相关论文: HiTRACE: High-throughput robust analysis for capil…
Hepatocellular carcinoma (HCC) is a common type of liver cancer whose early-stage diagnosis is a common challenge, mainly due to the manual assessment of hematoxylin and eosin-stained whole slide images, which is a time-consuming process…
Machine- and deep-learning approaches for biological sequences depend critically on transforming raw DNA, RNA, and protein FASTA files into informative numerical representations. However, this process is often fragmented across multiple…
Histopathologic Images (HI) are the gold standard for evaluation of some tumors. However, the analysis of such images is challenging even for experienced pathologists, resulting in problems of inter and intra observer. Besides that, the…
ScaleLat (Scale Lattice) is a computer program written in C for performing the atomic structure analysis of multi-phase system or high entropy alloys (HEAs). The program implements an atomic cluster extraction algorithm to obtain all…
Gene expression can be used to subtype breast cancer with improved prediction of risk of recurrence and treatment responsiveness over that obtained using routine immunohistochemistry (IHC). However, in the clinic, molecular profiling is…
Motivation: Histone modifications are among the most important factors that control gene regulation. Computational methods that predict gene expression from histone modification signals are highly desirable for understanding their…
Across many areas, from neural tracking to database entity resolution, manual assessment of clusters by human experts presents a bottleneck in rapid development of scalable and specialized clustering methods. To solve this problem we…
High-Performance Computing (HPC) platforms enable scientific software to achieve breakthroughs in many research fields such as physics, biology, and chemistry, by employing Research Software Engineering (RSE) techniques. These include 1)…
The mRNA optimization is critical for therapeutic and biotechnological applications, since sequence features directly govern protein expression levels and efficacy. However, current methods face significant challenges in simultaneously…
Numerous deep learning-based solutions have been proposed for histopathological image analysis over the past years. While they usually demonstrate exceptionally high accuracy, one key question is whether their precision might be affected by…
Background and Objective: Differentiating wide complex tachycardia (WCT) is clinically critical yet challenging due to morphological similarities in electrocardiogram (ECG) signals between life-threatening ventricular tachycardia (VT) and…
Exploratory data analysis tools must respond quickly to a user's questions, so that the answer to one question (e.g. a visualized histogram or fit) can influence the next. In some SQL-based query systems used in industry, even very large…
Convolutional neural networks (CNNs) require high throughput hardware accelerators for real time applications owing to their huge computational cost. Most traditional CNN accelerators rely on single core, linear processing elements (PEs) in…
Developing clinically useful cell-level analysis tools in digital pathology remains challenging due to limitations in dataset granularity, inconsistent annotations, high computational demands, and difficulties integrating new technologies…
Modeling plasma accelerators is a computationally challenging task and the quasi-static particle-in-cell algorithm is a method of choice in a wide range of situations. In this work, we present the first performance-portable, quasi-static,…
ALICE (A Large Heavy Ion Experiment) is one of the four large scale experiments at the Large Hadron Collider (LHC) at CERN. The High Level Trigger (HLT) is an online computing farm, which reconstructs events recorded by the ALICE detector…
Electron microscopy (EM) allows the identification of intracellular organelles such as mitochondria, providing insights for clinical and scientific studies. In recent years, a number of novel deep learning architectures have been published…
The three-dimensional structure of proteins plays a crucial role in determining their function. Protein structure prediction methods, like AlphaFold, offer rapid access to a protein structure. However, large protein complexes cannot be…
The determination of the neutrino mass is an open issue in modern particle physics and astrophysics. The direct mass measurement is the only theory-unrelated experimental tool capable to probe such quantity. The HOLMES experiment aims to…
In today's rapidly evolving field of electronic design automation (EDA), the complexity of hardware designs is increasing, necessitating more sophisticated automation solutions. High-level synthesis (HLS), as a pivotal solution, automates…