TREC Genomics
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TREC Genomics
The TREC Genomics track was a workshop held under the auspices of NIST for the purpose of evaluating systems for information retrieval and related technologies in the genomics domain. The TREC Genomics track took place annually from 2003 to 2007, with some modifications to the task set every year; tasks included information retrieval, document classification, GeneRIF prediction, and question answering Question answering (QA) is a computer science discipline within the fields of information retrieval and natural language processing (NLP), which is concerned with building systems that automatically answer questions posed by humans in a natural l .... See also * TREC, the Text Retrieval Conference External links The TREC Genomics track web site Genomics organizations {{genetics-stub ...
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NIST
The National Institute of Standards and Technology (NIST) is an agency of the United States Department of Commerce whose mission is to promote American innovation and industrial competitiveness. NIST's activities are organized into physical science laboratory programs that include nanoscale science and technology, engineering, information technology, neutron research, material measurement, and physical measurement. From 1901 to 1988, the agency was named the National Bureau of Standards. History Background The Articles of Confederation, ratified by the colonies in 1781, provided: The United States in Congress assembled shall also have the sole and exclusive right and power of regulating the alloy and value of coin struck by their own authority, or by that of the respective states—fixing the standards of weights and measures throughout the United States. Article 1, section 8, of the Constitution of the United States, ratified in 1789, granted these powers to the new Congre ...
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Information Retrieval
Information retrieval (IR) in computing and information science is the process of obtaining information system resources that are relevant to an information need from a collection of those resources. Searches can be based on full-text or other content-based indexing. Information retrieval is the science of searching for information in a document, searching for documents themselves, and also searching for the metadata that describes data, and for databases of texts, images or sounds. Automated information retrieval systems are used to reduce what has been called information overload. An IR system is a software system that provides access to books, journals and other documents; stores and manages those documents. Web search engines are the most visible IR applications. Overview An information retrieval process begins when a user or searcher enters a query into the system. Queries are formal statements of information needs, for example search strings in web search engines. In inf ...
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Genomics
Genomics is an interdisciplinary field of biology focusing on the structure, function, evolution, mapping, and editing of genomes. A genome is an organism's complete set of DNA, including all of its genes as well as its hierarchical, three-dimensional structural configuration. In contrast to genetics, which refers to the study of ''individual'' genes and their roles in inheritance, genomics aims at the collective characterization and quantification of ''all'' of an organism's genes, their interrelations and influence on the organism. Genes may direct the production of proteins with the assistance of enzymes and messenger molecules. In turn, proteins make up body structures such as organs and tissues as well as control chemical reactions and carry signals between cells. Genomics also involves the sequencing and analysis of genomes through uses of high throughput DNA sequencing and bioinformatics to assemble and analyze the function and structure of entire genomes. Advances in ...
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Document Classification
Document classification or document categorization is a problem in library science, information science and computer science. The task is to assign a document to one or more classes or categories. This may be done "manually" (or "intellectually") or algorithmically. The intellectual classification of documents has mostly been the province of library science, while the algorithmic classification of documents is mainly in information science and computer science. The problems are overlapping, however, and there is therefore interdisciplinary research on document classification. The documents to be classified may be texts, images, music, etc. Each kind of document possesses its special classification problems. When not otherwise specified, text classification is implied. Documents may be classified according to their subjects or according to other attributes (such as document type, author, printing year etc.). In the rest of this article only subject classification is considered. T ...
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GeneRIF
A GeneRIF or Gene Reference Into Function is a short (255 characters or fewer) statement about the function of a gene. GeneRIFs provide a simple mechanism for allowing scientists to add to the functional annotation of genes described in the Entrez Gene database. In practice, ''function'' is constructed quite broadly. For example, there are GeneRIFs that discuss the role of a gene in a disease, GeneRIFs that point the viewer towards a review article about the gene, and GeneRIFs that discuss the structure of a gene. However, the stated intent is for GeneRIFs to be about gene function. Currently over half a million geneRIFs have been created for genes from almost 1000 different species. GeneRIFs are always associated with specific entries in the Entrez Gene database. Each GeneRIF has a pointer to the PubMed ID (a type of document identifier) of a scientific publication that provides evidence for the statement made by the GeneRIF. GeneRIFs are often extracted directly from the docum ...
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Question Answering
Question answering (QA) is a computer science discipline within the fields of information retrieval and natural language processing (NLP), which is concerned with building systems that automatically answer questions posed by humans in a natural language. Overview A question answering implementation, usually a computer program, may construct its answers by querying a structured database of knowledge or information, usually a knowledge base. More commonly, question answering systems can pull answers from an unstructured collection of natural language documents. Some examples of natural language document collections used for question answering systems include: * a local collection of reference texts * internal organization documents and web pages * compiled newswire reports * a set of Wikipedia pages * a subset of World Wide Web pages Types of question answering Question answering research attempts to deal with a wide range of question types including: fact, list, definition, ''H ...
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Text Retrieval Conference
The Text REtrieval Conference (TREC) is an ongoing series of workshops focusing on a list of different information retrieval (IR) research areas, or ''tracks.'' It is co-sponsored by the National Institute of Standards and Technology (NIST) and the Intelligence Advanced Research Projects Activity (part of the office of the Director of National Intelligence), and began in 1992 as part of the TIPSTER Text program. Its purpose is to support and encourage research within the information retrieval community by providing the infrastructure necessary for large-scale ''evaluation'' of text retrieval methodologies and to increase the speed of lab-to-product transfer of technology. TREC's evaluation protocols have improved many search technologies. A 2010 study estimated that "without TREC, U.S. Internet users would have spent up to 3.15 billion additional hours using web search engines between 1999 and 2009." Hal Varian the Chief Economist at Google wrote that "The TREC data revitaliz ...
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