Related papers: MassChroQ: A versatile tool for mass spectrometry …
Nuclear magnetic resonance spectroscopy (MRS) allows for the determination of atomic structures and concentrations of different chemicals in a biochemical sample of interest. MRS is used in vivo clinically to aid in the diagnosis of several…
Tandem mass spectrometry provides a high-throughput framework for identifying and quantifying proteins in complex biological samples. In computational proteomics, predicting peptide MS/MS spectra is a critical task, enabling downstream…
Identifying molecules from mass spectrometry (MS) data remains a fundamental challenge due to the semantic gap between physical spectral peaks and underlying chemical structures. Existing deep learning approaches often treat spectral…
Mixed-precision quantization (MPQ) is crucial for deploying deep neural networks on resource-constrained devices, but finding the optimal bit-width for each layer represents a complex combinatorial optimization problem. Current…
The ability to characterize proteins at sequence-level resolution is vital to biological research. Currently, the leading method for protein sequencing is by liquid chromatography mass spectrometry (LC-MS) whereas proteins are reduced to…
Quantization is a key method for deploying deep neural networks on edge devices with limited memory and computation resources. Recent improvements in Post-Training Quantization (PTQ) methods were achieved by an additional local optimization…
The implementation of deep learning based computer aided diagnosis systems for the classification of mammogram images can help in improving the accuracy, reliability, and cost of diagnosing patients. However, training a deep learning model…
Multi-label image classification datasets are often partially labeled where many labels are missing, posing a significant challenge to training accurate deep classifiers. However, the powerful Mixup sample-mixing data augmentation cannot be…
$\textbf{Objective:}$ High-throughput phenotyping will accelerate the use of electronic health records (EHRs) for translational research. A critical roadblock is the extensive medical supervision required for phenotyping algorithm (PA)…
Imaging mass spectrometry (IMS) is a powerful tool for untargeted, highly multiplexed molecular mapping of tissue in biomedical research. IMS offers a means of mapping the spatial distributions of molecular species in biological tissue with…
Large Language Models (LLMs) have demonstrated remarkable success across a wide range of language tasks, but their deployment on edge devices remains challenging due to the substantial memory requirements imposed by their large parameter…
Multiple technologies that measure expression levels of protein mixtures in the human body offer a potential for detection and understanding the disease. The recent increase of these technologies prompts researchers to evaluate the…
We present CodeReef - an open platform to share all the components necessary to enable cross-platform MLOps (MLSysOps), i.e. automating the deployment of ML models across diverse systems in the most efficient way. We also introduce the…
In this projecting work we propose a mass spectrometric patch-clamp equipment with the capillary performing both a local potential registration at the cell membrane and the analyte suction simultaneously. This paper provides a current…
Motivation: Quality control of genomic data is an essential but complicated multi-step procedure, often requiring separate installation and expert familiarity with a combination of disparate bioinformatics tools. Results: To provide an…
Scalable and effective calibration is a fundamental requirement for Low Cost Air Quality Monitoring Systems and will enable accurate and pervasive monitoring in cities. Suffering from environmental interferences and fabrication variance,…
Growth hormone (GH) constitutes a set of closely related protein isoforms. In clinical practice, the disagreement of test results between commercially available ligand-binding assays is still an ongoing issue, and incomplete knowledge about…
pyspeckit is a toolkit and library for spectroscopic analysis in Python. We describe the pyspeckit package and highlight some of its capabilities, such as interactively fitting a model to data, akin to the historically widely-used splot…
Crosslinking Mass Spectrometry (MS) can uncover protein-protein interactions and provide structural information on proteins in their native cellular environments. Despite its promise, the field remains hampered by inconsistent data formats,…
Background: The development, optimization and validation of protein modeling methods require efficient tools for structural comparison. Frequently, a large number of models need to be compared with the target native structure. The main…