Protein Protein Interaction Networks

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Protein–Protein Interaction Regulators

Siddhartha Roy,Haian Fu
Protein Protein Interaction Regulators Book PDF

Author : Siddhartha Roy,Haian Fu
Publisher : Royal Society of Chemistry
Page : 399 pages
File Size : 48,8 Mb
Release : 2020-12-15
Category : Science
ISBN : 9781788011877

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Protein–Protein Interaction Regulators by Siddhartha Roy,Haian Fu Pdf

New genomic information has revealed the crucial role that protein-protein interactions (PPIs) play in regulating numerous cellular functions. Aberrant forms of these interactions are common in numerous diseases and thus PPIs have emerged as a vast class of critical drug targets. Despite the importance of PPIs in biology, it has been extremely challenging to convert targets into therapeutics and targeting PPIs had long been considered a very difficult task. However, over the past decade the field has advanced with increasing growth in the number of successful PPI regulators. Protein-Protein Interaction Regulators surveys the latest advances in the structural understanding of PPIs as well as recent developments in modulator discovery.

Biological Data Mining in Protein Interaction Networks

Li, Xiao-Li,Ng, See-Kiong
Biological Data Mining in Protein Interaction Networks Book PDF

Author : Li, Xiao-Li,Ng, See-Kiong
Publisher : IGI Global
Page : 450 pages
File Size : 40,6 Mb
Release : 2009-05-31
Category : Technology & Engineering
ISBN : 9781605663999

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Biological Data Mining in Protein Interaction Networks by Li, Xiao-Li,Ng, See-Kiong Pdf

"The goal of this book is to disseminate research results and best practices from cross-disciplinary researchers and practitioners interested in, and working on bioinformatics, data mining, and proteomics"--Provided by publisher.

Protein Interaction Networks

Aidong Zhang
Protein Interaction Networks Book PDF

Author : Aidong Zhang
Publisher : Cambridge University Press
Page : 283 pages
File Size : 47,8 Mb
Release : 2009-04-06
Category : Computers
ISBN : 9781139479035

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Protein Interaction Networks by Aidong Zhang Pdf

The analysis of protein-protein interactions is fundamental to the understanding of cellular organization, processes, and functions. Proteins seldom act as single isolated species; rather, proteins involved in the same cellular processes often interact with each other. Functions of uncharacterized proteins can be predicted through comparison with the interactions of similar known proteins. Recent large-scale investigations of protein-protein interactions using such techniques as two-hybrid systems, mass spectrometry, and protein microarrays have enriched the available protein interaction data and facilitated the construction of integrated protein-protein interaction networks. The resulting large volume of protein-protein interaction data has posed a challenge to experimental investigation. This book provides a comprehensive understanding of the computational methods available for the analysis of protein-protein interaction networks. It offers an in-depth survey of a range of approaches, including statistical, topological, data-mining, and ontology-based methods. The author discusses the fundamental principles underlying each of these approaches and their respective benefits and drawbacks, and she offers suggestions for future research.

Protein-Protein Interaction Networks

Stefan Canzar,Francisca Rojas Ringeling
Protein Protein Interaction Networks Book PDF

Author : Stefan Canzar,Francisca Rojas Ringeling
Publisher : Humana
Page : 0 pages
File Size : 44,9 Mb
Release : 2019-10-04
Category : Science
ISBN : 1493998722

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Protein-Protein Interaction Networks by Stefan Canzar,Francisca Rojas Ringeling Pdf

This volume explores techniques that study interactions between proteins in different species, and combines them with context-specific data, analysis of omics datasets, and assembles individual interactions into higher-order semantic units, i.e., protein complexes and functional modules. The chapters in this book cover computational methods that solve diverse tasks such as the prediction of functional protein-protein interactions; the alignment-based comparison of interaction networks by SANA; using the RaptorX-ComplexContact webserver to predict inter-protein residue-residue contacts; the docking of alternative confirmations of proteins participating in binary interactions and the visually-guided selection of a docking model using COZOID; the detection of novel functional units by KeyPathwayMiner and how PathClass can use such de novo pathways to classify breast cancer subtypes. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary hardware- and software, step-by-step, readily reproducible computational protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and comprehensive, Protein-Protein Interaction Networks: Methods and Protocols is a valuable resource for both novice and expert researchers who are interested in learning more about this evolving field.

Protein-protein Interactions and Networks

Anna Panchenko,Teresa M. Przytycka
Protein protein Interactions and Networks Book PDF

Author : Anna Panchenko,Teresa M. Przytycka
Publisher : Springer Science & Business Media
Page : 198 pages
File Size : 46,9 Mb
Release : 2010-04-06
Category : Science
ISBN : 9781848001251

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Protein-protein Interactions and Networks by Anna Panchenko,Teresa M. Przytycka Pdf

The biological interactions of living organisms, and protein-protein interactions in particular, are astonishingly diverse. This comprehensive book provides a broad, thorough and multidisciplinary coverage of its field. It integrates different approaches from bioinformatics, biochemistry, computational analysis and systems biology to offer the reader a comprehensive global view of the diverse data on protein-protein interactions and protein interaction networks.

Proteomics and Protein-Protein Interactions

Gabriel Waksman
Proteomics and Protein Protein Interactions Book PDF

Author : Gabriel Waksman
Publisher : Springer Science & Business Media
Page : 325 pages
File Size : 45,5 Mb
Release : 2006-12-22
Category : Medical
ISBN : 9780387245324

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Proteomics and Protein-Protein Interactions by Gabriel Waksman Pdf

Gabriel Waksman Institute of Structural Molecular Biology, Birkbeck and University College London, Malet Street, London WC1E 7HX, United Kingdom Address for correspondence: Professor Gabriel Waksman Institute of Structural Molecular Biology Birkbeck and University College London Malet Street London WC1E 7H United Kingdom Email: g. waksman@bbk. ac. uk and g. waksman@ucl. ac. uk Phone: (+44) (0) 207 631 6833 Fax: (+44) (0) 207 631 6833 URL: http://people. cryst. bbk. ac. uk/?ubcg54a Gabriel Waksman is Professor of Structural Molecular Biology at the Institute of Structural Molecular Biology at UCL/Birkbeck, of which he is also the director. Before joining the faculty of UCL and Birkbeck, he was the Roy and Diana Vagelos Professor of Biochemistry and Molecular Biophysics at the Washington University School of Medicine in St Louis (USA). The rapidly evolving ?eld of protein science has now come to realize the ubiquity and importance of protein–protein interactions. It had been known for some time that proteins may interact with each other to form functional complexes, but it was thought to be the property of only a handful of key proteins. However, with the advent of hi- throughput proteomics to monitor protein–protein interactions at an organism level, we can now safely state that protein–protein interactions are the norm and not the exception.

The Autoimmune Diseases

Noel R. Rose,Ian R. Mackay
The Autoimmune Diseases Book PDF

Author : Noel R. Rose,Ian R. Mackay
Publisher : Unknown
Page : 928 pages
File Size : 52,9 Mb
Release : 1998
Category : Medical
ISBN : UOM:39015045615823

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The Autoimmune Diseases by Noel R. Rose,Ian R. Mackay Pdf

The Autoimmune Diseases comprehensively describes the clinical expressions of all known autoimmune diseases, as well as the experimental bases of autoimmunity and failure of tolerance. The scientific chapters include mechanisms of natural tolerance, the genetic basis of autoimmunity, the significance of apoptosis, the influence of cytokines, environmental influences, and experimental models. The clinical chapters cover autoimmune endocrine deficiencies, insulin-dependent diabetes, rheumatic disorders, neurological diseases, and diseases of the blood, skin, eye, kidney, and liver.

New Approaches of Protein Function Prediction from Protein Interaction Networks

Jingyu Hou
New Approaches of Protein Function Prediction from Protein Interaction Networks Book PDF

Author : Jingyu Hou
Publisher : Academic Press
Page : 124 pages
File Size : 49,9 Mb
Release : 2017-01-13
Category : Mathematics
ISBN : 9780128099445

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New Approaches of Protein Function Prediction from Protein Interaction Networks by Jingyu Hou Pdf

New Approaches of Protein Function Prediction from Protein Interaction Networks contains the critical aspects of PPI network based protein function prediction, including semantically assessing the reliability of PPI data, measuring the functional similarity between proteins, dynamically selecting prediction domains, predicting functions, and establishing corresponding prediction frameworks. Functional annotation of proteins is vital to biological and clinical research and other applications due to the important roles proteins play in various biological processes. Although the functions of some proteins have been annotated via biological experiments, there are still many proteins whose functions are yet to be annotated due to the limitations of existing methods and the high cost of experiments. To overcome experimental limitations, this book helps users understand the computational approaches that have been rapidly developed for protein function prediction. Provides innovative approaches and new developments targeting key issues in protein function prediction Presents heuristic ideas for further research in this challenging area

Protein-Protein Interactions

Weibo Cai,Hao Hong
Protein Protein Interactions Book PDF

Author : Weibo Cai,Hao Hong
Publisher : BoD – Books on Demand
Page : 488 pages
File Size : 49,6 Mb
Release : 2012-03-30
Category : Science
ISBN : 9789535103974

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Protein-Protein Interactions by Weibo Cai,Hao Hong Pdf

Proteins are indispensable players in virtually all biological events. The functions of proteins are coordinated through intricate regulatory networks of transient protein-protein interactions (PPIs). To predict and/or study PPIs, a wide variety of techniques have been developed over the last several decades. Many in vitro and in vivo assays have been implemented to explore the mechanism of these ubiquitous interactions. However, despite significant advances in these experimental approaches, many limitations exist such as false-positives/false-negatives, difficulty in obtaining crystal structures of proteins, challenges in the detection of transient PPI, among others. To overcome these limitations, many computational approaches have been developed which are becoming increasingly widely used to facilitate the investigation of PPIs. This book has gathered an ensemble of experts in the field, in 22 chapters, which have been broadly categorized into Computational Approaches, Experimental Approaches, and Others.

Herpes Simplex Virus

Russell J. Diefenbach,Cornel Fraefel
Herpes Simplex Virus Book PDF

Author : Russell J. Diefenbach,Cornel Fraefel
Publisher : Humana
Page : 457 pages
File Size : 42,9 Mb
Release : 2020-10-30
Category : Medical
ISBN : 1493998161

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Herpes Simplex Virus by Russell J. Diefenbach,Cornel Fraefel Pdf

This second edition volume expands on the previous edition with a discussion of new and updated methods used to study the Herpes Simplex Virus (HSV), along with a look at the latest developing technologies such as next generation sequencing, CRISPR/Cas9 engineering, and the use of BioID to identify protein-protein interactions. Chapters cover topics such as the biology, life cycle, and current state of antiviral and vaccine development for HSV-1; protocols on growing viruses in cell culture and manipulating viral DNA; design and application of HSV-1 vectors for cancer- and gene-therapy; and structural analyses, microscopy, proteomics, and testing of antivirals. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and comprehensive, Herpes Simplex Virus: Methods and Protocols, Second Edition is a valuable resource for immunologists, and molecular and cell biologists. This book will also be useful for researchers who wish to initiate molecular and/or cellular-based approaches to study HSV.

Protein - Protein Interaction

Meike Werther,Harald Seitz
Protein Protein Interaction Book PDF

Author : Meike Werther,Harald Seitz
Publisher : Springer Science & Business Media
Page : 282 pages
File Size : 41,9 Mb
Release : 2008-09-29
Category : Science
ISBN : 9783540688174

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Protein - Protein Interaction by Meike Werther,Harald Seitz Pdf

This book covers trends in modern biotechnology. It treats all aspects of this interdisciplinary technology, where knowledge, methods and expertise are required from chemistry, biochemistry, microbiology, genetics, chemical engineering and computer science.

Protein Interaction Networks in Health and Disease

Spyros Petrakis,Miguel A. Andrade-Navarro
Protein Interaction Networks in Health and Disease Book PDF

Author : Spyros Petrakis,Miguel A. Andrade-Navarro
Publisher : Frontiers Media SA
Page : 91 pages
File Size : 55,5 Mb
Release : 2016-10-19
Category : Genetics
ISBN : 9782889199822

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Protein Interaction Networks in Health and Disease by Spyros Petrakis,Miguel A. Andrade-Navarro Pdf

The identification and mapping of protein-protein interactions (PPIs) is a major goal in systems biology. Experimental data are currently produced in large scale using a variety of high-throughput assays in yeast or mammalian systems. Analysis of these data using computational tools leads to the construction of large protein interaction networks, which help researchers identify novel protein functions. However, our current view of protein interaction networks is still limited and there is an active field of research trying to further develop this concept to include important processes: the topology of interactions and their changes in real time, the effects of competition for binding to the same protein region, PPI variation due to alternative splicing or post-translational modifications, etc. In particular, a clinically relevant topic for development of the concept of protein interactions networks is the consideration of mutant isoforms, which may be responsible for a pathological condition. Mutations in proteins may result in loss of normal interactions and appearance of novel abnormal interactions that may affect a protein’s function and biological cycle. This Research Topic presents novel findings and recent achievements in the field of protein interaction networks with a focus on disease. Authors describe methods for the identification and quantification of PPIs, the annotation and analysis of networks, considering PPIs and protein complexes formed by mutant proteins associated with pathological conditions or genetic diseases.

Protein-protein Interactions and Networks

Anna Panchenko,Teresa M. Przytycka
Protein protein Interactions and Networks Book PDF

Author : Anna Panchenko,Teresa M. Przytycka
Publisher : Springer
Page : 212 pages
File Size : 52,8 Mb
Release : 2009-08-29
Category : Science
ISBN : 1848821964

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Protein-protein Interactions and Networks by Anna Panchenko,Teresa M. Przytycka Pdf

The biological interactions of living organisms, and protein-protein interactions in particular, are astonishingly diverse. This comprehensive book provides a broad, thorough and multidisciplinary coverage of its field. It integrates different approaches from bioinformatics, biochemistry, computational analysis and systems biology to offer the reader a comprehensive global view of the diverse data on protein-protein interactions and protein interaction networks.

Proteomics for Biological Discovery

Timothy D. Veenstra,John R. Yates, III
Proteomics for Biological Discovery Book PDF

Author : Timothy D. Veenstra,John R. Yates, III
Publisher : John Wiley & Sons
Page : 361 pages
File Size : 43,6 Mb
Release : 2006-06-12
Category : Science
ISBN : 9780470007730

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Proteomics for Biological Discovery by Timothy D. Veenstra,John R. Yates, III Pdf

Written by recognized experts in the study of proteins, Proteomics for Biological Discovery begins by discussing the emergence of proteomics from genome sequencing projects and a summary of potential answers to be gained from proteome-level research. The tools of proteomics, from conventional to novel techniques, are then dealt with in terms of underlying concepts, limitations and future directions. An invaluable source of information, this title also provides a thorough overview of the current developments in post-translational modification studies, structural proteomics, biochemical proteomics, microfabrication, applied proteomics, and bioinformatics relevant to proteomics. Presents a comprehensive and coherent review of the major issues faced in terms of technology development, bioinformatics, strategic approaches, and applications Chapters offer a rigorous overview with summary of limitations, emerging approaches, questions, and realistic future industry and basic science applications Discusses higher level integrative aspects, including technical challenges and applications for drug discovery Accessible to the novice while providing experienced investigators essential information Proteomics for Biological Discovery is an essential resource for students, postdoctoral fellows, and researchers across all fields of biomedical research, including biochemistry, protein chemistry, molecular genetics, cell/developmental biology, and bioinformatics.

Protein-Protein and Domain-Domain Interactions

Pandjassarame Kangueane,Christina Nilofer
Protein Protein and Domain Domain Interactions Book PDF

Author : Pandjassarame Kangueane,Christina Nilofer
Publisher : Springer
Page : 207 pages
File Size : 48,5 Mb
Release : 2018-02-16
Category : Medical
ISBN : 9789811073472

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Protein-Protein and Domain-Domain Interactions by Pandjassarame Kangueane,Christina Nilofer Pdf

This book illustrates the importance and significance of the molecular (physical and chemical) and evolutionary (gene fusion) principles of protein-protein and domain-domain interactions towards the understanding of cell division, disease mechanism and target definition in drug discovery. It describes the complex issues associated with this phenomenon using cutting edge advancement in Bioinformatics and Bioinformation Discovery. The chapters provide current information pertaining to the types of protein-protein complexes (homodimers, heterodimers, multimer complexes) in context with various specific and sensitive biological functions. The significance of such complex formation in human biology in the light of molecular evolution is also highlighted using several examples. The chapters also describe recent advancements on the molecular principles of protein-protein interaction with reference to evolution towards target identification in drug discovery. Finally, the book also elucidates a comprehensive yet a representative description of a large number of challenges associated with the molecular interaction of proteins.