Collaborations

Dr. Rothman has been involved in research on immunity and pathogenesis of viral diseases in humans for over 25 years. A major focus of his research has been defining the virological and immunological events in acute dengue virus infection and their relationship to the development of the viral hemorrhagic fever syndrome. CCV collaborated with Dr. Rothman on research into the cross reactivity of T cell receptors for dengue virus.

The Autonomous Empirical Research Group (AER) strives to enhance and accelerate scientific discovery by automating each step of the empirical research process, from constructing a scientific hypothesis to conducting novel experiments. CCV's collaboration focuses on developing a framework which the group can use to run simulations to test machine learning models and run experiments with real participants.

The Borton Lab is designing, developing, and deploying neurotechnology to better understand the nervous system and improve human lives. CCV has supported software development of Behavioral Tasks used in clinical studies that can be deployed to multiple platforms as well as to the browser. CCV Software Engineers have also supported the Open Mind Consortium, which the Borton Lab is part of, with the goal of designing and developing open source software elements for neural sensing at home paired with peripheral monitors, and streamlined regulatory pathway for FDA approval of investigational protocols.

The BrainGate research program is focused on developing brain-computer interface (BCI) technologies to restore the communication, mobility, and independence of people with neurologic disease, injury, or limb loss. CCV's collaboration with BrainGate focused around the development of a database solution using TimeScaleDB for continuous at-home neuro-recording.

Dr. Spade's research focuses on mechanisms of male reproductive toxicity. CCV is collaborating with Dr. Spade on looking into biomarkers of toxicity in rats treated with the toxin EGME.

The Dennery lab investigates neonatal lung injury and repair. CCV's collaboration with the Dennery lab involved analyzing and publishing ChIP-Seq and single cell RNA-seq data.

The Fedulov lab investigates epigenetic regulation. CCV's collaboration with the Fedulov lab involved analyzing and publishing reduced-representation bisulfite sequencing data.

The Hurt Lab focuses on the creation of 2D and 3D nanomaterials and their effects on human health and the environment. CCV has helped the hurt lab with the design and implementation of a database to track toxicity of 2D nanomaterials.

IBES supports research to understand the interactions between natural, human and social systems. CCV has supported software development and computer vision and NLP pipeline design to automate extraction of hazardous sites information from historic city directories and sandborn maps

The Kantor lab HIV/AIDS reseach includes the evolution of antiretroviral resistance, treatment monitoring, and transmission, with a focus on HIV/AIDS locally and in resource-limited settings. CCV collaborates with the Kantor lab on transmission inference related projects.

Dr. McDonald's primary research focus is on improving maternal and infant health in resource poor settings, with particular emphasis on the role of the placenta in mediating the impact of maternal infectious disease on fetal development. CCV is collaborating with Dr. McDonald on applying metagenomics methods to study the impact of schistosomiasis on the breast milk and placental microbiome.

Dr. McHugh's research interests focus on legitimacy and network theory in the context of social media and decision making. CCV collaborated with Dr. McHugh on research looking into tipping points using logistic regression and machine learning.

The PEAC Lab examines computational basis of our perception, learning, and control of our bodies and the external world. CCV supports the software architecting and development of their SOMA mobile app

The goal of the RI Data Discovery Center is to become the national and international go-to-source for data about the Narragansett Bay ecosystem. CCV supports, maintains and upgrades existing infrastructure used by the RI Data Discovery Center at Brown University. This includes databases as well as code and web technology used to access and visualize historic and model data.

The goal of Serre Lab is to understand the neural computations supporting visual perception. CCV's collaboration with the Serre Lab is to standardize and optimize the various Machine Learning/Deep Learning pipelines used by the lab. The goal of this collaboration is to simplify the use of the computational tools used by the lab and reduce the time to solution.

Dr. Burke's research aims to utilize novel technologies, methodologies, and computational approaches to improve the prediction and prevention of self-injurious thoughts and behaviors among adolescents. The goal of this project is to collect and analyze image data from individuals with scarring from self-harm injuries. This data will be used to train computer vision models to predict various clinical outcome variables. CCV supports the data collection, analysis and model development infrastructure in collaboration with the Massachusetts General Hospital.

The BNC provides ongoing support, training, assistance and advice to COBRE project leaders in the practical aspects of data collection, data management and data processing across a wide variety of neuroscience related methodologies. CCV's help has primarily focused on the deployment of the XNAT Neuroimaging Data Management Platform for the community, as well as, software development and documentation to facilitate data management and processing in OSCAR while promoting adoption of the Brain Imaging Standard (BIDS) and containarized BIDS applications.

Research in the Creton laboratory is focused on brain development and behavior, using zebrafish as a model system. The studies aim to provide a better understanding of basic biological mechanisms and to contribute to the prevention and treatment of various human disorders, including visual impairment, developmental brain disorders and Alzheimer's disease. CCV's collaboration with Creton Lab is to automate the tracking of zebrafish behaviors with the help of deep learning models and developing tools to analyze those behaviors.

The CRUNCH group is a research team of the Division of Applied Mathematics working at the interface of Computational Mathematics + Machine Learning + X, where X may be problems in biology, geophysics, soft matter, functional materials, physical chemistry, or fluid and solid mechanics. Their emphasis is on Scientific Machine Learning and Physics-Informed Neural Networks (PINNs) that the CRUNCH group pioneered. CCV provides Linux system administration and research software support to the CRUNCH group and other faculty in Applied Math.

The People, Place & Health Collective (PPHC) is a research group in the Department of Epidemiology at the Brown University School of Public Health. CCV has helped refactor, bring testing, continuous integration and deployment, improved documentation and performance to TITAN - an Agent Based Model developed by the collective. More recently, CCV helps with data management, development of visualization tools, advising on ways to create more efficient/automated processes, and supporting growth of new skills/software within the context of PPHC's PROVIDENT and PROFOUND projects.

The Policy Lab brings together experts from government, universities, and community organizations to collaborate on research tailored to inform decisions about how to improve policies and programs across the state. The CCV's collaboration with The Policy Lab includes automating data-processing pipelines in partnership with collaborators (other academics, state/local agencies), developing web tools to enhance policymaking, and improving adoption of software engineering best practices.

The Venture Capital Inclusion (VCI) Lab uses data to identify levers for change towards a more inclusive venture capitalist (VC) industry. CCV's collaboration with the VCI Lab and Crunchbase focuses on examining how VC decsion-making and networks impact the flow of resources in entrepreneurial ecosystems.

The Visualization Research Lab (VRL) is part of the Brown University Graphics, Visualization, & Interaction (GVI) Group. It focuses on developing ways to visualize, interact with, and study a range of problems and phenomena from science as well as the arts and humanities. CCV has a long-running collaboration with the VRL focusing on the support and development of VR software for CAVE systems and more recently for collaborative VR using head mounted displays.

The Wilhelmus Lab takes an engineering approach to solve scientific problems related to fluid mechanics and transport mechanisms. One example is tracking ice floes in satellite imagery to understand velocity and turblence in the Arctic Ocean. CCV collaborates on this project with Dr. Wilhelmus to translate the existing code base into a module that can be parameterized and used by researchers. This includes looking for processing efficiencies in the process.