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Biomedical Text Mining
Biomedical text mining (including biomedical natural language processing or BioNLP) refers to the methods and study of how text mining may be applied to texts and literature of the biomedical domain. As a field of research, biomedical text mining incorporates ideas from natural language processing, bioinformatics, medical informatics and computational linguistics. The strategies in this field have been applied to the biomedical literature available through services such as PubMed. In recent years, the scientific literature has shifted to electronic publishing but the volume of information available can be overwhelming. This revolution of publishing has caused a high demand for text mining techniques. Text mining offers information retrieval (IR) and entity recognition (ER). IR allows the retrieval of relevant papers according to the topic of interest, e.g. through PubMed. ER is practiced when certain biological terms are recognized (e.g. proteins or genes) for further processing. ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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Text Mining
Text mining, text data mining (TDM) or text analytics is the process of deriving high-quality information from text. It involves "the discovery by computer of new, previously unknown information, by automatically extracting information from different written resources." Written resources may include websites, books, emails, reviews, and articles. High-quality information is typically obtained by devising patterns and trends by means such as statistical pattern learning. According to Hotho et al. (2005), there are three perspectives of text mining: information extraction, data mining, and knowledge discovery in databases (KDD). Text mining usually involves the process of structuring the input text (usually parsing, along with the addition of some derived linguistic features and the removal of others, and subsequent insertion into a database), deriving patterns within the structured data, and finally evaluation and interpretation of the output. 'High quality' in text mining usually ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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Unstructured Data
Unstructured data (or unstructured information) is information that either does not have a pre-defined data model or is not organized in a pre-defined manner. Unstructured information is typically plain text, text-heavy, but may contain data such as dates, numbers, and facts as well. This results in irregularities and ambiguities that make it difficult to understand using traditional programs as compared to data stored in fielded form in databases or annotation, annotated (Tag (metadata), semantically tagged) in documents. In 1998, Merrill Lynch said "unstructured data comprises the vast majority of data found in an organization, some estimates run as high as 80%." It is unclear what the source of this number is, but nonetheless it is accepted by some. Other sources have reported similar or higher percentages of unstructured data. , International Data Corporation, IDC and Dell EMC project that data will grow to 40 zettabytes by 2020, resulting in a 50-fold growth from the beginnin ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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Temporal Information Retrieval
Temporal information retrieval (T-IR) is an emerging area of research related to the field of information retrieval (IR) and a considerable number of sub-areas, positioning itself, as an important dimension in the context of the user information needs. According to information theory Information theory is the mathematical study of the quantification (science), quantification, Data storage, storage, and telecommunications, communication of information. The field was established and formalized by Claude Shannon in the 1940s, ... science (Metzger, 2007), timeliness or currency is one of the key five aspects that determine a document's credibility besides relevance, accuracy, objectivity and coverage. One can provide many examples when the returned search results are of little value due to temporal problems such as obsolete data on weather, outdated information about a given company's earnings or information on already-happened or invalid predictions. T-IR, in general, aims at s ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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K-means Clustering
''k''-means clustering is a method of vector quantization, originally from signal processing, that aims to partition of a set, partition ''n'' observations into ''k'' clusters in which each observation belongs to the cluster (statistics), cluster with the nearest mean (cluster centers or cluster centroid), serving as a prototype of the cluster. This results in a partitioning of the data space into Voronoi cells. ''k''-means clustering minimizes within-cluster variances (squared Euclidean distances), but not regular Euclidean distances, which would be the more difficult Weber problem: the mean optimizes squared errors, whereas only the geometric median minimizes Euclidean distances. For instance, better Euclidean solutions can be found using k-medians clustering, ''k''-medians and k-medoids, ''k''-medoids. The problem is computationally difficult (NP-hardness, NP-hard); however, efficient heuristic algorithms converge quickly to a local optimum. These are usually similar to the ex ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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Unsupervised Learning
Unsupervised learning is a framework in machine learning where, in contrast to supervised learning, algorithms learn patterns exclusively from unlabeled data. Other frameworks in the spectrum of supervisions include weak- or semi-supervision, where a small portion of the data is tagged, and self-supervision. Some researchers consider self-supervised learning a form of unsupervised learning. Conceptually, unsupervised learning divides into the aspects of data, training, algorithm, and downstream applications. Typically, the dataset is harvested cheaply "in the wild", such as massive text corpus obtained by web crawling, with only minor filtering (such as Common Crawl). This compares favorably to supervised learning, where the dataset (such as the ImageNet1000) is typically constructed manually, which is much more expensive. There were algorithms designed specifically for unsupervised learning, such as clustering algorithms like k-means, dimensionality reduction techniques l ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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Supervised Learning
In machine learning, supervised learning (SL) is a paradigm where a Statistical model, model is trained using input objects (e.g. a vector of predictor variables) and desired output values (also known as a ''supervisory signal''), which are often human-made labels. The training process builds a function that maps new data to expected output values. An optimal scenario will allow for the algorithm to accurately determine output values for unseen instances. This requires the learning algorithm to Generalization (learning), generalize from the training data to unseen situations in a reasonable way (see inductive bias). This statistical quality of an algorithm is measured via a ''generalization error''. Steps to follow To solve a given problem of supervised learning, the following steps must be performed: # Determine the type of training samples. Before doing anything else, the user should decide what kind of data is to be used as a Training, validation, and test data sets, trainin ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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Document Clustering
Document clustering (or text clustering) is the application of cluster analysis to textual documents. It has applications in automatic document organization, topic extraction and fast information retrieval or filtering. Overview Document clustering involves the use of descriptors and descriptor extraction. Descriptors are sets of words that describe the contents within the cluster. Document clustering is generally considered to be a centralized process. Examples of document clustering include web document clustering for search users. The application of document clustering can be categorized to two types, online and offline. Online applications are usually constrained by efficiency problems when compared to offline applications. Text clustering may be used for different tasks, such as grouping similar documents (news, tweets, etc.) and the analysis of customer/employee feedback, discovering meaningful implicit subjects across all documents. In general, there are two common algor ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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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 Class (philosophy), classes or Categorization, 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 Subject (documents), subjects or according to other attributes (such as document type, author, printing year etc.). In the rest of th ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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Word Embedding
In natural language processing, a word embedding is a representation of a word. The embedding is used in text analysis. Typically, the representation is a real-valued vector that encodes the meaning of the word in such a way that the words that are closer in the vector space are expected to be similar in meaning. Word embeddings can be obtained using language modeling and feature learning techniques, where words or phrases from the vocabulary are mapped to vectors of real numbers. Methods to generate this mapping include neural networks, dimensionality reduction on the word co-occurrence matrix, probabilistic models, explainable knowledge base method, and explicit representation in terms of the context in which words appear. Word and phrase embeddings, when used as the underlying input representation, have been shown to boost the performance in NLP tasks such as syntactic parsing and sentiment analysis. Development and history of the approach In distributional semantics ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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Deep Learning
Deep learning is a subset of machine learning that focuses on utilizing multilayered neural networks to perform tasks such as classification, regression, and representation learning. The field takes inspiration from biological neuroscience and is centered around stacking artificial neurons into layers and "training" them to process data. The adjective "deep" refers to the use of multiple layers (ranging from three to several hundred or thousands) in the network. Methods used can be either supervised, semi-supervised or unsupervised. Some common deep learning network architectures include fully connected networks, deep belief networks, recurrent neural networks, convolutional neural networks, generative adversarial networks, transformers, and neural radiance fields. These architectures have been applied to fields including computer vision, speech recognition, natural language processing, machine translation, bioinformatics, drug design, medical image analysis, c ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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Gene
In biology, the word gene has two meanings. The Mendelian gene is a basic unit of heredity. The molecular gene is a sequence of nucleotides in DNA that is transcribed to produce a functional RNA. There are two types of molecular genes: protein-coding genes and non-coding genes. During gene expression (the synthesis of Gene product, RNA or protein from a gene), DNA is first transcription (biology), copied into RNA. RNA can be non-coding RNA, directly functional or be the intermediate protein biosynthesis, template for the synthesis of a protein. The transmission of genes to an organism's offspring, is the basis of the inheritance of phenotypic traits from one generation to the next. These genes make up different DNA sequences, together called a genotype, that is specific to every given individual, within the gene pool of the population (biology), population of a given species. The genotype, along with environmental and developmental factors, ultimately determines the phenotype ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
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Protein
Proteins are large biomolecules and macromolecules that comprise one or more long chains of amino acid residue (biochemistry), residues. Proteins perform a vast array of functions within organisms, including Enzyme catalysis, catalysing metabolic reactions, DNA replication, Cell signaling, responding to stimuli, providing Cytoskeleton, structure to cells and Fibrous protein, organisms, and Intracellular transport, transporting molecules from one location to another. Proteins differ from one another primarily in their sequence of amino acids, which is dictated by the Nucleic acid sequence, nucleotide sequence of their genes, and which usually results in protein folding into a specific Protein structure, 3D structure that determines its activity. A linear chain of amino acid residues is called a polypeptide. A protein contains at least one long polypeptide. Short polypeptides, containing less than 20–30 residues, are rarely considered to be proteins and are commonly called pep ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |