Journal ArticleDOI
Protein–protein interaction predictions using text mining methods
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TLDR
This review focuses on text-mining based computational methodologies, aiming to extract information for proteins and their interactions from public repositories such as literature and various biological databases, and comments on the biological databases which hold such information and the benchmark datasets that can be used for evaluating new tools.About:
This article is published in Methods.The article was published on 2015-03-01. It has received 79 citations till now. The article focuses on the topics: Biological database & Protein–protein interaction prediction.read more
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Information retrieval and text mining technologies for chemistry
Martin Krallinger,Obdulia Rabal,Anália Lourenço,Anália Lourenço,Julen Oyarzabal,Alfonso Valencia +5 more
TL;DR: This Review provides a comprehensive and in-depth description of fundamental concepts, technical implementations, and current technologies for meeting information demands of chemical information contained in scientific literature, patents, technical reports, or the web.
Journal ArticleDOI
The language of proteins: NLP, machine learning & protein sequences.
TL;DR: The success, promise and pitfalls of applying NLP algorithms to the study of proteins, and methods for encoding the information of proteins as text and analyzing it with NLP methods, reviewing classic concepts such as bag-of-words, k-mers/n-grams and text search.
Journal ArticleDOI
A comprehensive and quantitative comparison of text-mining in 15 million full-text articles versus their corresponding abstracts
TL;DR: An analysis of 15 million English scientific full-text articles published during the period 1823–2016 is presented, showing the development in article length and publication sub-topics during these nearly 250 years.
Journal ArticleDOI
Network Medicine in the Age of Biomedical Big Data.
Abhijeet R. Sonawane,Scott T. Weiss,Scott T. Weiss,Kimberly Glass,Kimberly Glass,Amitabh Sharma,Amitabh Sharma +6 more
TL;DR: This review explores ways in which the network medicine approach, aided by phenotype-specific biomedical data, can be gainfully applied and provides a lexicon for researchers from biological sciences and network theory to come on the same page to work on research areas that require interdisciplinary expertise.
Journal ArticleDOI
Visualizing genome and systems biology: technologies, tools, implementation techniques and trends, past, present and future
Georgios A. Pavlopoulos,Dimitris Malliarakis,Nikolas Papanikolaou,Theodosis Theodosiou,Anton J. Enright,Ioannis Iliopoulos +5 more
TL;DR: The past, present and future of genomic and systems biology visualization is discussed, and the latest libraries and programming languages that enable more effective, efficient and faster approaches for visualizing biological concepts are focused on.
References
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