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Text analytics + semantic enrichment

Transform text to data in a richly annotated, machine-readable format and standardise data formats

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Text analytics + semantic enrichment products

Use cases

Semantic Analytics: An Integrated Approach for Pharmacovigilance Teams to Achieve Total Awareness

Pharmacovigilance can take up an enormous amount of resource.

Incorporating semantic analytics into a pharmacovigilance strategy allows teams the flexibility to include wider sources of reporting systems, contextualise unstructured text and make connections across all of this, saving time and gaining total awareness.

This whitepaper describes how Semantic Analytics enables an integrated approach to Pharmacovigilance, unlocks the potential of biomedical content and will enable pharmaceutical companies to:

  • Explore, analyse, query and manage under-utilised sources of safety information
  • Achieve a comprehensive, up-to-date awareness
  • Expedite the process of identifying, validating, reporting and acting upon adverse events… and ultimately to protect patient safety, mitigate risk and ensure compliance in a resource-effective manner.

Transforming Enterprise Search

Sinequa, a leader in real-time big data search and analytics for Fortune Global 2000 companies have partnered with SciBite, a Cambridge, UK based Informatics Company, to provide access to drug discovery intelligence data for pharma and biotech companies including, amongst others, Astra Zeneca.

The partnership brings together Sinequa’s flexible enterprise search program, which scales hundreds of millions of documents, and SciBite’s semantic layer providing deep ontologies and lightning-fast text indexing engine to turn unstructured, diverse text into rich, structured resources.

The combination now opens unparalleled access to drug discovery intelligence and vast amounts of knowledge, previously hidden in scattered document repositories.

A Modern, Cost-effective Approach to Pharmacovigilance

Regulatory bodies expect Pharmaceutical companies to maintain an up-to-date awareness of the safety implications of not only their own drugs but also those from the same drug class and with the same target that are marketed by competitors.

This places significant demands on Pharmacovigilance teams, who are challenged to maintain safety and compliance with the same, or fewer, resources amid increasingly stringent, globally diverse regulations.

The exponentially growing volumes and diversity of data make it almost impossible to maintain a comprehensive and up-to-date understanding. The result is that the legacy approach, involving manually scanning biomedical sources, is prohibitively time consuming, has a high risk of missing safety signals and is no longer a viable option.

SciBite provides a resource-effective solution to the challenges faced by Pharmacovigilance teams, enabling them to efficiently and comprehensively monitor a wide range of heterogeneous and cross-disciplinary sources and be fully aware of all safety signals directly and indirectly associated with one or more drugs of interest.

Transform Common Business and Scientific Processes with a Novel Combination of Semantic Analytics and Machine Learning

Pharmaceutical companies have a wealth of data at their disposal. However, the volume of data combined with limited availability of experts and data scientists constrains their ability to use it effectively.

Artificial Intelligence (AI) has been touted as a way to revolutionise the entire Pharmaceutical value chain, to the extent that it will deliver a ‘cure for cancer’.

Despite such promises, tangible evidence of how AI is actually helping research remains elusive. Coupled with some high profile failures, there is growing scepticism of what AI can realistically achieve.

One of the more promising applications of AI is Machine Learning: the development of a computational model followed by ‘training’ using sample datasets resulting in decisions or predictions and the inclusion of a feedback loop to refine the approach based on whether a given decision is right or wrong.

However, industry optimism is still tempered with caution – Gartner’s Hype Cycle positions Machine Learning at the ‘peak of inflated expectations’, about to enter the ‘Trough of Disillusionment’.

Looking past the hyperbole and future promises of AI, here we provide a range of real-world examples that illustrate how SciBite is pioneering the use of Machine Learning and Semantic Analytics to transform common scientific and business processes and delivering real business value.

Eliminating the Data Preparation Burden

The era of data-driven R&D is motivating investment in technologies such as machine learning and natural language processing to provide deeper insights into new drug development strategies. Despite major advances in technology, many computational approaches struggle to deal with the complexity and variability of unstructured scientific language.

One fundamental of data science remains unchanged: the accuracy and reliability of results are both critically dependent on clean, high quality data.

However, the data cleansing and annotation work required to achieve clean, high quality data can be costly, often prohibitively so. For example, data scientists spend almost 80% of their time as ‘data janitors’, collecting, cleaning, formatting and linking data, and only 20% of their time actually analysing data.

Furthermore, for most data scientists, data preparation is the least enjoyable part of their role. This presents a significant risk: when people spend a significant part of their time on a task they don’t enjoy, mistakes are bound to occur.

For most Pharmaceutical companies, extracting insight from heterogeneous and ambiguous data remains a challenge, consuming a significant amount of the time of their already constrained data scientist resources.

More Than FAIR: Unlocking the Value of Your Bioassay Data

One of the most valuable assets for any organisation is its data. However, most pharmaceutical companies are unable to realise its true value as a result of either i) deploying a data management system that is geared towards entering rather than mining data and/or ii) replacing such systems over time, resulting in silos of legacy data.

The way in which an organisation captures and manages its data is fundamental to addressing this problem. A wider scientific community initiative has resulted in the establishment of the FAIR principles1 to ensure that data is Findable, Accessible, Interoperable and Reusable. Although initially focused on the accessibility of public domain data, the FAIR principles are rapidly gaining interest from the pharmaceutical industry2.

The benefits of FAIR can be illustrated using the example of bioassay data management. A significant proportion of the pre-clinical data that has been accumulated by every pharmaceutical company is a result of conducting a range of biological assays to characterise drug targets and evaluate potential therapeutic molecules. Databases dedicated to managing bioassay data contain an amazing wealth of R&D knowledge and, as such, provide a rich resource for mining with both scientific and operational questions.

Biomarker Discovery in Literature

The identification and application of biomarkers in basic and clinical research is almost a mandatory process in any productive pipeline of a biopharmaceutical organisation.

Validated biomarkers play a crucial role in the prediction of clinical outcome, support the translation from candidate discovery to successful clinical treatment.

The process to discover and validate new biomarkers depends on effective methodologies often calling on text mining approaches to extract insight from biomedical literature.

The following white paper evaluates SciBite’s capabilities in identifying new gene biomarkers in Breast Cancer against a published methodology.

Given the wealth of information available in biomedical literature, an important thing is to be knowledgeable of all the existing biomarkers and also other biomolecules that may be suitable as new biomarkers.

SciBite’s TERMite and TExpress products provide a powerful and effective text mining solution that can identify and extract new potential biomarker leads from scientific text.

How could the SciBite semantic platform help you?

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