







Knowledge refinement is the ever ongoing process in science (and beyond it) that shepherds knowledge from lab notebooks into journal articles and then on to review articles, monographs, reference handbooks, university textbooks, and finally professional domain expertise and school education for a wider public. It has been going on for a few centuries, but we hardly talk about it. In fact, I made up the term because I couldn't find an established one. Computational knowledge has not yet found its place in the knowledge refinement process. Why not? And what can we do to make it happen?
See what you think
Allegra A. Beal Cohen's blog about knowledge curation, new interfaces, and large-scale qualitative data.

Refine
I recently tried refine, an AI tool for refining academic articles, developed by Yann Calvó López and Ben Golub.

The Bazaar of Scientific Knowledge | shishyko!
Is the current form of the scientific paper still optimal in 2025? How do we preserve, and efficiently leverage, the uncut gems of the scientific process?
The Discovery Engine: A Framework for AI-Driven Synthesis and Navigation of Scientific Knowledge Landscapes
Scientific progress relies on the effective accumulation, synthesis, and critical evaluation of knowledge. Traditionally, the well-documented, peer reviewed publication served as the primary standard for filtering and disseminating credible findings within the scientific community. Recently, however, we are witnessing an unprecedented acceleration in research output, a veritable explosion of scientific publications across all disciplines [1]. Yet, this very abundance creates a paradox: the sheer volume threatens to overwhelm the mechanisms designed for its assimilation and synthesis. Researchers, even within highly specialized subfields, face an almost insurmountable challenge in keeping abreast of relevant developments, integrating disparate findings, and identifying the truly novel signals amidst the noise [2]. This information overload contributes to disciplinary fragmentation, hindering the cross-pollination of ideas essential for disruptive innovation [3]. Furthermore, persistent concerns regarding "reproducibility crisis" [2], predatory journals, inflation of research areas[4], growing retractions and the potential influences of bibliometrics on research direction [5] highlight systemic challenges in validating and prioritizing scientific contributions to fundamental knowledge.
Universal Scientific Protocols, Inc.
Universal Scientific Protocols, Inc. — research publishing, reconsidered. A knowledge management platform for machine learning researchers.
It’s time to get rid of the peer-reviewed paper
The peer-reviewed journal article, perhaps the single most important device behind the expansion of scientific knowledge in the last century, is an extraordinarily expensive way to share novelty: e…

The Bazaar of Scientific Knowledge | shishyko!
What if we didn't collapse all the knowledge from the scientific process into one paper?
Steps Towards an Infrastructure for Scholarly Synthesis
Sharing, reusing, and synthesizing knowledge is central to the research process, both individually, and with others. These core functions are not supported by our formal scholarly publishing infrastructure: instead of the smooth functioning of functional infrastructure, researchers resort to laborious "hacks" and workarounds to "mine" publications for what they need, and struggle to efficiently share the resulting information with others. Information scientists have proposed an alternative infrastructure based on the more appropriately granular model of a discourse graph of claims, and evidence, along with key rhetorical relationships between them. However, despite significant technical progress on standards and platforms, the predominant infrastructure remains steadfastly document-based. Drawing from infrastructure studies, we locate the current infrastructural bottlenecks in the lack of local systems that integrate discourse-centric models to augment synthesis work, from which an infrastructure for synthesis can be grown. Through 3 years of research through design and field deployment in a distributed community of hypertext notebook users, we elaborate a design vision of what can and should be built in order to grow a discourse-centric synthesis infrastructure: a thriving "installed base" of researchers authoring local, shareable discourse graphs to improve synthesis work, enhance primary research and research training, and augment collaborative research. We discuss how this design vision -- and our empirical work -- contributes steps towards a new infrastructure for synthesis, and increases HCI's capacity to advance collective intelligence and solve infrastructure-level problems.

I Built a Knowledge Base That Writes Itself. Here Is What Andrej Karpathy Got Right.
Andrej Karpathy posted about using LLMs to build personal knowledge bases. I took his workflow, wired it into my Obsidian vault with Claude Code, and within an hour had 21 cross-linked wiki articles compiled from YouTube transcripts. Here is how it works and why it matters.

Science Live - The Platform for FAIR Research
Transform research into FAIR nanopublications. Create, discover, cite, and embed structured knowledge bricks.
Steps Towards an Infrastructure for Scholarly Synthesis
Sharing, reusing, and synthesizing knowledge is central to the research process, both individually, and with others. These core functions are not supported by our formal scholarly publishing infrastructure: instead of the smooth functioning of functional infrastructure, researchers resort to laborious ”hacks” and workarounds to ”mine” publications for what they need, and struggle to efficiently share the resulting information with others. Information scientists have proposed an alternative infrastructure based on the more appropriately granular model of a discourse graph of claims, and evidence, along with key rhetorical relationships between them. However, despite significant technical progress on standards and platforms, the predominant infrastructure remains steadfastly document-based. Drawing from infrastructure studies, we locate the current infrastructural bottlenecks in the lack of local systems that integrate discourse-centric models to augment synthesis work, from which an infrastructure for synthesis can be grown. Through 3 years of research through design and field deployment in a distributed community of hypertext notebook users, we elaborate a design vision of what can and should be built in order to grow a discourse-centric synthesis infrastructure: a thriving “installed base” of researchers authoring local, shareable discourse graphs to improve synthesis work, enhance primary research and research training, and augment collaborative research. We discuss how this design vision — and our empirical work — contributes steps towards a new infrastructure for synthesis, and increases HCI’s capacity to advance collective intelligence and solve infrastructure-level problems.
Reinventing Discovery: The New Era of Networked Science
In Reinventing Discovery, Michael Nielsen argues that w…

Science Live: Platform for FAIR Nanopublications
Science Live Platform - Transform research into connected knowledge
#predictingthefuture #newfutureofwork | Jaime Teevan
🌱 Prediction: Knowledge will outgrow publication. We’re already seeing academic publication start to buckle under AI, sometimes absurdly. I still publish research more or less the way Darwin did. I run a study, write it up, a few other scientists check it over, and the result gets filed away as a document with my name on the front. Faster than Darwin, with better figures, but the same basic shape. I predict that shape won’t last another decade. Academic authors are starting to slip hidden instructions into papers to flatter the AI that might review them. Reviewers are spending time checking whether citations exist or were hallucinated. Researchers asking AI to tell them about a paper instead of reading it directly. These are signs that the creation of new knowledge is outgrowing the articles that used to contain it. An academic paper serves many purposes at once. It makes an argument legible. It lets strangers check one's reasoning. It assigns credit and responsibility. It records who knew what and when. A paper was the only container we had for these different jobs, so it carried all of them together. With AI, they can be separated. My guess is that means the unit of publication will get smaller. Much of my research has focused on microproductivity, developing the idea that large accomplishments can be built from many small contributions. Publication will start to become a form of microproductivity. Instead of holding onto a result until it can be wrapped in a narrative large enough to justify a paper, researchers will publish it the moment it’s solid. Each finding, method, or negative result will be citable and carry its own provenance, so credit and reasoning travel with it. Reviewing will shrink to match, so claims get checked as they’re made instead of in one verdict at the end. But more than changing publication, the deeper change will be to how research itself is done. You may have heard the term “compound engineering,” where every bug fixed, evaluation written, workflow documented, or lesson learned becomes part of the system’s memory. I predict we’re about to see “compound science,” where every experiment, evaluation, insight, artifact, and learned capability becomes a reusable asset for future discovery. Findings will become evidence. Methods will become building blocks. Failed approaches will become constraints. For centuries, science has relied on humans to navigate an ever-growing body of knowledge. Soon that body of knowledge will help navigate itself. Scientists will spend less time searching for hypotheses and more time deciding which opportunities to pursue. AI systems will propose explanations, design experiments, run analyses, and explore many possibilities in parallel. Every discovery will become a part of the machinery that produces the next one. Papers ten years from now will look less like my current papers than my current papers look like Darwin’s. If they exist at all. #PredictingTheFuture #NewFutureOfWork
One thing I've been dwelling on is how computing engineering and discourse rely thoroughly on a substance ontology of information, with dumb consequences. I've just found out that @romainbrette.bsky.social, looking at the same in neuroscience, calls it "epistemic phlogiston." I'm so stealing that.
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static.klipy.comKonrad Hinsen's blog
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Keynote: Reproducibility and replicability of computer simulations | Canal U
Reproducible research: methodological principles for transparent…
Reproducible Research II: Practices and tools for managing compu…