A5056419559- Advanced Electron Microscopy Techniques and Applications
- Electron and X-Ray Spectroscopy Techniques
- Video Coding and Compression Technologies
- Advanced Vision and Imaging
- Advanced Image Processing Techniques
- Advanced X-ray Imaging Techniques
- Image and Video Quality Assessment
- Virtual Reality Applications and Impacts
- Advanced Fluorescence Microscopy Techniques
- Augmented Reality Applications
- Force Microscopy Techniques and Applications
- Enzyme Structure and Function
- Image Enhancement Techniques
- AI in cancer detection
- Visual Attention and Saliency Detection
- Magnetic Properties and Applications
- Machine Learning in Materials Science
- RNA and protein synthesis mechanisms
- Brain Tumor Detection and Classification
- Advanced Data Compression Techniques
- Microstructure and mechanical properties
- Cell Image Analysis Techniques
- Educational Games and Gamification
- Medical Image Segmentation Techniques
- Interactive and Immersive Displays
Nokia (Spain)
2024-2025
Nokia (Finland)
2024
Centro Nacional de Biotecnología
2018-2023
Universidad Autónoma de Madrid
2021
Consejo Superior de Investigaciones Científicas
2020-2021
Universidad Carlos III de Madrid
2009-2017
Universidad Politécnica de Madrid
2010
The new developments in Cryo-EM Single Particle Analysis are helping us to understand how the macromolecular structure and function meet drive biological processes. By capturing many states at particle level, it is possible address macromolecules explore different conformations, information that classically extracted through 3D classification. However, limitations of classical approaches prevent from fully understanding complete conformational landscape due reduced number discrete accurately...
Cryo-electron microscopy (cryoEM) has become a well established technique to elucidate the 3D structures of biological macromolecules. Projection images from thousands macromolecules that are assumed be structurally identical combined into single map representing Coulomb potential macromolecule under study. This article discusses possible caveats along image-processing path and how avoid them obtain reliable structure. Some these problems very known in community. These may referred as...
The presence of preferred orientations in single particle analysis (SPA) by cryo-Electron Microscopy (cryoEM) is currently one the hurdles preventing many structural analyses from yielding high-resolution structures. Although existence mostly related to grid preparation, this technical note, we show that some image processing algorithms used for angular assignment and three-dimensional (3D) reconstruction are more robust than others these detrimental conditions. We exemplify argument with...
The emerging high-efficiency video coding standard achieves higher efficiency than previous standards by virtue of a set new tools such as the quadtree structure. In this novel structure, pixels are organized into units (CU), prediction units, and transform sizes which can be optimized at every level following tree configuration. These allow highly flexible data representation; however, they incur very high computational complexity. paper, we propose an effective complexity control (CC)...
Xmipp is an open-source software package consisting of multiple programs for processing data originating from electron microscopy and tomography, designed managed by the Biocomputing Unit Spanish National Center Biotechnology, although with contributions many other developers over world. During its 25 years existence, underwent changes updates. While there were publications related to new functionality added Xmipp, no single publication on as a since 2013. In this article, we give overview...
Advances in cryo-electron microscopy (cryo-EM) have made it possible to obtain structures of large biological macromolecules at near-atomic resolution. This "resolution revolution" has encouraged the use and development modeling tools able produce high-quality atomic models from cryo-EM density maps. Unfortunately, many practical problems appear when combining different packages same processing workflow, which make difficult these by non-experts and, therefore, reduce their utility. We...
Cryo Electron Microscopy (Cryo-EM) is currently one of the main tools to reveal structural information biological specimens at high resolution. Despite great development techniques involved solve structures with Cryo-EM in last years, reconstructed 3D maps can present lower resolution due errors committed while processing acquired by microscope. One problems comes from alignment step, which an error-prone part reconstruction workflow very low signal-to-noise ratio (SNR) common imaging. In...
Structural biology has evolved greatly due to the advances introduced in fields like electron microscopy. This image-capturing technique, combined with improved algorithms and current data processing software, allows recovery of different conformational states a macromolecule, opening new possibilities for study its flexibility dynamic events. However, ensemble analysis these conformations, particular their placement into common variable space which differences similarities can be easily...
The H.264/AVC video coding standard achieves a high efficiency compared to previous standards. However, the encoder complexity results in very computational cost due motion estimation and macroblock mode decisions. In this paper, we propose simple, content adaptive decision method suitable for variety of applications. Experimental show that proposed algorithm effectively reduces about 60% encoding time with negligible quality loss respect reference model it compares favorably two most...
Electron microscopy of macromolecular structures is an approach that in increasing demand the field structural biology. The automation image acquisition has greatly increased potential throughput electron microscopy. Here, focus on possibilities Scipion to implement flexible and robust image-processing workflows allow electron-microscope operator user monitor quality acquisition, assessing very simple measures or obtaining a first estimate initial volume, data resolution heterogeneity,...
The H.264/AVC standard achieves a high coding efficiency compared to previous standards. However, this gain is accomplished at great computational cost, with mode decision being one of the most demanding subsystems. In paper, two-level classification-based approach inter problem proposed. A first classifier detects SKIP/Direct modes, while second able decide whether use large (16 × 16, 16 8, and 8 16) or small (8 4, 4 4). suggested classifiers are binary linear, input features in have been...
The latest H.264/AVC video coding standard achieves high compression rates in exchange for computational complexity. Nowadays, however, many application scenarios require the encoder to meet some complexity constraints. This paper proposes a novel control method that relies on hypothesis testing can handle time-variant content and target complexities. Specifically, it is based binary decides, macroblock basis, whether use low- or high-complexity model. Gaussian statistics are assumed so...
Flicker is a common video-compression-related temporal artifact. It occurs when co-located regions of consecutive frames are not encoded in consistent manner, especially Intra periodically inserted at low and medium bit rates. In this paper we propose flicker reduction method which aims to make the luminance changes between pixels same area less noticeable. To end, low-pass filtering proposed that smooths these on block-by-block basis. The has some advantages compared another...
The motion estimation (ME) process used in the H.264/AVC reference software is based on minimizing a cost function that involves two terms (distortion and rate) are properly balanced through Lagrangian parameter, usually denoted as λmotion. In this paper we propose an algorithm to improve conventional way of estimating λmotion and, consequently, ME process. First, show turns out be significantly less accurate when ME-compromising events, which make perform poorly, happen. Second, with aim...
Cryo-electron microscopy has become one of the most important tools in biological research to reveal structural information macromolecules at near-atomic resolution. In single-particle analysis, vitrified sample is imaged by an electron beam and detectors end microscope column produce movies that sample. These contain thousands images identical particles random orientations. The data need go through image processing workflow with multiple steps obtain final 3D reconstructed volume. goal...
High Dynamic Range (HDR) video content is continuing to gain market relevance for both streaming and brodacasting services, providing with improved contrast colour depth. However, the predominance of 8-bit based codecs wide availability Standard (SDR) devices still poses challenges regarding effective deployment HDR content.
The H.264/AVC standard achieves a high coding efficiency compared to previous standards, but in exchange for very computational cost. This paper focuses on the mode decision subsystem, which is critical one from cost point of view. In particular, hierarchical early-termination-based approach inter problem proposed, such way that cascade early stops are considered, going most likely modes less ones. main novelty proposed algorithm relies use regionalized hypothesis testing methodology making...
Cryogenic Electron Microscopy (Cryo-EM) has been established as one of the key players in Structural Biology. It can reconstruct a 3D model sample at near-atomic resolution, which led to Method year award by Nature, and Nobel Prize 2017. With growing number facilities, faster microscopes, new imaging techniques, algorithms are needed process so-called movies data produced microscopes real-time, while preserving high resolution maximum additional information. In this article, we present...
This paper tackles the problem of automatic brain tumor classification from Magnetic Resonance Imaging (MRI) where, traditionally, general-purpose texture and shape features extracted Region Interest (tumor) have become usual parameterization problem. Two main contributions are made in this context. First, a novel set clinical-based that intend to model intuitions expert knowledge physicians is suggested. Second, system proposed able fuse multiple individual scores (based on particular MRI...
Flicker is a common video coding artifact that occurs especially at low and medium bit rates. In this paper we propose temporal filter-based method to reduce flicker. The proposed has been designed be compliant with conventional standards, i.e., generate bitstream decodable by any standard decoder implementation. aim of the make luminance changes between consecutive frames smoother on block-by-block basis. To end, selective low-pass filtering smooths these flicker-prone blocks. Furthermore,...