相关论文: BACOM2: a Java tool for detecting normal cell cont…
Ensuring consistency between research papers and their corresponding software code implementations is a fundamental prerequisite for guaranteeing the reproducibility of scientific findings and the reliability of software systems. However,…
Generally, human epidermal growth factor 2 (HER2) breast cancer is more aggressive than other kinds of breast cancer. Currently, HER2 breast cancer is detected using expensive medical tests are most expensive. Therefore, the aim of this…
Diagnostic imaging has gained prominence as potential biomarkers for early detection and diagnosis in a diverse array of disorders including cancer. However, existing methods routinely face challenges arising from various factors such as…
Data contamination presents a critical barrier preventing widespread industrial adoption of advanced software engineering techniques that leverage code language models (CLMs). This phenomenon occurs when evaluation data inadvertently…
Skin cancer is a prevalent and potentially fatal disease that requires accurate and efficient diagnosis and treatment. Although manual tracing is the current standard in clinics, automated tools are desired to reduce human labor and improve…
The task of clustering a set of objects based on multiple sources of data arises in several modern applications. We propose an integrative statistical model that permits a separate clustering of the objects for each data source. These…
Cancer is a complex disease driven by genomic alterations, and tumor sequencing is becoming a mainstay of clinical care for cancer patients. The emergence of multi-institution sequencing data presents a powerful resource for learning…
Tumor region segmentation is an essential task for the quantitative analysis of digital pathology. Recently presented deep neural networks have shown state-of-the-art performance in various image-segmentation tasks. However, because of the…
Identifying potential drug targets using metabolic modeling requires integrating multiple modeling methods and heterogenous biological datasets, which can be challenging without sophisticated tools. We developed COMO, a user-friendly…
The evaluation of human epidermal growth factor receptor 2 (HER2) expression is essential to formulate a precise treatment for breast cancer. The routine evaluation of HER2 is conducted with immunohistochemical techniques (IHC), which is…
Melanoma detection is vital for early diagnosis and effective treatment. While deep learning models on dermoscopic images have shown promise, they require specialized equipment, limiting their use in broader clinical settings. This study…
Ensuring the de-identification of medical imaging data is a critical step in enabling safe data sharing. This paper presents a hybrid de-identification framework designed to process Digital Imaging and Communications in Medicine (DICOM)…
Accurate disease diagnosis depends on effective collaboration between medical specialties, yet departments often use distinct data systems and proprietary formats. This heterogeneity hinders joint analysis and integration of complementary…
Champuru is a web software tool that helps determine the two sequences present in mixed Sanger chromatograms obtained by sequencing simultaneously two DNA templates of unequal lengths. A previous version (Champuru 1.0) was published as a…
During cancer progression, malignant cells accumulate somatic mutations that can lead to genetic aberrations. In particular, evolutionary events akin to segmental duplications or deletions can alter the copy-number profile (CNP) of a set of…
Rapid technological advances have allowed for molecular profiling across multiple omics domains from a single sample for clinical decision making in many diseases, especially cancer. As tumor development and progression are dynamic…
Motivation: Epigenetic heterogeneity within a tumour can play an important role in tumour evolution and the emergence of resistance to treatment. It is increasingly recognised that the study of DNA methylation (DNAm) patterns along the…
The detection of somatic single nucleotide variants is a crucial component to the characterization of the cancer genome. Mutation calling algorithms thus far have focused on comparing the normal and tumor genomes from the same individual.…
There is an ongoing need for scalable tools to aid researchers in both retrospective and prospective standardization of discrete entity types -- such as disease names, cell types or chemicals -- that are used in metadata associated with…
Single-cell RNA sequencing (scRNA-seq) enables dissecting cellular heterogeneity in tissues, resulting in numerous biological discoveries. Various computational methods have been devised to delineate cell types by clustering scRNA-seq data…