Early detection of cancers has been much explored due to its paramount importance in biomedical fields. Among different types of data used to answer this biological question, studies based on T cell receptors (TCRs) are under recent spotlight due to the growing appreciation of the roles of the host immunity system in tumor biology. However, the one-to-many correspondence between a patient and multiple TCR sequences hinders researchers from simply adopting classical statistical/machine learning methods. There were recent attempts to model this type of data in the context of multiple instance learning (MIL). Despite the novel application of MIL to cancer detection using TCR sequences and the demonstrated adequate performance in several tumor types, there is still room for improvement, especially for certain cancer types. Furthermore, explainable neural network models are not fully investigated for this application. In this article, we propose multiple instance neural networks based on sparse attention (MINN-SA) to enhance the performance in cancer detection and explainability. The sparse attention structure drops out uninformative instances in each bag, achieving both interpretability and better predictive performance in combination with the skip connection. Our experiments show that MINN-SA yields the highest area under the ROC curve (AUC) scores on average measured across 10 different types of cancers, compared to existing MIL approaches. Moreover, we observe from the estimated attentions that MINN-SA can identify the TCRs that are specific for tumor antigens in the same T cell repertoire.

Understanding human behavior is an important task and has applications in many domains such as targeted advertisement, health analytics, security, and entertainment, etc. For this purpose, designing a system for activity recognition (AR) is important. However, since every human can have different behaviors, understanding and analyzing common patterns become a challenging task. Since smartphones are easily available to every human being in the modern world, using them to track the human activities becomes possible. In this paper, we extracted different human activities using accelerometer, magnetometer, and gyroscope sensors of android smartphones by building an android mobile applications. Using different social media applications, such as Facebook, Instagram, Whatsapp, and Twitter, we extracted the raw sensor values along with the attributes of $29$ subjects along with their attributes (class labels) such as age, gender, and left/right/both hands application usage. We extract features from the raw signals and use them to perform classification using different machine learning (ML) algorithms. Using statistical analysis, we show the importance of different features towards the prediction of class labels. In the end, we use the trained ML model on our data to extract unknown features from a well known activity recognition data from UCI repository, which highlights the potential of privacy breach using ML models. This security analysis could help researchers in future to take appropriate steps to preserve the privacy of human subjects.

The automatic detection and localization of anatomical features in retinal imaging data are relevant for many aspects. In this work, we follow a data-centric approach to optimize classifier training for optic nerve head detection and localization in optical coherence tomography en face images of the retina. We examine the effect of domain knowledge driven spatial complexity reduction on the resulting optic nerve head segmentation and localization performance. We present a machine learning approach for segmenting optic nerve head in 2D en face projections of 3D widefield swept source optical coherence tomography scans that enables the automated assessment of large amounts of data. Evaluation on manually annotated 2D en face images of the retina demonstrates that training of a standard U-Net can yield improved optic nerve head segmentation and localization performance when the underlying pixel-level binary classification task is spatially relaxed through domain knowledge.

The Patent Act requires an "inventor" to be a natural person, the US Court of Appeals for the Federal Circuit said, rejecting computer scientist Stephen Thaler's bid for patents on two inventions he said his DABUS system created. Thaler said in an email Friday that DABUS, which stands for "Device for the Autonomous Bootstrapping of Unified Sentience," is "natural and sentient." His attorney Ryan Abbott of Brown Neri Smith & Khan said the decision "ignores the purpose of the Patent Act" and has "real negative social consequences." He said they plan to appeal. The US Patent and Trademark Office declined to comment on the decision.

Thaler had asked for patents on behalf of his AI system Court affirms ruling that patent'inventor' must be human being Court affirms ruling that patent'inventor' must be human being The Patent Act requires an "inventor" to be a natural person, the U.S. Court of Appeals for the Federal Circuit said, rejecting computer scientist Stephen Thaler's bid for patents on two inventions he said his DABUS system created. Thaler said in an email Friday that DABUS, which stands for "Device for the Autonomous Bootstrapping of Unified Sentience," is "natural and sentient." His attorney Ryan Abbott of Brown Neri Smith & Khan said the decision "ignores the purpose of the Patent Act" and has "real negative social consequences." He said they plan to appeal. The U.S. Patent and Trademark Office declined to comment on the decision.

For decades, scientists have been giddy and citizens have been fearful of the power of computers. In 1965 Herbert Simon, a Nobel laureate in economics and also a winner of the Turing Award (considered "The Nobel Prize of computing"), predicted that "machines will be capable, within 20 years, of doing any work a man can do." His misplaced faith in computers is hardly unique. Sixty-seven years later, we are still waiting for computers to become our slaves and masters. Businesses have spent hundreds of billions of dollars on AI moonshots that have crashed and burned. Watson" was supposed to revolutionize health care and "eradicate cancer."

Anatomic tracing data provides detailed information on brain circuitry essential for addressing some of the common errors in diffusion MRI tractography. However, automated detection of fiber bundles on tracing data is challenging due to sectioning distortions, presence of noise and artifacts and intensity/contrast variations. In this work, we propose a deep learning method with a self-supervised loss function that takes anatomy-based constraints into account for accurate segmentation of fiber bundles on the tracer sections from macaque brains. Also, given the limited availability of manual labels, we use a semi-supervised training technique for efficiently using unlabeled data to improve the performance, and location constraints for further reduction of false positives. Evaluation of our method on unseen sections from a different macaque yields promising results with a true positive rate of 0.90. The code for our method is available at https://github.com/v-sundaresan/

Human leukocyte antigen (HLA) is an important molecule family in the field of human immunity, which recognizes foreign threats and triggers immune responses by presenting peptides to T cells. In recent years, the synthesis of tumor vaccines to induce specific immune responses has become the forefront of cancer treatment. Computationally modeling the binding patterns between peptide and HLA can greatly accelerate the development of tumor vaccines. However, most of the prediction methods performance is very limited and they cannot fully take advantage of the analysis of existing biological knowledge as the basis of modeling. In this paper, we propose TripHLApan, a novel pan-specific prediction model, for HLA molecular peptide binding prediction. TripHLApan exhibits powerful prediction ability by integrating triple coding matrix, BiGRU + Attention models, and transfer learning strategy. The comprehensive evaluations demonstrate the effectiveness of TripHLApan in predicting HLA-I and HLA-II peptide binding in different test environments. The predictive power of HLA-I is further demonstrated in the latest data set. In addition, we show that TripHLApan has strong binding reconstitution ability in the samples of a melanoma patient. In conclusion, TripHLApan is a powerful tool for predicting the binding of HLA-I and HLA-II molecular peptides for the synthesis of tumor vaccines.

Recognizing objects in dense clutter accurately plays an important role to a wide variety of robotic manipulation tasks including grasping, packing, rearranging and many others. However, conventional visual recognition models usually miss objects because of the significant occlusion among instances and causes incorrect prediction due to the visual ambiguity with the high object crowdedness. In this paper, we propose an interactive exploration framework called Smart Explorer for recognizing all objects in dense clutters. Our Smart Explorer physically interacts with the clutter to maximize the recognition performance while minimize the number of motions, where the false positives and negatives can be alleviated effectively with the optimal accuracy-efficiency trade-offs. Specifically, we first collect the multi-view RGB-D images of the clutter and reconstruct the corresponding point cloud. By aggregating the instance segmentation of RGB images across views, we acquire the instance-wise point cloud partition of the clutter through which the existed classes and the number of objects for each class are predicted. The pushing actions for effective physical interaction are generated to sizably reduce the recognition uncertainty that consists of the instance segmentation entropy and multi-view object disagreement. Therefore, the optimal accuracy-efficiency trade-off of object recognition in dense clutter is achieved via iterative instance prediction and physical interaction. Extensive experiments demonstrate that our Smart Explorer acquires promising recognition accuracy with only a few actions, which also outperforms the random pushing by a large margin.

Fatal diseases, as Critical Health Episodes (CHEs), represent real dangers for patients hospitalized in Intensive Care Units. These episodes can lead to irreversible organ damage and death. Nevertheless, diagnosing them in time would greatly reduce their inconvenience. This study therefore focused on building a highly effective early warning system for CHEs such as Acute Hypotensive Episodes and Tachycardia Episodes. To facilitate the precocity of the prediction, a gap of one hour was considered between the observation periods (Observation Windows) and the periods during which a critical event can occur (Target Windows). The MIMIC II dataset was used to evaluate the performance of the proposed system. This system first includes extracting additional features using three different modes. Then, the feature selection process allowing the selection of the most relevant features was performed using the Mutual Information Gain feature importance. Finally, the high-performance predictive model LightGBM was used to perform episode classification. This approach called MIG-LightGBM was evaluated using five different metrics: Event Recall (ER), Reduced Precision (RP), average Anticipation Time (aveAT), average False Alarms (aveFA), and Event F1-score (EF1-score). A method is therefore considered highly efficient for the early prediction of CHEs if it exhibits not only a large aveAT but also a large EF1-score and a low aveFA. Compared to systems using Extreme Gradient Boosting, Support Vector Classification or Naive Bayes as a predictive model, the proposed system was found to be highly dominant. It also confirmed its superiority over the Layered Learning approach.