Visualization of automatically combined disease maps and pathway diagrams for rare diseases.

Investigation of molecular mechanisms of human disorders, especially rare diseases, require exploration of various knowledge repositories for building precise hypotheses and complex data interpretation. Recently, increasingly more resources offer diagrammatic representation of such mechanisms, including disease-dedicated schematics in pathway databases and disease maps. However, collection of knowledge across them is challenging, especially for research projects with limited manpower.

Exploration and comparison of molecular mechanisms across diseases using MINERVA Net.

Protein function is often interpreted using molecular interaction diagrams, encoding roles a given protein plays in various molecular mechanisms. Information about disease-related mechanisms can be inferred from disease maps, knowledge repositories containing manually constructed systems biology diagrams. Disease maps hosted on the Molecular Interaction Network VisuAlization (MINERVA) Platform are individually accessible through a REST API interface of each instance, making it challenging to systematically explore their contents.

Smart Scheduling (SMASCH): multi-appointment scheduling system for longitudinal clinical research studies.

Objective: Facilitate the multi-appointment scheduling problems (MASPs) characteristic of longitudinal clinical research studies. Additional goals include: reducing management time, optimizing clinical resources, and securing personally identifiable information.

Materials And Methods: Following a model view controller architecture, we developed a web-based tool written in Python 3.

COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms.

We need to effectively combine the knowledge from surging literature with complex datasets to propose mechanistic models of SARS-CoV-2 infection, improving data interpretation and predicting key targets of intervention. Here, we describe a large-scale community effort to build an open access, interoperable and computable repository of COVID-19 molecular mechanisms. The COVID-19 Disease Map (C19DMap) is a graphical, interactive representation of disease-relevant molecular mechanisms linking many knowledge sources.

MINERVA API and plugins: opening molecular network analysis and visualization to the community.

Summary: The complexity of molecular networks makes them difficult to navigate and interpret, creating a need for specialized software. MINERVA is a web platform for visualization, exploration and management of molecular networks. Here, we introduce an extension to MINERVA architecture that greatly facilitates the access and use of the stored molecular network data.

Seasonal variability of soil CO2 flux and its carbon isotope composition in Krakow urban area, Southern Poland.

As urban atmosphere is depleted of (13)CO2, its imprint should be detectable in the local vegetation and therefore in its CO2 respiratory emissions. This work was aimed at characterising strength and isotope signature of CO2 fluxes from soil in urban areas with varying distances from anthropogenic CO2 emissions. The soil CO2 flux and its δ(13)C isotope signature were measured using a chamber method on a monthly basis from July 2009 to May 2012 within the metropolitan area of Krakow, Southern Poland, at two locations representing different levels of anthropogenic influence: a lawn adjacent to a busy street (A) and an urban meadow (B).