Information Extraction from Text for Improving Research on Small Molecules and Histone Modifications

The cumulative number of publications, in particular in the life sciences, requires efficient methods for the automated extraction of information and semantic information retrieval. The recognition and identification of information-carrying units in text – concept denominations and named entities – relevant to a certain domain is a fundamental step. The focus of this thesis lies on the recognition of chemical entities and the new biological named entity type histone modifications, which are both important in the field of drug discovery. As the emergence of new research fields as well as the discovery and generation of novel entities goes along with the coinage of new terms, the perpetual adaptation of respective named entity recognition approaches to new domains is an important step for information extraction. Two methodologies have been investigated in this concern: the state-of-the-art machine learning method, Conditional Random Fields (CRF), and an approximate string search method based on dictionaries. Recognition methods that rely on dictionaries are strongly dependent on the availability of entity terminology collections as well as on its quality. In the case of chemical entities the terminology is distributed over more than 7 publicly available data sources. The join of entries and accompanied terminology from selected resources enables the generation of a new dictionary comprising chemical named entities. Combined with the automatic processing of respective terminology – the dictionary curation – the recognition performance reached an F1 measure of 0.54. That is an improvement by 29 % in comparison to the raw dictionary. The highest recall was achieved for the class of TRIVIAL-names with 0.79. The recognition and identification of chemical named entities provides a prerequisite for the extraction of related pharmacological relevant information from literature data. Therefore, lexico-syntactic patterns were defined that support the automated extraction of hypernymic phrases comprising pharmacological function terminology related to chemical compounds. It was shown that 29-50 % of the automatically extracted terms can be proposed for novel functional annotation of chemical entities provided by the reference database DrugBank. Furthermore, they are a basis for building up concept hierarchies and ontologies or for extending existing ones. Successively, the pharmacological function and biological activity concepts obtained from text were included into a novel descriptor for chemical compounds. Its successful application for the prediction of pharmacological function of molecules and the extension of chemical classification schemes, such as the the Anatomical Therapeutic Chemical (ATC), is demonstrated. In contrast to chemical entities, no comprehensive terminology resource has been available for histone modifications. Thus, histone modification concept terminology was primary recognized in text via CRFs with a F1 measure of 0.86. Subsequent, linguistic variants of extracted histone modification terms were mapped to standard representations that were organized into a newly assembled histone modification hierarchy. The mapping was accomplished by a novel developed term mapping approach described in the thesis. The combination of term recognition and term variant resolution builds up a new procedure for the assembly of novel terminology collections. It supports the generation of a term list that is applicable in dictionary-based methods. For the recognition of histone modification in text it could be shown that the named entity recognition method based on dictionaries is superior to the used machine learning approach. In conclusion, the present thesis provides techniques which enable an enhanced utilization of textual data, hence, supporting research in epigenomics and drug discovery

Sentiment Analysis using an ensemble of Feature Selection Algorithms

To determine the opinion of any person experiencing any services or buying any product, the usage of Sentiment Analysis, a continuous research in the field of text mining, is a common practice. It is a process of using computation to identify and categorize opinions expressed in a piece of text. Individuals post their opinion via reviews, tweets, comments or discussions which is our unstructured information. Sentiment analysis gives a general conclusion of audits which benefit clients, individuals or organizations for decision making. The primary point of this paper is to perform an ensemble approach on feature reduction methods identified with natural language processing and performing the analysis based on the results. An ensemble approach is a process of combining two or more methodologies. The feature reduction methods used are Principal Component Analysis (PCA) for feature extraction and Pearson Chi squared statistical test for feature selection. The fundamental commitment of this paper is to experiment whether combined use of cautious feature determination and existing classification methodologies can yield better accuracy

Music Emotion Classification based on Lyrics-Audio using Corpus based Emotion

Music has lyrics and audio. That’s components can be a feature for music emotion classification. Lyric features were extracted from text data and audio features were extracted from audio signal data.In the classification of emotions, emotion corpus is required for lyrical feature extraction. Corpus Based Emotion (CBE) succeed to increase the value of F-Measure for emotion classification on text documents. The music document has an unstructured format compared with the article text document. So it requires good preprocessing and conversion process before classification process. We used MIREX Dataset for this research. Psycholinguistic and stylistic features were used as lyrics features. Psycholinguistic feature was a feature that related to the category of emotion. In this research, CBE used to support the extraction process of psycholinguistic feature. Stylistic features related with usage of unique words in the lyrics, e.g. ‘ooh’, ‘ah’, ‘yeah’, etc. Energy, temporal and spectrum features were extracted for audio features.The best test result for music emotion classification was the application of Random Forest methods for lyrics and audio features. The value of F-measure was 56.8%

Sentiment analysis on online social network

A large amount of data is maintained in every Social networking sites.The total data constantly gathered on these sites make it difficult for methods like use of field agents, clipping services and ad-hoc research to maintain social media data. This paper discusses the previous research on sentiment analysis

Learning Analogies and Semantic Relations

We present an algorithm for learning from unlabeled text, based on the Vector Space Model (VSM) of information retrieval, that can solve verbal analogy questions of the kind found in the Scholastic Aptitude Test (SAT). A verbal analogy has the form A:B::C:D, meaning "A is to B as C is to D"; for example, mason:stone::carpenter:wood. SAT analogy questions provide a word pair, A:B, and the problem is to select the most analogous word pair, C:D, from a set of five choices. The VSM algorithm correctly answers 47% of a collection of 374 college-level analogy questions (random guessing would yield 20% correct). We motivate this research by relating it to work in cognitive science and linguistics, and by applying it to a difficult problem in natural language processing, determining semantic relations in noun-modifier pairs. The problem is to classify a noun-modifier pair, such as "laser printer", according to the semantic relation between the noun (printer) and the modifier (laser). We use a supervised nearest-neighbour algorithm that assigns a class to a given noun-modifier pair by finding the most analogous noun-modifier pair in the training data. With 30 classes of semantic relations, on a collection of 600 labeled noun-modifier pairs, the learning algorithm attains an F value of 26.5% (random guessing: 3.3%). With 5 classes of semantic relations, the F value is 43.2% (random: 20%). The performance is state-of-the-art for these challenging problems

A survey on opinion summarization technique s for social media

The volume of data on the social media is huge and even keeps increasing. The need for efficient processing of this extensive information resulted in increasing research interest in knowledge engineering tasks such as Opinion Summarization. This survey shows the current opinion summarization challenges for social media, then the necessary pre-summarization steps like preprocessing, features extraction, noise elimination, and handling of synonym features. Next, it covers the various approaches used in opinion summarization like Visualization, Abstractive, Aspect based, Query-focused, Real Time, Update Summarization, and highlight other Opinion Summarization approaches such as Contrastive, Concept-based, Community Detection, Domain Specific, Bilingual, Social Bookmarking, and Social Media Sampling. It covers the different datasets used in opinion summarization and future work suggested in each technique. Finally, it provides different ways for evaluating opinion summarization

NLSC: Unrestricted Natural Language-based Service Composition through Sentence Embeddings

Current approaches for service composition (assemblies of atomic services) require developers to use: (a) domain-specific semantics to formalize services that restrict the vocabulary for their descriptions, and (b) translation mechanisms for service retrieval to convert unstructured user requests to strongly-typed semantic representations. In our work, we argue that effort to developing service descriptions, request translations, and matching mechanisms could be reduced using unrestricted natural language; allowing both: (1) end-users to intuitively express their needs using natural language, and (2) service developers to develop services without relying on syntactic/semantic description languages. Although there are some natural language-based service composition approaches, they restrict service retrieval to syntactic/semantic matching. With recent developments in Machine learning and Natural Language Processing, we motivate the use of Sentence Embeddings by leveraging richer semantic representations of sentences for service description, matching and retrieval. Experimental results show that service composition development effort may be reduced by more than 44\% while keeping a high precision/recall when matching high-level user requests with low-level service method invocations.Comment: This paper will appear on SCC'19 (IEEE International Conference on Services Computing) on July 1