Related papers: RACS: Rapid Analysis of ChIP-Seq data for contig b…
Chromosome analysis and identification from metaphase images is a critical part of cytogenetics based medical diagnosis. It is mainly used for identifying constitutional, prenatal and acquired abnormalities in the diagnosis of genetic…
Recent advances in deep learning and computer vision have reduced many barriers to automated medical image analysis, allowing algorithms to process label-free images and improve performance. However, existing techniques have extreme…
The adaptive immune system recognizes antigens via an immense array of antigen-binding antibodies and T-cell receptors, the immune repertoire. The interrogation of immune repertoires is of high relevance for understanding the adaptive…
The rapid and accurate detection of biochemical compositions in fish is a crucial real-world task that facilitates optimal utilization and extraction of high-value products in the seafood industry. Raman spectroscopy provides a promising…
We describe the first season COMAP analysis pipeline that converts raw detector readouts to calibrated sky maps. This pipeline implements four main steps: gain calibration, filtering, data selection, and map-making. Absolute gain…
We now need more than ever to make genome analysis more intelligent. We need to read, analyze, and interpret our genomes not only quickly, but also accurately and efficiently enough to scale the analysis to population level. There currently…
Motivation: Open-source bacterial genome assembly remains inaccessible to many biologists due to its complexity. Few software solutions exist that are capable of automating all steps in the process of de novo genome assembly from Illumina…
Identifying cell clusters is a critical step for single-cell transcriptomics study. Despite the numerous clustering tools developed recently, the rapid growth of scRNA-seq volumes prompts for a more (computationally) efficient clustering…
The detection of genomic structural variation (SV) has advanced tremendously in recent years due to progress in high-throughput sequencing technologies. Novel sequence insertions, insertions without similarity to a human reference genome,…
Reliability Assessment Commitment (RAC) Optimization is increasingly important in grid operations due to larger shares of renewable generations in the generation mix and increased prediction errors. Independent System Operators (ISOs) also…
Referring Expression Comprehension (REC) is an emerging research spot in computer vision, which refers to detecting the target region in an image given an text description. Most existing REC methods follow a multi-stage pipeline, which are…
The Connectivity Map (CMap) is a large publicly available database of cellular transcriptomic responses to chemical and genetic perturbations built using a standardized acquisition protocol known as the L1000 technique. Databases such as…
As sequencing technologies become more affordable and genomic databases expand continuously, the reuse of publicly available sequencing data emerges as a powerful strategy for studying microbial pathogens. Indeed, raw sequencing reads…
Motivation: Histone modification constitutes a basic mechanism for the genetic regulation of gene expression. In early 2000s, a powerful technique has emerged that couples chromatin immunoprecipitation with high-throughput sequencing…
Next Generation Sequencing (NGS), a recently evolved technology, have served a lot in the research and development sector of our society. This novel approach is a newbie and has critical advantages over the traditional Capillary…
Integrating multiple (sub-)systems is essential to create advanced Information Systems (ISs). Difficulties mainly arise when integrating dynamic environments across the IS lifecycle. A traditional approach is a registry that provides the…
Natural Language Processing and Generation systems have recently shown the potential to complement and streamline the costly and time-consuming job of professional fact-checkers. In this work, we lift several constraints of current…
High throughput technologies have become the practice of choice for comparative studies in biomedical applications. Limited number of sample points due to sequencing cost or access to organisms of interest necessitates the development of…
Retrieval-augmented generation (RAG) improves factual grounding by conditioning large language models on retrieved evidence, but it also opens a data-layer attack surface: poisoned corpus entries can steer outputs without changing model…
Legal professionals need to write analyses that rely on citations to relevant precedents, i.e., previous case decisions. Intelligent systems assisting legal professionals in writing such documents provide great benefits but are challenging…