This book brings together the two disparate worlds of computational text analysis and biology and presents some of the latest methods and applications to proteomics, sequence analysis and gene expression data. Modern genomics generates large and comprehensive data sets but their interpretation requires an understanding of a vast number of genes, their complex functions, and interactions. Keeping up with the literature on a single gene is a challenge itself-for thousands of genes it is simply. impossible. Here, Soumya Raychaudhuri presents the techniques and algorithms needed to access and utilize the vast scientific text, i.e. methods that automatically read the literature on all the genes. Including background chapters on the necessary biology, statistics and genomics, in addition to practical examples of interpreting many different types of modern experiments, this book is ideal for students and researchers in computational biology, bioinformatics, genomics, statistics and computer science

Now in its second edition, Text Analysis with R provides a practical introduction to computational text analysis using the open source programming language R. R is an extremely popular programming language, used throughout the sciences; due to its accessibility, R is now used increasingly in other research areas. In this volume, readers immediately begin working with text, and each chapter examines a new technique or process, allowing readers to obtain a broad exposure to core R procedures and a fundamental understanding of the possibilities of computational text analysis at both the micro and the macro scale. Each chapter builds on its predecessor as readers move from small scale “microanalysis” of single texts to large scale “macroanalysis” of text corpora, and each concludes with a set of practice exercises that reinforce and expand upon the chapter lessons. The book’s focus is on making the technical palatable and making the technical useful and immediately gratifying. Text Analysis with R is written with students and scholars of literature in mind but will be applicable to other humanists and social scientists wishing to extend their methodological toolkit to include quantitative and computational approaches to the study of text. Computation provides access to information in text that readers simply cannot gather using traditional qualitative methods of close reading and human synthesis. This new edition features two new chapters: one that introduces dplyr and tidyr in the context of parsing and analyzing dramatic texts to extract speaker and receiver data, and one on sentiment analysis using the syuzhet package. It is also filled with updated material in every chapter to integrate new developments in the field, current practices in R style, and the use of more efficient algorithms.

Provides clear guidance on leveraging computational techniques to answer social science questions In disciplines such as political science, sociology, psychology, and media studies, the use of computational analysis is rapidly increasing. Statistical modeling, machine learning, and other computational techniques are revolutionizing the way electoral results are predicted, social sentiment is measured, consumer interest is evaluated, and much more. Computational Analysis of Communication teaches social science students and practitioners how computational methods can be used in a broad range of applications, providing discipline-relevant examples, clear explanations, and practical guidance. Assuming little or no background in data science or computer linguistics, this accessible textbook teaches readers how to use state-of-the art computational methods to perform data-driven analyses of social science issues. A cross-disciplinary team of authors—with expertise in both the social sciences and computer science—explains how to gather and clean data, manage textual, audio-visual, and network data, conduct statistical and quantitative analysis, and interpret, summarize, and visualize the results. Offered in a unique hybrid format that integrates print, ebook, and open-access online viewing, this innovative resource: Covers the essential skills for social sciences courses on big data, data visualization, text analysis, predictive analytics, and others Integrates theory, methods, and tools to provide unified approach to the subject Includes sample code in Python and links to actual research questions and cases from social science and communication studies Discusses ethical and normative issues relevant to privacy, data ownership, and reproducible social science Developed in partnership with the International Communication Association and by the editors of Computational Communication Research Computational Analysis of Communication is an invaluable textbook and reference for students taking computational methods courses in social sciences, and for professional social scientists looking to incorporate computational methods into their work.

A guide for using computational text analysis to learn about the social world From social media posts and text messages to digital government documents and archives, researchers are bombarded with a deluge of text reflecting the social world. This textual data gives unprecedented insights into fundamental questions in the social sciences, humanities, and industry. Meanwhile new machine learning tools are rapidly transforming the way science and business are conducted. Text as Data shows how to combine new sources of data, machine learning tools, and social science research design to develop and evaluate new insights. Text as Data is organized around the core tasks in research projects using text—representation, discovery, measurement, prediction, and causal inference. The authors offer a sequential, iterative, and inductive approach to research design. Each research task is presented complete with real-world applications, example methods, and a distinct style of task-focused research. Bridging many divides—computer science and social science, the qualitative and the quantitative, and industry and academia—Text as Data is an ideal resource for anyone wanting to analyze large collections of text in an era when data is abundant and computation is cheap, but the enduring challenges of social science remain. Overview of how to use text as data Research design for a world of data deluge Examples from across the social sciences and industry

This open access book describes the results of natural language processing and machine learning methods applied to clinical text from electronic patient records. It is divided into twelve chapters. Chapters 1-4 discuss the history and background of the original paper-based patient records, their purpose, and how they are written and structured. These initial chapters do not require any technical or medical background knowledge. The remaining eight chapters are more technical in nature and describe various medical classifications and terminologies such as ICD diagnosis codes, SNOMED CT, MeSH, UMLS, and ATC. Chapters 5-10 cover basic tools for natural language processing and information retrieval, and how to apply them to clinical text. The difference between rule-based and machine learning-based methods, as well as between supervised and unsupervised machine learning methods, are also explained. Next, ethical concerns regarding the use of sensitive patient records for research purposes are discussed, including methods for de-identifying electronic patient records and safely storing patient records. The book’s closing chapters present a number of applications in clinical text mining and summarise the lessons learned from the previous chapters. The book provides a comprehensive overview of technical issues arising in clinical text mining, and offers a valuable guide for advanced students in health informatics, computational linguistics, and information retrieval, and for researchers entering these fields.

Text data is important for many domains, from healthcare to marketing to the digital humanities, but specialized approaches are necessary to create features for machine learning from language. Supervised Machine Learning for Text Analysis in R explains how to preprocess text data for modeling, train models, and evaluate model performance using tools from the tidyverse and tidymodels ecosystem. Models like these can be used to make predictions for new observations, to understand what natural language features or characteristics contribute to differences in the output, and more. If you are already familiar with the basics of predictive modeling, use the comprehensive, detailed examples in this book to extend your skills to the domain of natural language processing. This book provides practical guidance and directly applicable knowledge for data scientists and analysts who want to integrate unstructured text data into their modeling pipelines. Learn how to use text data for both regression and classification tasks, and how to apply more straightforward algorithms like regularized regression or support vector machines as well as deep learning approaches. Natural language must be dramatically transformed to be ready for computation, so we explore typical text preprocessing and feature engineering steps like tokenization and word embeddings from the ground up. These steps influence model results in ways we can measure, both in terms of model metrics and other tangible consequences such as how fair or appropriate model results are.

Chapter 7. Case Study : Comparing Twitter Archives; Getting the Data and Distribution of Tweets; Word Frequencies; Comparing Word Usage; Changes in Word Use; Favorites and Retweets; Summary; Chapter 8. Case Study : Mining NASA Metadata; How Data Is Organized at NASA; Wrangling and Tidying the Data; Some Initial Simple Exploration; Word Co-ocurrences and Correlations; Networks of Description and Title Words; Networks of Keywords; Calculating tf-idf for the Description Fields; What Is tf-idf for the Description Field Words?; Connecting Description Fields to Keywords; Topic Modeling.