Previously within an indigenous Filipino community with a ~50% prevalence of otitis media, we identified an A2ML1 mutation that confers a high risk of otitis media susceptibility and influences the relative abundance of specific bacterial taxa within the middle ear.
The Centre for Biodiversity Genomics (CBG) is a research organization dedicated to furthering our understanding of the world’s fauna and flora. Through a variety of approaches, researchers at the institute are discovering, cataloging, and describing biodiversity. DNA barcoding, an innovative technique developed at CBG, utilizes DNA sequencing technology for species identification.
Over the last decade, our research team has investigated the dynamic responses and global properties of living cells using systems biology approaches. More specifically, we have developed computational models and statistical techniques to interpret instructive cell signaling and high-throughput transcriptome-wide behaviors of immune, cancer, and embryonic development cells.
Computational modeling allows biologists to create formal models of cellular phenomena that can be simulated, analyzed and compared to experimental data. Biologists today have at their disposal a wide range of software tools for their modeling efforts. The wealth of resources is a boon to researchers, but it also presents interoperability problems.
With the explosion of data in different dimensions of drug discovery, biomedicine and healthcare, a key challenge is the ability to connect the disparate data sources, discover the right analytics tools for a specific analysis and navigate through inter-operable analytics to provide executable insights.
The genome found in every cell of our body contains over 20 thousand genes and over 3 billion letters of DNA that sustains life, shapes who we are and determines our risks of having a disease. CRISPR/Cas (clustered regularly interspaced palindromic repeats) is a recently discovered antiviral defence system in bacteria that has become the favorite set of tools to edit and correct any diseased genome and change any sequence of DNA in precisely chosen genomic location performed not in a test tube but within the nucleus of our living cell.
Shipworms are marine bivalves that live and feed on wood. These bivalves, like most xylophagous and herbivorous animals, rely on bacterial symbionts to digest the recalcitrant lignocellulose component of plants. What’s unusual about shipworms is that bacterial symbionts are housed intracellularly in the specialized cells in the gills, therefore are not in direct contact with the ingested food particles.
Metastasis claims 90% of all cancer-related deaths and remains clinically insuperable. The hallmarks of metastases are processes known as Epithelial to Mesenchymal Transition (EMT) and its reverse Mesenchymal to Epithelial Transition (MET) that enable primary carcinoma cells to migrate and start new tumors at distant organs. I will present an integrated theoretical and experimental approach that elucidates how cancer cells undergo EMT and MET, and how these transitions affect their ability to initiate new tumors.
Understanding the influences of molecular alterations on pharmacological responses in the omic sense is at the fore of the effort to make oncology treatments more effective and specific. At present, however, this remains a field in its infancy. The NCI-60 cancerous cell lines provide a premier set of databases and tools for systems molecular pharmacological studies.
Modern genomics research requires complex computational processing to integrate, analyze, and extract meaning from large, disparate datasets. While a multitude of commercial and open source bioinformatics applications are available, it is difficult to assemble a collection of tools that work together seamlessly to perform the required analysis. Even more difficult is performing analysis in a manner that documents the data, algorithms, and processing steps such that the results are easily published and reproducible.