AgriVectors: A Data and Systems Resource for Arthropod Vectors of Plant DiseasesSurya Saha
Arthropod vectors of pathogens cause enormous economic losses and are a fundamental challenge for sustainable increases in food production, yet agricultural pathosystems remain an underserved area of research. To more effectively fight plant diseases, data pertaining to a disease system needs to be consolidated, made searchable and amenable to data mining. The AgriVectors platform is an open access and comprehensive resource for growers, researchers and industry working on plant pathogens and pathosystems spread by arthropod vectors. The portal connects established public repositories with pathosystem-specific data repositories. The AgriVectors system will provide tools to enable technologies such as RNAi, CRISPR, screening bioassays, etc. to leverage current and emerging knowledge across disciplines. It will also include private and unpublished data, using passwords and secure protocols for restricted access. The portal will be based on the Citrusgreening.org (https://citrusgreening.org/) community resource that was developed as a model for systems biology of tritrophic disease complexes. Citrusgreening.org provides omics and biology resources for the Huanglongbing pathosystem. In addition, it includes a biochemical pathway database for each organism in this disease complex, and an expression atlas with proteomics and RNAseq data from psyllids (http://pen.citrusgreening.org) and citrus (http://cen.citrusgreening.org) across multiple infection states. The AgriVectors portal will extend this model beyond gene-centric omics data to the broader Pathosystem-wide information, with integrated pest management, behavioral, plant health, soil health and climate data to incorporate rapid phenotyping information from research trials, building a foundation for more effectively identifying solutions to combat plant diseases.
Introducing OWL Ontologies - the use of globally accessible controlled vocabularies in the domain of biology, chemistry, health, and data science. The more that data elements and form fields reference these, the more your application and data will become globally connected and adaptable.
AgriVectors: A Data and Systems Resource for Arthropod Vectors of Plant DiseasesSurya Saha
Arthropod vectors of pathogens cause enormous economic losses and are a fundamental challenge for sustainable increases in food production, yet agricultural pathosystems remain an underserved area of research. To more effectively fight plant diseases, data pertaining to a disease system needs to be consolidated, made searchable and amenable to data mining. The AgriVectors platform is an open access and comprehensive resource for growers, researchers and industry working on plant pathogens and pathosystems spread by arthropod vectors. The portal connects established public repositories with pathosystem-specific data repositories. The AgriVectors system will provide tools to enable technologies such as RNAi, CRISPR, screening bioassays, etc. to leverage current and emerging knowledge across disciplines. It will also include private and unpublished data, using passwords and secure protocols for restricted access. The portal will be based on the Citrusgreening.org (https://citrusgreening.org/) community resource that was developed as a model for systems biology of tritrophic disease complexes. Citrusgreening.org provides omics and biology resources for the Huanglongbing pathosystem. In addition, it includes a biochemical pathway database for each organism in this disease complex, and an expression atlas with proteomics and RNAseq data from psyllids (http://pen.citrusgreening.org) and citrus (http://cen.citrusgreening.org) across multiple infection states. The AgriVectors portal will extend this model beyond gene-centric omics data to the broader Pathosystem-wide information, with integrated pest management, behavioral, plant health, soil health and climate data to incorporate rapid phenotyping information from research trials, building a foundation for more effectively identifying solutions to combat plant diseases.
Introducing OWL Ontologies - the use of globally accessible controlled vocabularies in the domain of biology, chemistry, health, and data science. The more that data elements and form fields reference these, the more your application and data will become globally connected and adaptable.
Overview of the data, questions, & tools that data analysts &
scientists work with. It is a conceptual introduction to the ideas behind turning data into knowledge as well as a practical introduction to tools like version control, markdown, git, GitHub, R, and RStudio.
Sample Tracker: A web-based application for tracking and managing environment...Gerard Devine
Poster presented at eResearch Australasia 2014 in Melbourne on the Sample Tracker application developed and operating at the Hawkesbury Institute for the Environment
Overview of the data, questions, & tools that data analysts &
scientists work with. It is a conceptual introduction to the ideas behind turning data into knowledge as well as a practical introduction to tools like version control, markdown, git, GitHub, R, and RStudio.
Sample Tracker: A web-based application for tracking and managing environment...Gerard Devine
Poster presented at eResearch Australasia 2014 in Melbourne on the Sample Tracker application developed and operating at the Hawkesbury Institute for the Environment
GenomeTrakr: Whole-Genome Sequencing for Food Safety and A New Way Forward in...ExternalEvents
http://www.fao.org/about/meetings/wgs-on-food-safety-management/en/
GenomeTrakr: Whole-Genome Sequencing for Food Safety and A New Way Forward in the Microbiological Testing & Traceability for Foodborne Pathogens. Presentation from the Technical Meeting on the impact of Whole Genome Sequencing (WGS) on food safety management -23-25 May 2016, Rome, Italy.
1. Fay J. Chu
Contact Information: Current Address:
Fayjchu91@gmail.com 3618 Connecticut Ave, NW
(910) 724-4317 Washington D.C., 20008
Education
The George Washington University, Washington D.C.
Bachelor of Science in Biology
Class of 2014
Presidential Scholarship (Merit)
Bioinformatics
National Institute of Cancer (NCI, NIH) June 2015 - Present
Quality Assurance Engineer Rockville, MD
Performing quality assurance engineering to The Cancer Genome Atlas (TCGA) project within the NCI Center for
Biomedical Informatics and Information Technology (CBIIT).
Responsible for developing and executing exploratory testing to ensure product quality unique to release.
Developing tools to facilitate testing in a Linux environment or with the use of SQL, java, JSON, and visual basic.
Carrying out tasks in applications including: HPQC, Oracle SQL Developer, Eclipse, JIRA, QTP, AnthillPro3.
Collaborating effectively and efficiently with a team (both local and remote) in order to debug software efficiently.
National Institute of Allergy and Infectious Diseases (NIAID, NIH) January 2015 – May 2015
Junior Bioinformatics Engineer Rockville, MD
Compiled a software quality control report on various proteomic mass spectrometry programs within the Research
Technology Branch (RTB) of the NIAID.
Designed and verified standards of testing procedures for mass spectrometry software programs including PEAKS,
MaxQuant, Mass++, ProteoIQ over a variety of biological sample types and concentrations .
Scripted in R and Python to facilitate statistical analyses and create a platform for comparison across programs.
Medical Office Management
True Potential M.D., LLC. June 2014 – January 2015
Financial Assistant Manager/Developer Steilacoom, WA
Managed LLC’s website development and content, managed doctor/patient interatci0on, and tracked LLC’s finances.
Greeted and screened patients, nurtured interpersonal relationships between the patient and medical staff,
filed/prganized patient information.
Biological Research
George Washington University Genetic Laboratory August 2013 – March 2014
Lab Assistant Washington D.C.
Contributed to projects identifying plant genomes found within the Smithsonian Environmental Research Center.
Independently ran procedures including: preparing reagents, fungal culturing, gel electrophoresis, cell culturing, PCR,
and DNA extraction, isolation, and purification.
Fieldwork including: specimen collection and identification, sample storage/organization, and biological monitoring.
George Washington University Immunology Laboratory August 2012 – May 2013
Lab Assistant Washington D.C.
Examined the function of a family of genes called 185/333 in the immune response of purple sea urchins.
Independently ran procedures including: immunofluorescence, PCR, gel electrophoresis, Western blot, ELISA, and
protein isolation and purification.
Held responsiblr for specimen treatment, data interpretation and organization, and data presentation to supervisor.
