相关论文: Presence-absence reasoning for evolutionary phenot…

In this contribution, we discuss the basic concepts of genotypes and phenotypes in tree-based GP (TGP), and then analyze their behavior using five benchmark datasets. We show that TGP exhibits the same behavior that we can observe in other…

Unsupervised disentanglement has been shown to be theoretically impossible without inductive biases on the models and the data. As an alternative approach, recent methods rely on limited supervision to disentangle the factors of variation…

Deep phenotyping is an emerging conceptual paradigm and experimental approach that seeks to measure many aspects of phenotypes and link them to understand the underlying biology. Successful deep phenotyping has mostly been applied in…

Phenomics is an emerging branch of modern biology that uses high throughput phenotyping tools to capture multiple environmental and phenotypic traits, often at massive spatial and temporal scales. The resulting high dimensional data…

One of the central objectives of contemporary neuroimaging research is to create predictive models that can disentangle the connection between patterns of functional connectivity across the entire brain and various behavioral traits.…

We axiomatize the molecular-biology reasoning style, show compliance of the standard reference: Ptashne, A Genetic Switch, and present proof-theory-induced technologies to help infer phenotypes and to predict life cycles from genotypes. The…

The capability of cells to form surface extensions to non-locally probe the surrounding environment plays a key role in cell migration. The existing mathematical models for migration of cell populations driven by this non-local form of…

Previously we have developed the concept of the dynamic pathosome, which suggests that individual patterns of phenotype development, i.e., phenotypic trajectories, contain more information than is commonly appreciated and that a phenotype's…

We study the evolution of artificial learning systems by means of selection. Genetic programming is used to generate a sequence of populations of algorithms which can be used by neural networks for supervised learning of a rule that…

Existential rules are an expressive knowledge representation language mainly developed to query data. In the literature, they are often supposed to be in some normal form that simplifies technical developments. For instance, a common…

Phenotypically structured equations arise in population biology to describe the interaction of species with their environment that brings the nutrients. This interaction usually leads to selection of the fittest individuals. Models used in…

Presence/absence data and presence-only data are the two customary sources for learning about species distributions over a region. We illuminate the fundamental modeling differences between the two types of data. Most simply, locations are…

Predicting phenotypes with complex genetic bases based on a small, interpretable set of variant features remains a challenging task. Conventionally, data-driven approaches are utilized for this task, yet the high dimensional nature of…

How does the brain know what is out there and what is not? Living organisms cannot rely solely on sensory signals for perception because they are noisy and ambiguous. To transform sensory signals into stable percepts, the brain uses its…

In this article I deal with the notion of observation in the most fundamental sense and its representation by means of formal languages serving as expressional tools of formal-axiomatical theories. In doing so, I have taken this notion in…

Disentanglement is a highly desirable property of representation due to its similarity with human's understanding and reasoning. This improves interpretability, enables the performance of down-stream tasks, and enables controllable…

Clinical end-point traits are often characterized by quantitative or qualitative precursors and it has been argued that it may be statistically a more powerful strategy to analyze these precursor traits to decipher the genetic architecture…

Discrete temporal transitions occur in a variety of domains, but this work is mainly motivated by applications in molecular biology: explaining and analyzing observed transcriptome and proteome time series by literature and database…

In a recent Letter, Yang et al. [Phys. Rev. Lett. 109, 258701 (2012)] introduced the concept of observability transitions: the percolation-like emergence of a macroscopic observable component in graphs in which the state of a fraction of…

Molecular phenotypes are important links between genomic information and organismic functions, fitness, and evolution. Complex phenotypes, which are also called quantitative traits, often depend on multiple genomic loci. Their evolution…