Related papers: The Biological Data Sustainability Paradox
In the past few decades, the life sciences have experienced an unprecedented accumulation of data, ranging from genomic sequences and proteomic profiles to heavy-content imaging, clinical assays, and commercial biological products for…
Preprocessing forms an oft-neglected foundation for a wide range of statistical and scientific analyses. However, it is rife with subtleties and pitfalls. Decisions made in preprocessing constrain all later analyses and are typically…
Twin transition is the method of parallel digital and sustainability transitions in a mutually supporting way or, in common terms, "greening of and by IT and data." Twin transition reacts to the growing problem of unsustainable…
This paper explores the idea that information is an essential and distinctive feature of living systems. Unlike non-living systems, living systems actively acquire, process, and use information about their environments to respond to…
The growth of world population, limitation of resources, economic problems and environmental issues force engineers to develop increasingly efficient solutions for logistic systems. Pure optimization for efficiency, however, has often led…
Evolution has fascinated quantitative and physical scientists for decades: how can the random process of mutation, recombination, and duplication of genetic information generate the diversity of life? What determines the rate of evolution?…
The emergence of "big data" offers unprecedented opportunities for not only accelerating scientific advances but also enabling new modes of discovery. Scientific progress in many disciplines is increasingly enabled by our ability to examine…
The role of historical contingency in the origin of life is one of the great unknowns in modern science. Only one example of life exists--one that proceeded from a single self-replicating organism (or a set of replicating hyper-cycles) to…
In computer science, we can theoretically neatly separate transmission and processing of information, hardware and software, and programs and their inputs. This is much more intricate in biology, Nevertheless, I argue that Shannon's concept…
The FAIR principles for scientific data (Findable, Accessible, Interoperable, Reusable) are also relevant to other digital objects such as research software and scientific workflows that operate on scientific data. The FAIR principles can…
Datacentric enthusiasm is growing strong across a variety of domains. Whilst data science asks unquestionably exciting scientific questions, we argue that its contributions should not be extrapolated from the scientific context in which…
The "reproducibility crisis" has been a highly visible source of scientific controversy and dispute. Here, I propose and review several avenues for identifying and prioritizing research studies for the purpose of targeted validation. Of the…
The way science is currently practiced shows conclusions but hides how they were reached. Researchers work privately, polish their results, publish a finished paper, and defend it. Errors are punished by retraction rather than corrected by…
The recent growth of the space sector, spurred by a surge in private actors, has led to a sharp increase in our ability to address societal challenges through space data. However, this has exacerbated an already critical situation in space:…
New technologies have enabled the investigation of biology and human health at an unprecedented scale and in multiple dimensions. These dimensions include a myriad of properties describing genome, epigenome, transcriptome, microbiome,…
Reproducibility is widely acknowledged as a fundamental principle in scientific research. Currently, the scientific community grapples with numerous challenges associated with reproducibility, often referred to as the ''reproducibility…
Factor analysis is a critical component of high dimensional biological data analysis. However, modern biological data contain two key features that irrevocably corrupt existing methods. First, these data, which include longitudinal,…
Concomitant with the evolution of biological diversity must have been the evolution of mechanisms that facilitate evolution, due to the essentially infinite complexity of protein sequence space. We describe how evolvability can be an object…
We explore a paradox of collective action and certainty in science wherein the more scientists research together, the less that work contributes to the value of their collective certainty. When scientists address similar problems and share…
Big data is data that exceeds the processing capacity of traditional databases. The data is too big to be processed by a single machine. New and innovative methods are required to process and store such large volumes of data. This paper…