scholarly journals Supervised learning for the detection of negation and of its scope in French and Brazilian Portuguese biomedical corpora

2020 ◽  
pp. 1-21 ◽  
Author(s):  
Clément Dalloux ◽  
Vincent Claveau ◽  
Natalia Grabar ◽  
Lucas Emanuel Silva Oliveira ◽  
Claudia Maria Cabral Moro ◽  
...  
Keyword(s):  
Machine Learning ◽  
Information Extraction ◽  
State Of The Art ◽  
Automatic Detection ◽  
Brazilian Portuguese ◽  
Supervised Machine Learning ◽  
Biomedical Domain ◽  
Learning Approaches ◽  
Cross Domain ◽  
Automatic Methods

Abstract Automatic detection of negated content is often a prerequisite in information extraction systems in various domains. In the biomedical domain especially, this task is important because negation plays an important role. In this work, two main contributions are proposed. First, we work with languages which have been poorly addressed up to now: Brazilian Portuguese and French. Thus, we developed new corpora for these two languages which have been manually annotated for marking up the negation cues and their scope. Second, we propose automatic methods based on supervised machine learning approaches for the automatic detection of negation marks and of their scopes. The methods show to be robust in both languages (Brazilian Portuguese and French) and in cross-domain (general and biomedical languages) contexts. The approach is also validated on English data from the state of the art: it yields very good results and outperforms other existing approaches. Besides, the application is accessible and usable online. We assume that, through these issues (new annotated corpora, application accessible online, and cross-domain robustness), the reproducibility of the results and the robustness of the NLP applications will be augmented.

Mol2vec: Unsupervised Machine Learning Approach with Chemical Intuition

2017 ◽  
Author(s):  
Sabrina Jaeger ◽  
Simone Fulle ◽  
Samo Turk
Keyword(s):  
Machine Learning ◽  
Language Processing ◽  
Supervised Machine Learning ◽  
Learning Approach ◽  
Learning Approaches ◽  
Unsupervised Machine Learning ◽  
Feature Representations ◽  
Machine Learning Approach ◽  
The Individual ◽  
Vector Representations

Inspired by natural language processing techniques we here introduce Mol2vec which is an unsupervised machine learning approach to learn vector representations of molecular substructures. Similarly, to the Word2vec models where vectors of closely related words are in close proximity in the vector space, Mol2vec learns vector representations of molecular substructures that are pointing in similar directions for chemically related substructures. Compounds can finally be encoded as vectors by summing up vectors of the individual substructures and, for instance, feed into supervised machine learning approaches to predict compound properties. The underlying substructure vector embeddings are obtained by training an unsupervised machine learning approach on a so-called corpus of compounds that consists of all available chemical matter. The resulting Mol2vec model is pre-trained once, yields dense vector representations and overcomes drawbacks of common compound feature representations such as sparseness and bit collisions. The prediction capabilities are demonstrated on several compound property and bioactivity data sets and compared with results obtained for Morgan fingerprints as reference compound representation. Mol2vec can be easily combined with ProtVec, which employs the same Word2vec concept on protein sequences, resulting in a proteochemometric approach that is alignment independent and can be thus also easily used for proteins with low sequence similarities.

scholarly journals Attack and Anomaly Detection in IoT Networks Using Supervised Machine Learning Approaches

2021 ◽  
Vol 35 (1) ◽  
pp. 11-21
Author(s):  
Himani Tyagi ◽  
Rajendra Kumar
Keyword(s):  
Machine Learning ◽  
Performance Metrics ◽  
Detection System ◽  
Feature Reduction ◽  
Machine Learning Algorithms ◽  
Supervised Machine Learning ◽  
Testing Time ◽  
Learning Approaches ◽  
Reduction Techniques ◽  
Share Data

IoT is characterized by communication between things (devices) that constantly share data, analyze, and make decisions while connected to the internet. This interconnected architecture is attracting cyber criminals to expose the IoT system to failure. Therefore, it becomes imperative to develop a system that can accurately and automatically detect anomalies and attacks occurring in IoT networks. Therefore, in this paper, an Intrsuion Detection System (IDS) based on extracted novel feature set synthesizing BoT-IoT dataset is developed that can swiftly, accurately and automatically differentiate benign and malicious traffic. Instead of using available feature reduction techniques like PCA that can change the core meaning of variables, a unique feature set consisting of only seven lightweight features is developed that is also IoT specific and attack traffic independent. Also, the results shown in the study demonstrates the effectiveness of fabricated seven features in detecting four wide variety of attacks namely DDoS, DoS, Reconnaissance, and Information Theft. Furthermore, this study also proves the applicability and efficiency of supervised machine learning algorithms (KNN, LR, SVM, MLP, DT, RF) in IoT security. The performance of the proposed system is validated using performance Metrics like accuracy, precision, recall, F-Score and ROC. Though the accuracy of Decision Tree (99.9%) and Randon Forest (99.9%) Classifiers are same but other metrics like training and testing time shows Random Forest comparatively better.

scholarly journals Machine Learning Approaches to Traffic Accident Analysis and Hotspot Prediction

Computers ◽  
2021 ◽  
Vol 10 (12) ◽  
pp. 157
Author(s):  
Daniel Santos ◽  
José Saias ◽  
Paulo Quaresma ◽  
Vítor Beires Nogueira
Keyword(s):  
Machine Learning ◽  
Predictive Model ◽  
Road Accident ◽  
Influential Factors ◽  
Supervised Machine Learning ◽  
Machine Learning Techniques ◽  
Economic Losses ◽  
Learning Approaches ◽  
Road Accidents ◽  
Accident Data

Traffic accidents are one of the most important concerns of the world, since they result in numerous casualties, injuries, and fatalities each year, as well as significant economic losses. There are many factors that are responsible for causing road accidents. If these factors can be better understood and predicted, it might be possible to take measures to mitigate the damages and its severity. The purpose of this work is to identify these factors using accident data from 2016 to 2019 from the district of Setúbal, Portugal. This work aims at developing models that can select a set of influential factors that may be used to classify the severity of an accident, supporting an analysis on the accident data. In addition, this study also proposes a predictive model for future road accidents based on past data. Various machine learning approaches are used to create these models. Supervised machine learning methods such as decision trees (DT), random forests (RF), logistic regression (LR), and naive Bayes (NB) are used, as well as unsupervised machine learning techniques including DBSCAN and hierarchical clustering. Results show that a rule-based model using the C5.0 algorithm is capable of accurately detecting the most relevant factors describing a road accident severity. Further, the results of the predictive model suggests the RF model could be a useful tool for forecasting accident hotspots.

scholarly journals Inference of an Integrative, Executable Network for Rheumatoid Arthritis Combining Data-Driven Machine Learning Approaches and a State-of-the-Art Mechanistic Disease Map

2021 ◽  
Vol 11 (8) ◽  
pp. 785
Author(s):  
Quentin Miagoux ◽  
Vidisha Singh ◽  
Dereck de Mézquita ◽  
Valerie Chaudru ◽  
Mohamed Elati ◽  
...  
Keyword(s):  
Rheumatoid Arthritis ◽  
Machine Learning ◽  
State Of The Art ◽  
Biological Information ◽  
Response To Treatment ◽  
Patient Specific ◽  
Learning Approaches ◽  
Data Types ◽  
Disease Heterogeneity ◽  
Combining Data

Rheumatoid arthritis (RA) is a multifactorial, complex autoimmune disease that involves various genetic, environmental, and epigenetic factors. Systems biology approaches provide the means to study complex diseases by integrating different layers of biological information. Combining multiple data types can help compensate for missing or conflicting information and limit the possibility of false positives. In this work, we aim to unravel mechanisms governing the regulation of key transcription factors in RA and derive patient-specific models to gain more insights into the disease heterogeneity and the response to treatment. We first use publicly available transcriptomic datasets (peripheral blood) relative to RA and machine learning to create an RA-specific transcription factor (TF) co-regulatory network. The TF cooperativity network is subsequently enriched in signalling cascades and upstream regulators using a state-of-the-art, RA-specific molecular map. Then, the integrative network is used as a template to analyse patients’ data regarding their response to anti-TNF treatment and identify master regulators and upstream cascades affected by the treatment. Finally, we use the Boolean formalism to simulate in silico subparts of the integrated network and identify combinations and conditions that can switch on or off the identified TFs, mimicking the effects of single and combined perturbations.

scholarly journals Machine Learning Frameworks in Cancer Detection

2021 ◽  
Vol 297 ◽  
pp. 01073
Author(s):  
Sabyasachi Pramanik ◽  
K. Martin Sagayam ◽  
Om Prakash Jena
Keyword(s):  
Machine Learning ◽  
Prediction Models ◽  
Supervised Machine Learning ◽  
Machine Learning Techniques ◽  
Cancer Development ◽  
Support Vector ◽  
Learning Approaches ◽  
Learning Techniques ◽  
Fact Finding ◽  
Risk Of Cancer

Cancer has been described as a diverse illness with several distinct subtypes that may occur simultaneously. As a result, early detection and forecast of cancer types have graced essentially in cancer fact-finding methods since they may help to improve the clinical treatment of cancer survivors. The significance of categorizing cancer suffers into higher or lower-threat categories has prompted numerous fact-finding associates from the bioscience and genomics field to investigate the utilization of machine learning (ML) algorithms in cancer diagnosis and treatment. Because of this, these methods have been used with the goal of simulating the development and treatment of malignant diseases in humans. Furthermore, the capacity of machine learning techniques to identify important characteristics from complicated datasets demonstrates the significance of these technologies. These technologies include Bayesian networks and artificial neural networks, along with a number of other approaches. Decision Trees and Support Vector Machines which have already been extensively used in cancer research for the creation of predictive models, also lead to accurate decision making. The application of machine learning techniques may undoubtedly enhance our knowledge of cancer development; nevertheless, a sufficient degree of validation is required before these approaches can be considered for use in daily clinical practice. An overview of current machine learning approaches utilized in the simulation of cancer development is presented in this paper. All of the supervised machine learning approaches described here, along with a variety of input characteristics and data samples, are used to build the prediction models. In light of the increasing trend towards the use of machine learning methods in biomedical research, we offer the most current papers that have used these approaches to predict risk of cancer or patient outcomes in order to better understand cancer.

scholarly journals Comparative Motor Pre-clinical Assessment in Parkinson’s Disease Using Supervised Machine Learning Approaches

2018 ◽  
Vol 46 (12) ◽  
pp. 2057-2068 ◽  
Author(s):  
Erika Rovini ◽  
Carlo Maremmani ◽  
Alessandra Moschetti ◽  
Dario Esposito ◽  
Filippo Cavallo
Keyword(s):  
Machine Learning ◽  
Parkinson’S Disease ◽  
Parkinson's Disease ◽  
Clinical Assessment ◽  
Supervised Machine Learning ◽  
Learning Approaches

Machine Learning Approaches to Retrieve High-Quality, Clinically Relevant, Evidence from the Biomedical Literature: A Systematic Review (Preprint)

2021 ◽  
Author(s):  
Wael Abdelkader ◽  
Tamara Navarro ◽  
Rick Parrish ◽  
Chris Cotoi ◽  
Federico Germini ◽  
...  
Keyword(s):  
Machine Learning ◽  
Systematic Review ◽  
Strong Evidence ◽  
Clinical Care ◽  
Biomedical Literature ◽  
Supervised Machine Learning ◽  
Machine Learning Techniques ◽  
Learning Approaches ◽  
High Quality ◽  
Applied Machine Learning

BACKGROUND The rapid growth of the biomedical literature makes identifying strong evidence a time-consuming task. Applying machine learning to the process could be a viable solution that limits effort while maintaining accuracy. OBJECTIVE To summarize the nature and comparative performance of machine learning approaches that have been applied to retrieve high-quality evidence for clinical consideration from the biomedical literature. METHODS We conducted a systematic review of studies that applied machine learning techniques to identify high-quality clinical articles in the biomedical literature. Multiple databases were searched to July 2020. Extracted data focused on the applied machine learning model, steps in the development of the models, and model performance. RESULTS From 3918 retrieved studies, 10 met our inclusion criteria. All followed a supervised machine learning approach and applied, from a limited range of options, a high-quality standard for the training of their model. The results show that machine learning can achieve a sensitivity of 95% while maintaining a high precision of 86%. CONCLUSIONS Applying machine learning to distinguish studies with strong evidence for clinical care has the potential to decrease the workload of manually identifying these. The evidence base is active and evolving. Reported methods were variable across the studies but focused on supervised machine learning approaches. Performance may improve by applying more sophisticated approaches such as active learning, auto-machine learning, and unsupervised machine learning approaches.

Learning fair models and representations

2020 ◽  
Vol 14 (1) ◽  
pp. 151-178
Author(s):  
Luca Oneto
Keyword(s):  
Machine Learning ◽  
Social Services ◽  
Ethical Issues ◽  
State Of The Art ◽  
Online Advertising ◽  
Radical Change ◽  
Data Representation ◽  
Learning Approaches ◽  
Central Question ◽  
Disparate Treatment

 Machine learning based systems and products are reaching society at large in many aspects of everyday life, including financial lending, online advertising, pretrial and immigration detention, child maltreatment screening, health care, social services, and education. This phenomenon has been accompanied by an increase in concern about the ethical issues that may rise from the adoption of these technologies. In response to this concern, a new area of machine learning has recently emerged that studies how to address disparate treatment caused by algorithmic errors and bias in the data. The central question is how to ensure that the learned model does not treat subgroups in the population unfairly. While the design of solutions to this issue requires an interdisciplinary effort, fundamental progress can only be achieved through a radical change in the machine learning paradigm. In this work, we will describe the state of the art on algorithmic fairness using statistical learning theory, machine learning, and deep learning approaches that are able to learn fair models and data representation.

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