Open Systems Pharmacology community – an open access, open source, open science approach to modeling and simulation in pharmaceutical sciences. – PubMed – NCBI

Abstract:  Systems Pharmacology integrates structural biological and pharmacological knowledge and experimental data enabling dissection of organism and drug properties and providing excellent predictivity. The development of systems pharmacology models is a significant task requiring massive amounts of background information beyond individual trial data. Qualification of models needs repetitive demonstration of successful predictions. Open Systems Pharmacology is a community that develops, qualifies and shares professional open source software tools and models in a collaborative open science way.

Make code accessible with these cloud services

“Scientific software often requires installing, navigating and troubleshooting a byzantine network of computational ‘dependencies’ — the code libraries and tools on which each software module relies. Some have to be compiled from source code or configured just so, and an installation that should take a few minutes can degenerate into a frustrating online odyssey through websites such as Stack Overflow and GitHub. “One of the hardest parts of reproducibility is getting your computer set up in exactly the same way as somebody else’s computer is set up. That is just ridiculously difficult,” says Kirstie Whitaker, a neuroscientist at the Alan Turing Institute in London….”

Open is Eating the World: What Source Code and Science Have in Common – The Scholarly Kitchen

“There are increasingly noticeable connections between open source and open research. Both open research and open source are promoted as mechanisms to improve quality by creating faster and more robust feedback mechanisms, they’re both intended to reduce waste and unnecessarily duplicated effort (validation is not duplication of effort, they’re different things), and they both draw / are dependent on communities to be both valuable and sustainable….”

OpenSDP | Strategic Data Project

“Harvard’s Strategic Data Project works with education agencies to find and train data leaders to uncover trends, measure solutions, and effectively communicate evidence to stakeholders. Our inspiring network of system leaders, fellows, and faculty come together to share how to best use data to make a difference in the lives of students….

The Strategic Data Project is a diverse, passionate community of education leaders, data strategists, and faculty committed to using data to help all students succeed. Together, we are driving data-informed change in over 125 school systems and organizations….

Since 2008, SDP has partnered with school districts, charter networks, state agencies, and nonprofit organizations across the country and around the world to bring high-quality research methods and data analysis to bear on education management and policy decisions.

An initiative of the Center for Education Policy Research (CEPR) at Harvard University, SDP was formed on three fundamental premises: 

1) Policy and management decisions can directly influence schools’ and teachers’ ability to improve student achievement.

2) Valid and reliable data analysis significantly improves the quality of decision making.

3) Building an agency’s internal capacity to conduct rigorous data analysis is critical to producing and sustaining evidence-driven decisions….

OpenSDP is an online, shared community of analytic code, tools, and trainings to foster collaboration among education analysts and researchers. Housed on GitHub, users have access to code and tutorials for every stage of the analytic cycle, from preparing and standardizing user data to conducting analyses and producing visualizations. …”

Changing the culture of data science | The Alan Turing Institute

“The crisis of reproducibility in science is well known. The combination of ‘publish or perish’ incentives, secrecy around data and the drive for novelty at all costs can result in fragile advances and lots of wasted time and money. Even in data science, when a paper is published there is generally no way for an outsider to verify its results, because the data from which the findings were derived are not available for scrutiny. Such science cannot be built upon very easily: siloed science is slow science.

That’s one of the reasons funders and publishers are beginning to require that publications include access to the underlying data and analysis code. It’s clear that this new era of data science needs a new cultural and practical approach, one which embraces openness and collaboration more than ever before. To this end, a group of Turing researchers have created The Turing Way – an evolving online “handbook” on how to conduct world-leading, reproducible research in data science and artificial intelligence….”

The spirit of openness in Belgrade during the Open Access Week: Conference The Application of Free Software and Open Hardware – OpenAIRE Blog

“The second conference The Application of Free Software and Open Hardware (Primena slobodnog softvera i otvorenog hardvera – PSSOH) was certainly the most vibrant event organized in Serbia on the occasion of the 2019 Open Access Week.”

Open Preservation Foundation Joins The Open Source Initiative – Open Preservation Foundation

“The Open Preservation Foundation (OPF) is delighted to announce that we have become an affiliate member of the Open Source Initiative® (OSI). The OSI is the global non-profit formed to educate about and advocate for the benefits of open source software, development, and communities.

OSI affiliate members participate directly in the direction and development of the OSI through the Board of Directors elections as well as incubator projects and working groups that support software freedom. OSI membership provides a forum where some of the world’s most successful open source software leaders, projects, businesses, and communities engage through member-driven initiatives to promote and protect open source software, while also extending and improving their open source efforts through co-creation, collaboration, and community….”

Offline Archive Brings Knowledge Anywhere | Internet Archive Blogs

“The Internet Archive’s central mission is establishing “Universal Access to All Knowledge,” and we want to make sure that our library of millions of books, journals, audio files, and video recordings is available to anyone. Since lack of an internet connection is a major obstacle to that goal, we created the Offline Archive project—that works to make online collections available regardless of internet availability….”

Ten Prerequisites to Securely Fund Open Infrastructure

“The scholarly communication community needs to call for an open, sustainable infrastructure that is community-owned — one that speaks to our open and academic values. It must be open; not closed off by vendors creating a situation where the academy becomes dependent on a suite of products that are likewise dependent on essential infrastructure, often built by the academy in the first place. For this to truly work and to offer a viable and sustainable solution, we need to develop an interconnected rich and diverse ecosystem of open infrastructure where many flowers bloom upon which a plethora of for- and not-for-profit services can be built.

Imagine a future ten years from now where Open is the default, enabled by an open scholarly infrastructure that follows principles of Open as published by Cameron Neylon et al in 2015 or by COAR and SPARC in 2019. A world where the community is involved in the good governance of infrastructure, where services and infrastructure follow open standards such as open APIs and open source; where content, metadata and usage stats are made openly available, and where we have transparent pricing and contracts. Open Infrastructure is motivated by a drive for research excellence and open values rather than profit-making. This happens when communities of stakeholders fund and sustain this infrastructure, including the academy as a whole and its libraries, government, funders, learned societies, publishers, service providers and individuals. When institutions provide operational funding, this support extends beyond financing innovation, acknowledging successful projects that have continued to provide value to their communities over the years and rewarding them with funding for operational costs. Valued, tried and tested infrastructures that need a financial boost to bring them onto a more healthy footing have also been enabled through initiatives like SCOSS. This involves a new strategic vision of what needs to be funded and how it will be enabled by initiatives like Invest in Open Infrastructure, with new kinds of business models for the mid- to longer term. This will form the basis for a new, transparent, trustworthy and equitable scholarly communication society….”