Related papers: The Human Cell Atlas White Paper
As research and industry moves towards large-scale models capable of numerous downstream tasks, the complexity of understanding multi-modal datasets that give nuance to models rapidly increases. A clear and thorough understanding of a…
Cellular automata (CAs) are fully-discrete dynamical models that have received much attention due to the fact that their relatively simple setup can nonetheless express highly complex phenomena. Despite the model's theoretical maturity and…
Reproducibility in research remains hindered by complex systems involving data, models, tools, and algorithms. Studies highlight a reproducibility crisis due to a lack of standardized reporting, code and data sharing, and rigorous…
As one of the emerging algorithms in the field of Artificial Immune Systems (AIS), the Dendritic Cell Algorithm (DCA) has been successfully applied to a number of challenging real-world problems. However, one criticism is the lack of a…
The microscopic examination of white blood cells (WBCs) plays a fundamental role in pathology and is essential for diagnosing blood disorders such as leukemia and anemia. To support further research on WBC images, multiple datasets have…
Cellular automata (CA) captivate researchers due to teh emergent, complex individualized behavior that simple global rules of interaction enact. Recent advances in the field have combined CA with convolutional neural networks to achieve…
At the heart of experimental high energy physics (HEP) is the development of facilities and instrumentation that provide sensitivity to new phenomena. Our understanding of nature at its most fundamental level is advanced through the…
Stem cell heterogeneity is essential for the homeostasis in tissue development. This paper established a general formulation for understanding the dynamics of stem cell regeneration with cell heterogeneity and random transitions of…
Current efforts in the biomedical sciences and related interdisciplinary fields are focused on gaining a molecular understanding of health and disease, which is a problem of daunting complexity that spans many orders of magnitude in…
Biomedical research centers can empower basic discovery and novel therapeutic strategies by leveraging their large-scale datasets from experiments and patients. This data, together with new technologies to create and analyze it, has ushered…
A Whole Slide Image (WSI) is a high-resolution digital image created by scanning an entire glass slide containing a biological specimen, such as tissue sections or cell samples, at multiple magnifications. These images are digitally…
The complexity of human biology and its intricate systems holds immense potential for advancing human health, disease treatment, and scientific discovery. However, traditional manual methods for studying biological interactions are often…
ATLAS, a general-purpose experiment at the Large Hadron Collider (LHC), makes use of a large internationally-distributed computing infrastructure, including over $10^6$ TB of managed data on disk and tape and almost one million…
The human visual system has a hierarchical structure consisting of layers of processing, such as the retina, V1, V2, etc. Understanding the functional roles of these visual processing layers would help to integrate the psychophysiological…
The combination of data analysis methods, increasing computing capacity, and improved sensors enable quantitative granular, multi-scale, cell-based analyses. We describe the rich set of application challenges related to tissue…
An adult human body is made up of some 30 to 40 trillion cells, all of which stem from a single fertilized egg cell. The process by which the right cells appear to arrive in their right numbers at the right time at the right place --…
Understanding design decisions in relation to the future occupants of a building is a crucial part of good design. However, limitations in tools and expertise hinder meaningful human-centric decisions during the design process. In this…
There is an abundance of complex dynamic systems that are critical to our daily lives and our society but that are hardly understood, and even with today's possibilities to sense and collect large amounts of experimental data, they are so…
Many fields, such as neuroscience, are experiencing the vast proliferation of cellular data, underscoring the need for organizing and interpreting large datasets. A popular approach partitions data into manageable subsets via hierarchical…
Many cellular processes involve information processing and decision making. We can probe these processes at increasing molecular detail. The analysis of heterogeneous data remains a challenge that requires new ways of thinking about cells…