in an ontology-free and context-dependent manner. The CompBio visualization framework allows researchers to see the big picture view of their data but allows them to “drill up” or “drill down” at numerous points of the analysis. The unique search engine provides a means to search and see relevant images related to concepts within a theme that can provide conceptual insights for biology that may be unfamiliar to the researcher.

INTERPRETABLE KNOWLEDGE

COMPBIO ASSEMBLES INTERPRETABLE KNOWLEDGE...NOT LISTS

In current tools, the output of a single analysis may be as overwhelming as the input lists.

  • CompBio displays a unified and interconnected view of contextually-relevant themes.

  • CompBio often identifies important unique findings.

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