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Networking microbiome science

Unifying constellations of complex, multi-dimensional data and the exploration of signals and networks of relationship undetectable by humans alone.
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Innovating in network microbiome science

Why microbiome? 

An entire ecosystem of microorganisms (bacteria, archaea, eukaryotes, and viruses), their genomes, and the surrounding environmental conditions (proteins, metabolites, environmental data, etc). This is the frontier of 21st century science.

Why network science? 

Nowhere are the opportunities and challenges more significant than in the burgeoning field of the microbiome. Network science provides the only robust and reliable framework to examine the highly complex interactions of microbiome communities. 

Platform Condition/Disease Fit 

There are in the order of 10,000+ human diseases alone, and it is increasingly clear that the microbiome is implicated in many of them. Similar challenges and opportunities exist in animals, plants and other ecosystems. The ability to optimize for platform condition/disease fit will differentiate winners and losers in the emerging bio-economy. 

Nature Co-Design 

Nature co-design refers to the harnessing of nature’s capabilities on the foundation of microbiome science to produce new products and materials (bio-factoring). e[datascientist] enables enterprises to participate in the bio-economy to produce a new generation of products, harnessing nature co-design and new lanes of economic growth.

Network Life Sciences Platform

Conversational Collaboration

Humans and machines learning together

e[datascientist] provides the foundation for conversational learning between the data and the scientist. This unique conversational interface provides the basis for a radical shift in microbiome science led innovation.

Valuation and Decision Engine

Trusted Decision Framework

Objectively measure the usefulness and relevance of data and knowledge assets. At the core of e[datascientist], a unique trusted decision framework infers context from metadata, prioritizing entity relationships at unprecedented speed and microbiomical scale.

Analysis Hub

Guided statistical analysis and visualization

Intelligent statistical analysis and pipeline capabilities on the cloud guide and inform research direction and outcomes. e[datascientist] automates workflow technology and analysis tools on a single platform.

Catalog

Conceptual Experiment Framework

Intelligent management, analysis and sharing of multi-omics data and metadata. The e[datascientist] Catalog, equipped with robust governance structures, orchestrates the journey from disparate data sources to scientifically meaningful knowledge artefacts.

Multi-layer Hypergraph

Transforming knowledge discovery

Explore complex multi-dimensional relationships within microbiome data. Link, layer and nest a network of hypergraphs to expose, elucidate and understand context and emergent data patterns.

Beyond the microbiome

Applying microbiome science to R&D processes promotes better and more sustainable product design. Through the processes of fermentation and bioprocessing, microbes will provide alternative production mechanisms for some of the world’s most widely used resources, including proteins, plastics, ingredients, and beyond. 

The novel value chain that will emerge will help ensure the long term health of the planet and of consumers. The microbiome is a catalyst to integrate broader life science and commercial data, as well as demonstrate the utility of network science approaches to innovation — ultimately leading the way to Industry 4.0 across sectors.

Microbiome FAQs

What is the microbiome?

An entire ecosystem of microorganisms (bacteria, archaea, eukaryotes, and viruses), their genomes, and the surrounding environmental conditions (proteins, metabolites, environmental data, etc). This is the frontier of 21st century science.

Why should I care about the microbiome?

The microbiome has a critical role to play in our personal health as well as the health of our planet. Your microbiome strongly influences your immune system, metabolic health, perhaps even your mood, while environmental microbiomes influence ecosystem diversity, agricultural success, and even climate change. Understanding and harnessing the microbiome will provide the mechanism to improve health and wellness across the globe.

What applications does the microbiome have?

The applications of microbiome science are vast: some examples include functional foods and nutritional supplements, consumer goods like cosmetics and personal hygiene products, biofertilizers for healthy soils, improved diets for livestock, and living therapeutics for diseases. Use cases are rapidly increasing as our understanding of the microbiome grows.

What can the microbiome do for my products?

Applying microbiome science to product design can have a variety of benefits, including safety (not disrupting your natural microbiome), increased functionality (designing a product that actually enhances some aspect your microbiome), personalization (specifically designed for your microbiome), and product sustainability (improved value chains and natural alternative ingredients).

How can one integrate microbiome science into R&D processes?

Traditionally, R&D works to create new products or improve existing ones through efficacy, safety, etc. Microbiome science provides a novel mechanism for innovation by reinventing traditional processes in ingredient production, safety evaluation, and health management. For example, microbiome-driven innovation can enable the identification of new food supplements that promote health by altering bacterial species in the gut; the discovery of new proteins that can be used in ingredient manufacturing; or the detection of new biosynthetic gene clusters that produce particular chemicals.

What are the commonly used methods to study the microbiome?

Microbiome research typically involves sampling from a specific environment (a ‘biome’), which can be a particular geographical area, such as a field or a lake, or a body site, such as the gut or scalp. Genomic material extracted from the samples is then sequenced. This can involve the targeting of taxonomic marker genes, whole genome shotgun (WGS) metagenomic sequencing, and RNA-seq metatranscriptomic sequencing to study diversity, composition and function. Microbial assembled genomes (MAGs) can also be reconstructed for genomic studies of novel organisms.

What kind of data do you use to study the microbiome?

The term ‘microbiome’ refers to the environment that is sampled, including the microbial community. In addition to sequencing data, a range of other measurements can also be taken, depending on the environment sampled. These can include the temperature or pH of soil or water, or gene expression measurements relating to the host organism.

How does network science apply to the microbiome?

Network science involves the study of patterns of connections in complex networks. The study of the microbiome involves networks of interacting microbes connected to wide constellations of other data. These include the array of metabolites that microbes produce, which may in turn interact with host systems, such as the immune system. The holistic approach offered by network science is therefore the only way to reliably and fully understand the microbiome.

What is ‘platform condition/disease fit’?

There are in the order of 10,000+ human diseases alone, and it is increasingly clear that the microbiome is implicated in many of them. Similar challenges and opportunities exist in animals, plants and other ecosystems. The ability to optimize for platform condition/disease fit will differentiate winners and losers in the emerging bio-economy. 

How does Eagle Genomics help?

Eagle Genomics is enabling a new era of collaborative, data-driven innovation. Our robust analytical platform fuses network science, AI and graph technology, creating a trusted data fabric for life science research. The e[datascientist] empowers scientists to exploit multi-omics data, discover biological connections, formulate and test valuable hypotheses and generate knowledge to tackle the world’s grand challenges.

Innovating for a better future

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