A Protocol Generator Tool for Automatic In-Vitro HPV Robotic Analysis

Human Papilloma Virus (HPV) could develop precancerous lesions and invasive cancer, as it is the main cause of nearly all cases of cervical cancer. There are many strains of HPV and current vaccines can only protect against some of them. This makes the detection and genotyping of HPV a research area of utmost importance. Several biomedical systems can detect HPV in DNA samples; however, most of them do not have a procedure as fast, automatic or precise as it is actually needed in this field. This manuscript presents a novel XML-based hierarchical protocol architecture for biomedical robots to describe each protocol step and execute it sequentially, along with a robust and automatic robotic system for HPV DNA detection capable of processing from 1 to 24 samples simultaneously in a fast (from 45 to 162 min), efficient (100% markers effectiveness) and precise (able to detect 36 different HPV genotypes) way. It includes an efficient artificial vision process as the last step of the diagnostic.FIDETIA P055-12/E03Ministerio de Economía y Competitivida TEC2016-77785-

Towards automated visual flexible endoscope navigation

Background:\ud The design of flexible endoscopes has not changed significantly in the past 50 years. A trend is observed towards a wider application of flexible endoscopes with an increasing role in complex intraluminal therapeutic procedures. The nonintuitive and nonergonomical steering mechanism now forms a barrier in the extension of flexible endoscope applications. Automating the navigation of endoscopes could be a solution for this problem. This paper summarizes the current state of the art in image-based navigation algorithms. The objectives are to find the most promising navigation system(s) to date and to indicate fields for further research.\ud Methods:\ud A systematic literature search was performed using three general search terms in two medical–technological literature databases. Papers were included according to the inclusion criteria. A total of 135 papers were analyzed. Ultimately, 26 were included.\ud Results:\ud Navigation often is based on visual information, which means steering the endoscope using the images that the endoscope produces. Two main techniques are described: lumen centralization and visual odometry. Although the research results are promising, no successful, commercially available automated flexible endoscopy system exists to date.\ud Conclusions:\ud Automated systems that employ conventional flexible endoscopes show the most promising prospects in terms of cost and applicability. To produce such a system, the research focus should lie on finding low-cost mechatronics and technologically robust steering algorithms. Additional functionality and increased efficiency can be obtained through software development. The first priority is to find real-time, robust steering algorithms. These algorithms need to handle bubbles, motion blur, and other image artifacts without disrupting the steering process

Fine-Grained Product Class Recognition for Assisted Shopping

Assistive solutions for a better shopping experience can improve the quality of life of people, in particular also of visually impaired shoppers. We present a system that visually recognizes the fine-grained product classes of items on a shopping list, in shelves images taken with a smartphone in a grocery store. Our system consists of three components: (a) We automatically recognize useful text on product packaging, e.g., product name and brand, and build a mapping of words to product classes based on the large-scale GroceryProducts dataset. When the user populates the shopping list, we automatically infer the product class of each entered word. (b) We perform fine-grained product class recognition when the user is facing a shelf. We discover discriminative patches on product packaging to differentiate between visually similar product classes and to increase the robustness against continuous changes in product design. (c) We continuously improve the recognition accuracy through active learning. Our experiments show the robustness of the proposed method against cross-domain challenges, and the scalability to an increasing number of products with minimal re-training.Comment: Accepted at ICCV Workshop on Assistive Computer Vision and Robotics (ICCV-ACVR) 201

Deep learning approach to Fourier ptychographic microscopy

Convolutional neural networks (CNNs) have gained tremendous success in solving complex inverse problems. The aim of this work is to develop a novel CNN framework to reconstruct video sequences of dynamic live cells captured using a computational microscopy technique, Fourier ptychographic microscopy (FPM). The unique feature of the FPM is its capability to reconstruct images with both wide field-of-view (FOV) and high resolution, i.e. a large space-bandwidth-product (SBP), by taking a series of low resolution intensity images. For live cell imaging, a single FPM frame contains thousands of cell samples with different morphological features. Our idea is to fully exploit the statistical information provided by these large spatial ensembles so as to make predictions in a sequential measurement, without using any additional temporal dataset. Specifically, we show that it is possible to reconstruct high-SBP dynamic cell videos by a CNN trained only on the first FPM dataset captured at the beginning of a time-series experiment. Our CNN approach reconstructs a 12800×10800 pixel phase image using only ∼25 seconds, a 50× speedup compared to the model-based FPM algorithm. In addition, the CNN further reduces the required number of images in each time frame by ∼ 6×. Overall, this significantly improves the imaging throughput by reducing both the acquisition and computational times. The proposed CNN is based on the conditional generative adversarial network (cGAN) framework. We further propose a mixed loss function that combines the standard image domain loss and a weighted Fourier domain loss, which leads to improved reconstruction of the high frequency information. Additionally, we also exploit transfer learning so that our pre-trained CNN can be further optimized to image other cell types. Our technique demonstrates a promising deep learning approach to continuously monitor large live-cell populations over an extended time and gather useful spatial and temporal information with sub-cellular resolution.We would like to thank NVIDIA Corporation for supporting us with the GeForce Titan Xp through the GPU Grant Program. (NVIDIA Corporation; GeForce Titan Xp through the GPU Grant Program)First author draf

Deep learning approach to Fourier ptychographic microscopy

Convolutional neural networks (CNNs) have gained tremendous success in solving complex inverse problems. The aim of this work is to develop a novel CNN framework to reconstruct video sequence of dynamic live cells captured using a computational microscopy technique, Fourier ptychographic microscopy (FPM). The unique feature of the FPM is its capability to reconstruct images with both wide field-of-view (FOV) and high resolution, i.e. a large space-bandwidth-product (SBP), by taking a series of low resolution intensity images. For live cell imaging, a single FPM frame contains thousands of cell samples with different morphological features. Our idea is to fully exploit the statistical information provided by this large spatial ensemble so as to make predictions in a sequential measurement, without using any additional temporal dataset. Specifically, we show that it is possible to reconstruct high-SBP dynamic cell videos by a CNN trained only on the first FPM dataset captured at the beginning of a time-series experiment. Our CNN approach reconstructs a 12800X10800 pixels phase image using only ~25 seconds, a 50X speedup compared to the model-based FPM algorithm. In addition, the CNN further reduces the required number of images in each time frame by ~6X. Overall, this significantly improves the imaging throughput by reducing both the acquisition and computational times. The proposed CNN is based on the conditional generative adversarial network (cGAN) framework. Additionally, we also exploit transfer learning so that our pre-trained CNN can be further optimized to image other cell types. Our technique demonstrates a promising deep learning approach to continuously monitor large live-cell populations over an extended time and gather useful spatial and temporal information with sub-cellular resolution

Superb and Marketable Meat from Efficient and Robust Animals

With the aim to increase the production and market share of organic meat (pork, poultry and young beef), an integrated research and de-velopment effort will take place along the food chain (primary production, product development and market-ing). The hypothesis is that this product segment is presently underdeveloped due to incompatibility between production costs/consumer prices and the experienced quality of the products, and that this incompatibility primarily should be overcome by adding quality in a broad sense to the organic meat products. Among the immaterial qualities are that the animals are healthy as well as robust, are free-ranged, and is more integrated in the land use (relying to a large extent on on-farm resources) than actually present. In the project these qualities are investigated, while at the same time focusing on appearance, new cuts, taste and technological quality of the final product, including consumer perceptions and preferences. Specifically we will investigate how much foraging can contribute to the nutritional needs for pigs and poultry and its interaction with genotype, age at slaughter and product quality, how the quality of the sward and genotype affect product quality in young intact bulls, how the free range impact upon animal robustness, how marketing strategies can be formed complying with consumer perceptions, and how such production strategies support a profitable high-value production along with environmental benefits. This is expected to stimulate to more diversified meat products, a higher total organic meat production and consequently a higher organic share of total meat con-sumption