The New York Times adapted PHICOR (Public Health Informatics, Computational, and Operation Research)'s multi-scale computer model to create an interactive tool in an article just published over the weekend: When Could the United States Reach Herd Immunity? It’s Complicated. https://www.nytimes.com/interactive/2021/02/20/us/us-herd-immunity-covid.html
Save the date for HARMONY 2021 Date: March 22nd to March 26th Place: online http://co.mbine.org/events/HARMONY_2021 HARMONY 2021 will be an online-only meeting similar to COMBINE 2020 (http://co.mbine.org/events/COMBINE_2020). Most of the day will be scheduled by the communities as breakouts. In addition, there will be some time each day for community discussion and wrap-ups of breakouts [...]
As the result of a mandate from Congress, the National Academies will explore the issues of reproducibility and replication in scientific and engineering research. The committee will explore what is known and identify areas that may need more information to ascertain the extent of reproducibility and replication, review current activities to improve reproducibility and replication [...]
Dr. Matthias König from Institute for Theoretical Biology, Institute of Biology, Humboldt-University, Berlin, Germany has published a very interesting paper, "Executable Simulation Model of the Liver". He highlights the challenges of reproducibility in computational modeling.
Inviting interested researchers to join a new Interagency Modeling and Analysis Group (IMAG) – Multi-scale Modeling Consortium (MSM) Working Group (WG) entitled MULTISCALE MODELING AND VIRAL PANDEMICS. The ongoing COVID-19 pandemic has provided a striking example of the real-world importance of mathematical and computational modeling. Though significant work has been done on epidemiology models, we [...]
The Combine 2020 schedule has been released for this year's online virtual meeting. Due to the current COVID-19 situation, COMBINE 2020 will be an online (virtual) meeting from October 5th (Monday) to October 9th (Friday). Organizers are providing a robust schedule that takes into account all time zones around the world, a real 24 hour [...]
From the September 2020 PLoS Computational Biology the peer-reviewed article "A compiler for biological networks on silicon chips". https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1008063 Author summary: We present a “silicon compiler” that is capable of translating biochemical models encoded in the SBML standard into specialized analog cytomorphic hardware and transfer function–level simulations of such hardware. We show how the compiler [...]
https://youtu.be/OJmqtJey4zg ObjTables is a community initiative to make supplementary spreadsheets to journal articles - one of the most common methods for sharing scientific data - more reusable. The long-term goal is to create an ecosystem of reusable data for comparative and integrative research. ObjTables combines the ease of use of spreadsheets (XLSX file [...]
Danator is an integrated database of molecular data designed to facilitate integrative analysis of multiple cellular subsystems. To help investigators overcome the lack of complete data about every molecule and reaction in every organism, Datanator includes tools for building "clouds" of data that include data about chemically similar molecules and reactions in phylogenetically similar [...]
PLOS Computational Biology has announced the official launch of their Reproducibility Modelling pilot, in collaboration with the Center for Reproducible Biomedical Modelling, The aim is to support improved reproducibility of systems biology or physiology-based models that are submitted to PLOS Computational Biology. Authors with relevant models in their manuscript will be able to take part in [...]
