Related papers: Trajectory Inference for Single Cell Omics
A large amount of data resulting from trajectories of moving objects activities are collected thanks to localization based services and some associated automated processes. Trajectories data can be used either for transactional and analysis…
While the major white matter tracts are of great interest to numerous studies in neuroscience and medicine, their manual dissection in larger cohorts from diffusion MRI tractograms is time-consuming, requires expert knowledge and is hard to…
Matching cells over time has long been the most difficult step in cell tracking. In this paper, we approach this problem by recasting it as a classification problem. We construct a feature set for each cell, and compute a feature difference…
Developments in transcriptomics techniques have caused a large demand in tailored computational methods for modelling gene expression dynamics from experimental data. Recently, so-called single-cell experiments have revolutionised genetic…
In single-cell research, tracing and analyzing high-throughput single-cell differentiation trajectories is crucial for understanding biological processes. Key to this is the robust modeling of hierarchical structures that govern cellular…
Cells can be considered as systems that utilize changes in thermodynamic entropy as information. Therefore, they serve as useful models for investigating the relationships between entropy production and information transmission, i.e.,…
Data attribution, tracing a model's prediction back to specific training data, is an important tool for interpreting sophisticated AI models. The widely used TRAK algorithm addresses this challenge by first approximating the underlying…
Multimodal single-cell technologies enable the simultaneous collection of diverse data types from individual cells, enhancing our understanding of cellular states. However, the integration of these datatypes and modeling the…
A novel theory for cell differentiation is proposed, based on simulations with interacting artificial cells which have metabolic networks within, and divide into two when the final product is accumulated. Results of simulations with coupled…
This paper proposes a graph-based approach to representing spatio-temporal trajectory data that allows an effective visualization and characterization of city-wide traffic dynamics. With the advance of sensor, mobile, and Internet of Things…
Signaling pathways are responsible for the regulation of cell processes, such as monitoring the external environment, transmitting information across membranes, and making cell fate decisions. Given the increasing amount of biological data…
We review studies on tissue transplantation experiments for various species: one piece of the donor tissue is excised and transplanted into a slit in the host tissue, then observe the behavior of this grafted tissue. Although we have known…
The concept of personalised medicine in cancer therapy is becoming increasingly important. There already exist drugs administered specifically for patients with tumours presenting well-defined mutations. However, the field is still in its…
Ideally, robots should move in ways that maximize the knowledge gained about the state of both their internal system and the external operating environment. Trajectory design is a challenging problem that has been investigated from a…
A `trajectory' refers to a trace generated by a moving object in geographical spaces, usually represented by of a series of chronologically ordered points, where each point consists of a geo-spatial coordinate set and a timestamp. Rapid…
Doctors use statistics to advance medical knowledge; we use a medical analogy to introduce statistical inference "from scratch" and to highlight an improvement. Your doctor, perhaps implicitly, predicts the effectiveness of a treatment for…
To better understand the structure and function of complex systems, researchers often represent direct interactions between components in complex systems with networks, assuming that indirect influence between distant components can be…
We consider the problem of classifying trajectories generated by dynamical systems. We investigate a model-based approach, the common approach in control engineering, and a data-driven approach based on Support Vector Machines, a popular…
Order is one of the main instruments to measure the relationship between objects in (empirical) data. However, compared to methods that use numerical properties of objects, the amount of ordinal methods developed is rather small. One reason…
A new method for multinomial inference is proposed by representing the cell probabilities as unordered segments on the unit interval and following Dempster-Shafer (DS) theory. The resulting DS posterior is then strengthened to improve…