Know your labs
Who are the two Co-PIs of the UVA Systems Biology and Data Science Training Grant?
Jason Papin and Kevin Janes
Name a nonlinear dimensionality reduction technique.
UMAP, t-SNE, (others welcome)
This landmark project in 2003 provided a complete blueprint of the human genome, laying a foundation for systems-level analyses of human biology.
Human Genome Project
What does PCA stand for?
Principal Component Analysis
This UVA Medical School alum had this soda named after them
Dr. Pepper
Name this lab based on their objective statement:
Multiplex experimental measurements with computational methods (including statistical machine learning, network inference, information theory, signal processing and kinetic-dynamic modeling) to solve problems in the context of cancer, infectious disease and maternal-neonatal immunology
Sepideh Dolatshahi / Dolatshahi lab
Name this modeling method:
Variables that can take on a typically finite collection of states. The state of entities at a given point in time is determined through a collection of rules that describe the entity’s interaction with other entities.
Agent-based modeling
In 2008, this large-scale consortium published integrated analyses of genomic and transcriptomic data from over 200 breast tumors, a milestone in systems-level cancer research
The Cancer Genome Atlas
What does FBA stand for?
Flux Balance Analysis
Where was the first BME building at UVA?
Stacey Hall
Name that lab based on their objective statement:
Building experimental and computational tools that track cell populations as they change over time, using molecular characterization at the single-cell level.
Eli Zunder / Zunder lab
Name this method:
A broad class of computational algorithms that rely on repeated random sampling to obtain numerical results. The underlying concept is to use randomness to solve problems that might be deterministic in principle.
Monte Carlo simulation
This researcher is widely credited with introducing flux balance analysis in the 1990s to study metabolic networks.
Bernhard Palsson
What does MAPK stand for?
Mitogen-Activated Protein Kinase
According to the UVA School of Medicine, how many research core facilities are there? (Including Cancer Center Cores)
23 (4 Cancer Center Cores)
(points to the closest team)
Name that lab based on their objective statement:
Understanding the mechanisms through which human cells respond heterogeneously to environmental and therapeutic perturbations.
Mohammad Fallahi-Sichani / Fallahi-Sichani lab
Name this method:
A technique used to measure the interaction between two molecules labeled with two different fluorophores can be used to measure protein-protein interactions.
FRET (Förster Resonance Energy Transfer)
The first fully sequenced bacterial genome, published in 1995, belonged to this organism and helped catalyze systems-level studies.
Haemophilus influenzae
What does KEGG stand for?
Kyoto Encyclopedia of Genes and Genomes
What medical breakthrough is distinguished UVA alumnus and former U.S. Army doctor Walter Reed most known for?
Proving that yellow fever is transmitted by mosquitos
Whose sys bio lab has been here the longest?
Shayn Pierce-Cottler
Name this method:
Type of optimization method: Involves two components: 1) Surrogate Model: A probabilistic model (often a Gaussian Process) that approximates the objective function. 2) Acquisition Function: A utility function that guides the selection of the next point to evaluate based on the surrogate model.
Bayesian optimization
Name one of the two people who are often considered the “Father of Systems Biology”?
→ Leroy Hood is the co-founder of the Institute for Systems Biology and is considered the "father of systems biology" by many for his pioneering role in the field.
→ Ludwig von Bertalanffy is credited with the foundations of systems thinking in biology and developed General Systems Theory
What does CRISPR stand for?
Clustered regularly interspaced short palindromic repeats
What year was the BME Academic Department founded?
1967 (points given to the closest team?)