[PDF] Discriminative Pattern Discovery On Biological Networks eBook

Author : Fabio Fassetti
Publisher : Springer
Page : 51 pages
File Size : 15,51 MB
Release : 2017-09-01
Category : Computers
ISBN : 3319634771

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This work provides a review of biological networks as a model for analysis, presenting and discussing a number of illuminating analyses. Biological networks are an effective model for providing insights about biological mechanisms. Networks with different characteristics are employed for representing different scenarios. This powerful model allows analysts to perform many kinds of analyses which can be mined to provide interesting information about underlying biological behaviors. The text also covers techniques for discovering exceptional patterns, such as a pattern accounting for local similarities and also collaborative effects involving interactions between multiple actors (for example genes). Among these exceptional patterns, of particular interest are discriminative patterns, namely those which are able to discriminate between two input populations (for example healthy/unhealthy samples). In addition, the work includes a discussion on the most recent proposal on discovering discriminative patterns, in which there is a labeled network for each sample, resulting in a database of networks representing a sample set. This enables the analyst to achieve a much finer analysis than with traditional techniques, which are only able to consider an aggregated network of each population.

Author : Zheng Rong Yang
Publisher : World Scientific
Page : 462 pages
File Size : 49,25 MB
Release : 2021-09-17
Category : Science
ISBN : 9811240132

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This book provides the research directions for new or junior researchers who are going to use machine learning approaches for biological pattern discovery. The book was written based on the research experience of the author's several research projects in collaboration with biologists worldwide. The chapters are organised to address individual biological pattern discovery problems. For each subject, the research methodologies and the machine learning algorithms which can be employed are introduced and compared. Importantly, each chapter was written with the aim to help the readers to transfer their knowledge in theory to practical implementation smoothly. Therefore, the R programming environment was used for each subject in the chapters. The author hopes that this book can inspire new or junior researchers' interest in biological pattern discovery using machine learning algorithms.

Author : Ilan Smoly
Publisher :
Page : 77 pages
File Size : 50,31 MB
Release : 2016
Category :
ISBN :

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"In my research, I addressed this challenge by focusing on the discovery of meaningful patterns in biological systems. For this task, we developed new algorithms and tools for pattern discovery in biological networks, and analyzed regulatory networks of multiple species. The work described in this thesis is divided into three objectives. Each of these objectives was published as distinct scientific article."-- from abstract.

Author :
Publisher :
Page : 159 pages
File Size : 49,8 MB
Release : 2005
Category :
ISBN :

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Biomedical research is undergoing a revolution with the advance of high-throughput technologies. A major challenge in the post-genomic era is to understand how genes, proteins and small molecules are organized into signaling pathways and regulatory networks. To simplify the analysis of large complex molecular networks, strategies are sought to break them down into small yet relatively independent network modules, e.g. pathways and protein complexes. In fulfillment of the motivation to find evolutionary origins of network modules, a novel strategy has been developed to uncover duplicated pathways and protein complexes. This search was first formulated into a computational problem which finds frequent patterns in integrated graphs. The whole framework was then successfully implemented as the software package BLUNT, which includes a parallelized version. To evaluate the biological significance of the work, several large datasets were chosen, with each dataset targeting a different biological question. An application of BLUNT was performed on the yeast protein-protein interaction network, which is described. A large number of frequent patterns were discovered and predicted to be duplicated pathways. To explore how these pathways may have diverged since duplication, the differential regulation of duplicated pathways was studied at the transcriptional level, both in terms of time and location. As demonstrated, this algorithm can be used as new data mining tool for large scale biological data in general. It also provides a novel strategy to study the evolution of pathways and protein complexes in a systematic way. Understanding how pathways and protein complexes evolve will greatly benefit the fundamentals of biomedical research.

Author : Mark Buchanan
Publisher : Cambridge University Press
Page : 282 pages
File Size : 20,1 MB
Release : 2010-05-13
Category : Science
ISBN : 0521882737

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Key introductory text for graduate students and researchers in physics, biology and biochemistry.

Author : Richard Baldock
Publisher : Academic Press
Page : 343 pages
File Size : 33,17 MB
Release : 2015-09-23
Category : Science
ISBN : 0128009136

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Kaufman's Atlas of Mouse Development: With Coronal Sections continues the stellar reputation of the original Atlas by providing updated, in-depth anatomical content and morphological views of organ systems.The publication offers written descriptions of the developmental origins of the organ systems alongside high-resolution images for needed visualization of developmental processes. Matt Kaufman himself has annotated the coronal images in the same clear, meticulous style of the original Atlas. Kaufman's Atlas of Mouse Development: With Coronal Sections follows the original Atlas as a continuation of the standard in the field for developmental biologists and researchers across biological and biomedical sciences studying mouse development. Provides high-resolution images for best visualization of key developmental processes and structures Offers in-depth anatomy and morphological views of organ systems Written descriptions convey developmental origins of the organ systems

Author : Stanislav Plamenov Angelov
Publisher :
Page : 236 pages
File Size : 32,88 MB
Release : 2007
Category :
ISBN : 9781109985016

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There are two main approaches for extracting knowledge from sequence data. One approach compares newly acquired data with possibly, already annotated data under the assumption that data similarity implies functional similarity. The second approach mines the data for frequently occurring or surprising patterns. Such patterns are unlikely to occur at random and pinpoint candidates for further laboratory investigations.