Fundamentals of Network Biology 1st Edition Wenjun Zhang

Fundamentals of Network Biology 1st Edition
Wenjun Zhang pdf download
https://ebookfinal.com/download/fundamentals-of-network-
biology-1st-edition-wenjun-zhang/
Explore and download more ebooks or textbooks
at ebookfinal.com

Here are some recommended products for you. Click the link to
download, or explore more at ebookfinal
Mites of Greenhouses Identification Biology and Control
First Edition Zhi-Qiang Zhang
https://ebookfinal.com/download/mites-of-greenhouses-identification-
biology-and-control-first-edition-zhi-qiang-zhang/
Wiley Pathways Network Security Fundamentals 1st Edition
Eric Cole
https://ebookfinal.com/download/wiley-pathways-network-security-
fundamentals-1st-edition-eric-cole/
Network Fundamentals CCNA Exploration Companion Guide 4th
Edition Mark Dye
https://ebookfinal.com/download/network-fundamentals-ccna-exploration-
companion-guide-4th-edition-mark-dye/
Fundamentals of Cellular Network Planning and Optimisation
2G 2 5G 3G Evolution to 4G 1st Edition Ajay R. Mishra
https://ebookfinal.com/download/fundamentals-of-cellular-network-
planning-and-optimisation-2g-2-5g-3g-evolution-to-4g-1st-edition-ajay-
r-mishra/

Quantum Mechanics 1st Edition Guo-Ping Zhang
https://ebookfinal.com/download/quantum-mechanics-1st-edition-guo-
ping-zhang/
Fundamentals of Geomorphology Fundamentals of Physical
Geography Second Edition Richar Huggett
https://ebookfinal.com/download/fundamentals-of-geomorphology-
fundamentals-of-physical-geography-second-edition-richar-huggett/
Modern Signal Processing 1st Edition Xian-Da Zhang
https://ebookfinal.com/download/modern-signal-processing-1st-edition-
xian-da-zhang/
Advanced Hierarchical Nanostructured Materials 1st Edition
Qiang Zhang
https://ebookfinal.com/download/advanced-hierarchical-nanostructured-
materials-1st-edition-qiang-zhang/
Fundamentals of metallurgy 1st Edition Seetharaman
https://ebookfinal.com/download/fundamentals-of-metallurgy-1st-
edition-seetharaman/

Fundamentals of Network Biology 1st Edition Wenjun
Zhang Digital Instant Download
Author(s): WenJun Zhang
ISBN(s): 9781786345080, 1786345080
Edition: 1
File Details: PDF, 6.89 MB
Year: 2010
Language: english

Fundamentals of
Network Biology
Q0149hc_9781786345080_TP.indd 1 13/10/17 5:11 PM

Other World Scientific Titles by the Author
Computational Ecology: Artificial Neural Networks and
Their Applications
ISBN: 978-981-4282-62-8
Computational Ecology: Graphs, Networks and Agent-based Modeling
ISBN: 978-981-4343-61-9
Selforganizology: The Science of Self-Organization
ISBN: 978-981-4699-48-8
Sajani - Q0149 - Fundamentals of Network Biology.indd 1 20-04-18 10:03:29 AM

NEW JERSEY • LONDON • SINGAPORE • BEIJING • SHANGHAI • HONG KONG • TAIPEI • CHENNAI • TOKYO
World Scientific
Fundamentals of
Network Biology
WenJun Zhang
Sun Yat-sen University, China
Q0149hc_9781786345080_TP.indd 2 13/10/17 5:11 PM

Published by
World Scientific Publishing Europe Ltd.
57 Shelton Street, Covent Garden, London WC2H 9HE
Head office: 5 Toh Tuck Link, Singapore 596224
USA office: 27 Warren Street, Suite 401-402, Hackensack, NJ 07601
Library of Congress Cataloging-in-Publication Data
Names: Zhang, WenJun, 1963– author.
Title: Fundamentals of network biology / [by] WenJun Zhang (Sun Yat-sen University, China).
Description: New Jersey : World Scientific, [2018] | Includes bibliographical references.
Identifiers: LCCN 2017060719 | ISBN 9781786345080 (hc : alk. paper)
Subjects: LCSH: Biometry--Data processing. | Systems biology--Methodology. | Bioinformatics.
Classification: LCC QH323.5 .Z45 2018 | DDC 570.1/5195--dc23
LC record available at https://lccn.loc.gov/2017060719
British Library Cataloguing-in-Publication Data
A catalogue record for this book is available from the British Library.
Copyright © 2018 by World Scientific Publishing Europe Ltd.
All rights reserved. This book, or parts thereof, may not be reproduced in any form or by any means,
electronic or mechanical, including photocopying, recording or any information storage and retrieval
system now known or to be invented, without written permission from the Publisher.
For photocopying of material in this volume, please pay a copying fee through the Copyright Clearance
Center, Inc., 222 Rosewood Drive, Danvers, MA 01923, USA. In this case permission to photocopy
is not required from the publisher.
For any available supplementary material, please visit
http://www.worldscientific.com/worldscibooks/10.1142/Q0149#t=suppl
Desk Editors: Dr. Sree Meenakshi Sajani/Jennifer Brough/Koe Shi Ying
Typeset by Stallion Press
Email: enquiries@stallionpress.com
Printed in Singapore
Sajani - Q0149 - Fundamentals of Network Biology.indd 2 20-04-18 10:03:29 AM

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page v
Preface
Why have human cancers not been conquered so far?
Why does brain research emphasize the structure and function of
neurons and brain networks?
Why did the successful cases of drug development meet a signiﬁ-
cant reduction in the past years?
Can the traditional Chinese medicine form a theoretical basis
coincident with the modern science?
Why has ecological structure and some of the core ecological prob-
lems not yet been solved so far?
A lot of research has demonstrated that many problems in
life sciences, medicine, and ecological science have been unable to
be resolved relying on the local research of single factors, single
molecules, and single reactions, and must be analyzed globally and
systematically at the level of networks. In recent years, these methods
and theories of network biology have been successfully used to solve
problems such as ecological structure, coextinction, drug discovery,
and so on, which have made signiﬁcant progress and breakthroughs.
Network science has begun to become the core theory and methodol-
ogy for dealing with complex biological systems. Network science
is mainly based on graph theory, topology, statistics, operational
research, computational science, etc. It has been successfully applied
in many areas, including statistical physics, particle physics, com-
puter science, internet, biology, ecology, economics, sociology, etc.
Network science focuses on the network structure, network dynamics
and network functionality, etc.
v

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page vi
vi Preface
The initial concept of network biology was first put forward
by Barabasi and Oltvai in 2004. Since then network biology has
developed rapidly. In recent years, I further expanded the scope and
contents of network biology. So far, the scientific frame of network
biology has been basically shaped. It is becoming a new frontier sci-
ence that needs to be understood by university students and is a
central research field for researchers.
Up till now, the research in network biology is mainly concen-
trated in such biological networks as protein–protein interactions,
gene regulatory networks, metabolic networks, signaling networks,
neural networks, food webs, etc. At the micro- and macro-level, all
kinds of these biological networks offer a variety of sources for the
development of theory and methods of network biology.
At present, studies of biological networks mainly focus on the
following basic aspects: (1) Network structure: connection structure,
degree distribution, network modules, patterns, motifs, robustness
and stability of biological networks, etc. (2) Network dynamics:
rule-based network evolution, biological adaptability of network evo-
lution; dynamics of biological networks over time, among which net-
work model for continuous variables can be used to analyze phase
diagram, to conduct sensitivity analysis, and bifurcation analysis,
etc. (3) Network control: positive and negative feedbacks, contin-
uous/discrete time control, time delay control, etc. (4) Network
design: design and formulation of biological networks. (5) Other
topics.
In general, the scope and topics of network biology focus on, but
are not limited to the following areas:
• Theories, algorithms, and programs of network analysis.
• Evolution, dynamics, optimization and control of biological net-
works.
• Network construction and link prediction.
• Network topology, topological analysis, relationship between topo-
logical structure and network functions, sensitivity analysis, net-
work robustness, and stability.
• Network flow analysis.
• Design and formulation of biological networks.

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page vii
Preface vii
• Ecological networks, food webs and natural equilibrium, coevolu-
tion, coextinction, biodiversity conservation.
• Metabolic networks, protein–protein interaction networks, bio-
chemical reaction networks, gene networks, transcriptional regula-
tory networks, cell cycle networks, phylogenetic networks, network
motifs, and modules.
• Physiological networks, social networks, epidemiological networks.
• Network regulation of metabolic processes, human diseases, and
ecological systems.
• System complexity, self-organized systems, emergence of biological
systems, agent-based modeling, neural network modeling and other
network-based modeling, etc.
• Big data analytics of biological networks.
This book is the first comprehensive book on network biology.
From this integrated and self-contained book, scientists, university
teachers, and students will be provided with an in-depth and com-
plete insight on knowledge, methodology, and recent advances of net-
work biology. Matlab codes are presented in the book for easy use.
It covers such contents as scientific fundamentals of network biol-
ogy, construction and analysis of biological networks, methods for
identifying crucial nodes in biological networks, link prediction, flow
analysis, network dynamics and evolution, network simulation and
control, ecological networks, social networks, molecular and cellular
networks, network pharmacology and network toxicology, big data
analytics, etc. From this unique and self-contained book, undergrad-
uates, postgraduates, teachers, and researchers will thoroughly have
an in-depth and complete insight on network biology. It is a valuable
book for high-level undergraduates, postgraduates and scientists in
the areas of biology, ecology, environmental sciences, medical science,
computational science, applied mathematics, and social science, etc.

b2530 International Strategic Relations and China’s National Security: World at the Crossroads
b2530_FM.indd 6 01-Sep-16 11:03:06 AM
This page intentionally left blank

April 28, 2018 10:40 Fundamentals of Network Biology 9in x 6in b3136-fm page ix
About the Author
Professor WenJun Zhang graduated from
Northwestern Agricultural University in 1984,
and earned his PhD degree in 1993. Professor
Zhang was a postdoctoral fellow at Sun Yat-sen
University during 1994–1996, and postdoctoral
fellow and project scientist of International Rice
Research Institute during 1997–2000. He was a
visiting scientist to University of Arizona (1996)
and Wageningen University (2002). He is the
president of International Society of Network
Biology and International Society of Computational Ecology. He is
also the editor-in-chief of international journals Network Biology,
Computational Ecology and Software, etc. Professor Zhang has pub-
lished many papers and books. He is now working on ecology and
biological science.
ix

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page xi
Acknowledgments
I am so grateful to the people who gave me guidance: Professors
ShiZe Wang, HonSheng Shang, ZhenQi Li, DeXiang Gu, and KG
Schoenly. I am also indebted to the people who contributed their
valuable suggestions: Professors Yi Pang, RunJie Zhang, Yan Zhang,
Jie Zhang, ChangLong Shu, and YanHong Qi. Special thanks is given
to the anonymous reviewers for their comments and suggestions on
this book. I thank Qi Zhang for her help in the manuscript prepa-
ration. This book is supported by The National Key Research and
Development Program of China (2017YFD0201204), High-Quality
Textbook Network Biology Project for Engineering of Teaching Qual-
ity and Teaching Reform of Undergraduate Universities of Guang-
dong Province (2015.6–2018.6), China, and Guangzhou Science and
Technology Project (No. 201707020003).
xi

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page xiii
Contents
Preface v
About the Author ix
Acknowledgments xi
Part 1 Mathematical Fundamentals 1
1 Fundamentals of Graph Theory 3
1.1 Deﬁnitions and Concepts . . . . . . . . . . . . . . . 3
1.2 Topological Deﬁnition of Graph . . . . . . . . . . . 14
2 Graph Algorithms 21
2.1 Matrix Representation of Graphs . . . . . . . . . . . 21
2.2 Computer Storage of Graph . . . . . . . . . . . . . 30
2.3 Graph Algorithms . . . . . . . . . . . . . . . . . . . 32
3 Fundamentals of Network Theory 63
3.1 Network Topology . . . . . . . . . . . . . . . . . . . 64
3.2 Random and Complex Networks . . . . . . . . . . . 66
3.3 Network Analysis . . . . . . . . . . . . . . . . . . . 70
3.4 Basic Algorithms . . . . . . . . . . . . . . . . . . . . 71
4 Other Fundamentals 81
4.1 Bayes’ Rule . . . . . . . . . . . . . . . . . . . . . . . 81
xiii

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page xiv
xiv Contents
4.2 Linear Regression . . . . . . . . . . . . . . . . . . . 83
4.3 Randomization, Bootstrap, and Monte Carlo
Methods . . . . . . . . . . . . . . . . . . . . . . . . 84
4.4 Stochastic Process . . . . . . . . . . . . . . . . . . . 90
4.5 Optimization Methods . . . . . . . . . . . . . . . . 90
4.6 Functional Analysis . . . . . . . . . . . . . . . . . . 94
4.7 Algebraic Topology . . . . . . . . . . . . . . . . . . 98
4.8 Entropy of Systems . . . . . . . . . . . . . . . . . . 98
Part 2 Crucial Nodes/Subnetworks/Modules,
Network Types, and Structural
Comparison 103
5 Identiﬁcation of Crucial Nodes and
Subnetworks/Modules 105
5.1 Features of Crucial Nodes . . . . . . . . . . . . . . . 105
5.2 Indices and Methods of Crucial Nodes . . . . . . . . 106
5.3 Further Discussion . . . . . . . . . . . . . . . . . . . 117
5.4 Application Examples . . . . . . . . . . . . . . . . . 118
5.5 Identiﬁcation of Subnetworks/Modules . . . . . . . 121
6 Detection of Network Types 129
6.1 Methods . . . . . . . . . . . . . . . . . . . . . . . . 130
6.2 Application Example . . . . . . . . . . . . . . . . . 135
7 Comparison of Network Structure 139
7.1 Nonparametric Statistic Comparison
of Network Structure . . . . . . . . . . . . . . . . . 139
7.2 Nonparametric Statistic Comparison
of Community Structure . . . . . . . . . . . . . . . 146
7.3 Network Matrix-based Methods . . . . . . . . . . . 152
7.4 Other Methods . . . . . . . . . . . . . . . . . . . . . 154

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page xv
Contents xv
Part 3 Network Dynamics, Evolution,
Simulation, and Control 155
8 Network Dynamics 157
8.1 Diﬀerential Equations and Motion Stability . . . . . 157
8.2 Dynamics of Some Networks . . . . . . . . . . . . . 164
9 Network Robustness and Sensitivity Analysis 175
9.1 Network Robustness . . . . . . . . . . . . . . . . . . 175
9.2 Sensitivity Analysis . . . . . . . . . . . . . . . . . . 185
10 Network Control 195
10.1 Conventional Control . . . . . . . . . . . . . . . . . 195
10.2 New Perspectives of Network Control . . . . . . . . 201
11 Network Evolution 203
11.1 A Generalized Network Evolution Model
for Community Assembly Dynamics . . . . . . . . . 203
11.2 A Model for Perturbed Food Web Dynamics . . . . 214
11.3 A Network Evolution Algorithm Based
on Node Attraction . . . . . . . . . . . . . . . . . . 215
11.4 Phase Recognition of Network Evolution . . . . . . 221
12 Cellular Automata 229
12.1 Classiﬁcation of Cellular Automata . . . . . . . . . 230
12.2 Algorithms of Cellular Automata . . . . . . . . . . . 232
12.3 Some Cases of Cellular Automata . . . . . . . . . . 232
13 Self-Organization 237
13.1 Basic Concept of Self-Organization . . . . . . . . . 237
13.2 Theories and Principles of Self-Organization . . . . 239
13.3 Existing Algorithms of Self-Organization . . . . . . 249
13.4 Self-Organization in Life Sciences . . . . . . . . . . 249
13.5 Selforganizology . . . . . . . . . . . . . . . . . . . . 252

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page xvi
xvi Contents
14 Agent-based Modeling 255
14.1 Complex Systems . . . . . . . . . . . . . . . . . . . 255
14.2 Principle and Methods of Agent-based
Modeling . . . . . . . . . . . . . . . . . . . . . . . . 258
Part 4 Flow Analysis 263
15 Flow/Flux Analysis 265
15.1 Flux Balance Analysis . . . . . . . . . . . . . . . . . 265
15.2 Flow Indices for Ecological Network
Analysis . . . . . . . . . . . . . . . . . . . . . . . . 283
Part 5 Link and Node Prediction 291
16 Link Prediction: Sampling-based Methods 293
16.1 Linear Correlation Analysis for Finding
Interactions . . . . . . . . . . . . . . . . . . . . . . . 293
16.2 Partial Correlation of General Correlation
Measures . . . . . . . . . . . . . . . . . . . . . . . . 301
16.3 Combined Use of Linear Correlation
and Rank Correlation: A Hierarchical Method
for Finding Interactions . . . . . . . . . . . . . . . . 313
17 Link Prediction: Structure- and Perturbation-based
Methods 321
17.1 Methods . . . . . . . . . . . . . . . . . . . . . . . . 322
17.2 Performance Assessment of Link Prediction
Methods . . . . . . . . . . . . . . . . . . . . . . . . 339
18 Link Prediction: Node-Similarity-based Methods 345
18.1 Link Prediction Based on Node Similarity . . . . . . 345
18.2 Screening Node Attributes that Signiﬁcantly
Inﬂuence Node Centrality . . . . . . . . . . . . . . . 351

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page xvii
Contents xvii
19 Node Prediction 361
19.1 Methods . . . . . . . . . . . . . . . . . . . . . . . . 361
19.2 Application Example . . . . . . . . . . . . . . . . . 363
Part 6 Network Construction 365
20 Construction of Biological Networks 367
20.1 Prediction Methods of Protein–Protein
Interactions . . . . . . . . . . . . . . . . . . . . . . . 367
20.2 Gene Coexpression Network Analysis . . . . . . . . 370
20.3 Classiﬁcation-based Machine Learning . . . . . . . . 372
20.4 Statistic Network . . . . . . . . . . . . . . . . . . . 374
20.5 Homogeneity Test of Samples and Sampling
Completeness . . . . . . . . . . . . . . . . . . . . . . 376
20.6 Network Construction Based on Power-Law
or Exponential-Law Distribution of Node
Degree . . . . . . . . . . . . . . . . . . . . . . . . . 381
Part 7 Pharmacological and Toxicological
Networks 389
21 Network Pharmacology and Toxicology 391
21.1 Network Pharmacology . . . . . . . . . . . . . . . . 391
21.2 Network Toxicology . . . . . . . . . . . . . . . . . . 404
Part 8 Ecological Networks 413
22 Food Webs 415
22.1 Fundamentals of Food Webs . . . . . . . . . . . . . 416
22.2 Food Web Models . . . . . . . . . . . . . . . . . . . 422
22.3 Arthropod Food Webs . . . . . . . . . . . . . . . . . 435

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page xviii
xviii Contents
Part 9 Microscopic Networks 439
23 Molecular and Cellular Networks 441
23.1 Metabolic Pathway of Nonalcoholic Fatty
Liver Disease . . . . . . . . . . . . . . . . . . . . . . 442
23.2 E. coli Transcriptional Regulatory Network . . . . . 444
23.3 Common Disease Regulatory Network
for Metabolic Disorders . . . . . . . . . . . . . . . . 447
23.4 Find Molecular Pathological Events in Diﬀerent
Cancer Tissues . . . . . . . . . . . . . . . . . . . . . 449
23.5 Crucial Metabolites/Reactions in Tumor Signaling
Networks . . . . . . . . . . . . . . . . . . . . . . . . 452
23.6 Brain Network . . . . . . . . . . . . . . . . . . . . . 453
Part 10 Social Networks 459
24 Social Network Analysis 461
24.1 Deﬁnition of Social Networks . . . . . . . . . . . . . 461
24.2 Network Criminology . . . . . . . . . . . . . . . . . 467
Part 11 Software 469
25 Software for Network Analysis 471
25.1 Software for Comprehensive Network
Analysis . . . . . . . . . . . . . . . . . . . . . . . . 471
25.2 Software for Network Layout and Others . . . . . . 485
Part 12 Big Data Analytics 489
26 Big Data Analytics for Network Biology 491
26.1 Fundamentals of Big Data Analytics . . . . . . . . . 492

April 20, 2018 10:53 Fundamentals of Network Biology 9in x 6in b3136-fm page xix
Contents xix
26.2 Text Mining with Python and R . . . . . . . . . . . 496
26.3 Big Data Analytics of Medicinal Attributes
and Functions of Chinese Herbal Medicines . . . . . 499
References 511
Index 543

Discovering Diverse Content Through
Random Scribd Documents

This eBook is for the use of anyone anywhere in the United
States and most other parts of the world at no cost and with
almost no restrictions whatsoever. You may copy it, give it away
or re-use it under the terms of the Project Gutenberg License
included with this eBook or online at www.gutenberg.org. If you
are not located in the United States, you will have to check the
laws of the country where you are located before using this
eBook.
1.E.2. If an individual Project Gutenberg™ electronic work is derived
from texts not protected by U.S. copyright law (does not contain a
notice indicating that it is posted with permission of the copyright
holder), the work can be copied and distributed to anyone in the
United States without paying any fees or charges. If you are
redistributing or providing access to a work with the phrase “Project
Gutenberg” associated with or appearing on the work, you must
comply either with the requirements of paragraphs 1.E.1 through
1.E.7 or obtain permission for the use of the work and the Project
Gutenberg™ trademark as set forth in paragraphs 1.E.8 or 1.E.9.
1.E.3. If an individual Project Gutenberg™ electronic work is posted
with the permission of the copyright holder, your use and distribution
must comply with both paragraphs 1.E.1 through 1.E.7 and any
additional terms imposed by the copyright holder. Additional terms
will be linked to the Project Gutenberg™ License for all works posted
with the permission of the copyright holder found at the beginning
of this work.
1.E.4. Do not unlink or detach or remove the full Project
Gutenberg™ License terms from this work, or any files containing a
part of this work or any other work associated with Project
Gutenberg™.
1.E.5. Do not copy, display, perform, distribute or redistribute this
electronic work, or any part of this electronic work, without
prominently displaying the sentence set forth in paragraph 1.E.1

with active links or immediate access to the full terms of the Project
Gutenberg™ License.
1.E.6. You may convert to and distribute this work in any binary,
compressed, marked up, nonproprietary or proprietary form,
including any word processing or hypertext form. However, if you
provide access to or distribute copies of a Project Gutenberg™ work
in a format other than “Plain Vanilla ASCII” or other format used in
the official version posted on the official Project Gutenberg™ website
(www.gutenberg.org), you must, at no additional cost, fee or
expense to the user, provide a copy, a means of exporting a copy, or
a means of obtaining a copy upon request, of the work in its original
“Plain Vanilla ASCII” or other form. Any alternate format must
include the full Project Gutenberg™ License as specified in
paragraph 1.E.1.
1.E.7. Do not charge a fee for access to, viewing, displaying,
performing, copying or distributing any Project Gutenberg™ works
unless you comply with paragraph 1.E.8 or 1.E.9.
1.E.8. You may charge a reasonable fee for copies of or providing
access to or distributing Project Gutenberg™ electronic works
provided that:
• You pay a royalty fee of 20% of the gross profits you derive
from the use of Project Gutenberg™ works calculated using the
method you already use to calculate your applicable taxes. The
fee is owed to the owner of the Project Gutenberg™ trademark,
but he has agreed to donate royalties under this paragraph to
the Project Gutenberg Literary Archive Foundation. Royalty
payments must be paid within 60 days following each date on
which you prepare (or are legally required to prepare) your
periodic tax returns. Royalty payments should be clearly marked
as such and sent to the Project Gutenberg Literary Archive
Foundation at the address specified in Section 4, “Information

about donations to the Project Gutenberg Literary Archive
Foundation.”
• You provide a full refund of any money paid by a user who
notifies you in writing (or by e-mail) within 30 days of receipt
that s/he does not agree to the terms of the full Project
Gutenberg™ License. You must require such a user to return or
destroy all copies of the works possessed in a physical medium
and discontinue all use of and all access to other copies of
Project Gutenberg™ works.
• You provide, in accordance with paragraph 1.F.3, a full refund of
any money paid for a work or a replacement copy, if a defect in
the electronic work is discovered and reported to you within 90
days of receipt of the work.
• You comply with all other terms of this agreement for free
distribution of Project Gutenberg™ works.
1.E.9. If you wish to charge a fee or distribute a Project Gutenberg™
electronic work or group of works on different terms than are set
forth in this agreement, you must obtain permission in writing from
the Project Gutenberg Literary Archive Foundation, the manager of
the Project Gutenberg™ trademark. Contact the Foundation as set
forth in Section 3 below.
1.F.
1.F.1. Project Gutenberg volunteers and employees expend
considerable effort to identify, do copyright research on, transcribe
and proofread works not protected by U.S. copyright law in creating
the Project Gutenberg™ collection. Despite these efforts, Project
Gutenberg™ electronic works, and the medium on which they may
be stored, may contain “Defects,” such as, but not limited to,
incomplete, inaccurate or corrupt data, transcription errors, a
copyright or other intellectual property infringement, a defective or

damaged disk or other medium, a computer virus, or computer
codes that damage or cannot be read by your equipment.
1.F.2. LIMITED WARRANTY, DISCLAIMER OF DAMAGES - Except for
the “Right of Replacement or Refund” described in paragraph 1.F.3,
the Project Gutenberg Literary Archive Foundation, the owner of the
Project Gutenberg™ trademark, and any other party distributing a
Project Gutenberg™ electronic work under this agreement, disclaim
all liability to you for damages, costs and expenses, including legal
fees. YOU AGREE THAT YOU HAVE NO REMEDIES FOR
NEGLIGENCE, STRICT LIABILITY, BREACH OF WARRANTY OR
BREACH OF CONTRACT EXCEPT THOSE PROVIDED IN PARAGRAPH
1.F.3. YOU AGREE THAT THE FOUNDATION, THE TRADEMARK
OWNER, AND ANY DISTRIBUTOR UNDER THIS AGREEMENT WILL
NOT BE LIABLE TO YOU FOR ACTUAL, DIRECT, INDIRECT,
CONSEQUENTIAL, PUNITIVE OR INCIDENTAL DAMAGES EVEN IF
YOU GIVE NOTICE OF THE POSSIBILITY OF SUCH DAMAGE.
1.F.3. LIMITED RIGHT OF REPLACEMENT OR REFUND - If you
discover a defect in this electronic work within 90 days of receiving
it, you can receive a refund of the money (if any) you paid for it by
sending a written explanation to the person you received the work
from. If you received the work on a physical medium, you must
return the medium with your written explanation. The person or
entity that provided you with the defective work may elect to provide
a replacement copy in lieu of a refund. If you received the work
electronically, the person or entity providing it to you may choose to
give you a second opportunity to receive the work electronically in
lieu of a refund. If the second copy is also defective, you may
demand a refund in writing without further opportunities to fix the
problem.
1.F.4. Except for the limited right of replacement or refund set forth
in paragraph 1.F.3, this work is provided to you ‘AS-IS’, WITH NO
OTHER WARRANTIES OF ANY KIND, EXPRESS OR IMPLIED,

INCLUDING BUT NOT LIMITED TO WARRANTIES OF
MERCHANTABILITY OR FITNESS FOR ANY PURPOSE.
1.F.5. Some states do not allow disclaimers of certain implied
warranties or the exclusion or limitation of certain types of damages.
If any disclaimer or limitation set forth in this agreement violates the
law of the state applicable to this agreement, the agreement shall be
interpreted to make the maximum disclaimer or limitation permitted
by the applicable state law. The invalidity or unenforceability of any
provision of this agreement shall not void the remaining provisions.
1.F.6. INDEMNITY - You agree to indemnify and hold the Foundation,
the trademark owner, any agent or employee of the Foundation,
anyone providing copies of Project Gutenberg™ electronic works in
accordance with this agreement, and any volunteers associated with
the production, promotion and distribution of Project Gutenberg™
electronic works, harmless from all liability, costs and expenses,
including legal fees, that arise directly or indirectly from any of the
following which you do or cause to occur: (a) distribution of this or
any Project Gutenberg™ work, (b) alteration, modification, or
additions or deletions to any Project Gutenberg™ work, and (c) any
Defect you cause.
Section 2. Information about the Mission
of Project Gutenberg™
Project Gutenberg™ is synonymous with the free distribution of
electronic works in formats readable by the widest variety of
computers including obsolete, old, middle-aged and new computers.
It exists because of the efforts of hundreds of volunteers and
donations from people in all walks of life.
Volunteers and financial support to provide volunteers with the
assistance they need are critical to reaching Project Gutenberg™’s
goals and ensuring that the Project Gutenberg™ collection will

remain freely available for generations to come. In 2001, the Project
Gutenberg Literary Archive Foundation was created to provide a
secure and permanent future for Project Gutenberg™ and future
generations. To learn more about the Project Gutenberg Literary
Archive Foundation and how your efforts and donations can help,
see Sections 3 and 4 and the Foundation information page at
www.gutenberg.org.
Section 3. Information about the Project
Gutenberg Literary Archive Foundation
The Project Gutenberg Literary Archive Foundation is a non-profit
501(c)(3) educational corporation organized under the laws of the
state of Mississippi and granted tax exempt status by the Internal
Revenue Service. The Foundation’s EIN or federal tax identification
number is 64-6221541. Contributions to the Project Gutenberg
Literary Archive Foundation are tax deductible to the full extent
permitted by U.S. federal laws and your state’s laws.
The Foundation’s business office is located at 809 North 1500 West,
Salt Lake City, UT 84116, (801) 596-1887. Email contact links and up
to date contact information can be found at the Foundation’s website
and official page at www.gutenberg.org/contact
Section 4. Information about Donations to
the Project Gutenberg Literary Archive
Foundation
Project Gutenberg™ depends upon and cannot survive without
widespread public support and donations to carry out its mission of
increasing the number of public domain and licensed works that can
be freely distributed in machine-readable form accessible by the
widest array of equipment including outdated equipment. Many

small donations ($1 to $5,000) are particularly important to
maintaining tax exempt status with the IRS.
The Foundation is committed to complying with the laws regulating
charities and charitable donations in all 50 states of the United
States. Compliance requirements are not uniform and it takes a
considerable effort, much paperwork and many fees to meet and
keep up with these requirements. We do not solicit donations in
locations where we have not received written confirmation of
compliance. To SEND DONATIONS or determine the status of
compliance for any particular state visit www.gutenberg.org/donate.
While we cannot and do not solicit contributions from states where
we have not met the solicitation requirements, we know of no
prohibition against accepting unsolicited donations from donors in
such states who approach us with offers to donate.
International donations are gratefully accepted, but we cannot make
any statements concerning tax treatment of donations received from
outside the United States. U.S. laws alone swamp our small staff.
Please check the Project Gutenberg web pages for current donation
methods and addresses. Donations are accepted in a number of
other ways including checks, online payments and credit card
donations. To donate, please visit: www.gutenberg.org/donate.
Section 5. General Information About
Project Gutenberg™ electronic works
Professor Michael S. Hart was the originator of the Project
Gutenberg™ concept of a library of electronic works that could be
freely shared with anyone. For forty years, he produced and
distributed Project Gutenberg™ eBooks with only a loose network of
volunteer support.

Project Gutenberg™ eBooks are often created from several printed
editions, all of which are confirmed as not protected by copyright in
the U.S. unless a copyright notice is included. Thus, we do not
necessarily keep eBooks in compliance with any particular paper
edition.
Most people start at our website which has the main PG search
facility: www.gutenberg.org.
This website includes information about Project Gutenberg™,
including how to make donations to the Project Gutenberg Literary
Archive Foundation, how to help produce our new eBooks, and how
to subscribe to our email newsletter to hear about new eBooks.

Welcome to our website – the ideal destination for book lovers and
knowledge seekers. With a mission to inspire endlessly, we offer a
vast collection of books, ranging from classic literary works to
specialized publications, self-development books, and children's
literature. Each book is a new journey of discovery, expanding
knowledge and enriching the soul of the reade
Our website is not just a platform for buying books, but a bridge
connecting readers to the timeless values of culture and wisdom. With
an elegant, user-friendly interface and an intelligent search system,
we are committed to providing a quick and convenient shopping
experience. Additionally, our special promotions and home delivery
services ensure that you save time and fully enjoy the joy of reading.
Let us accompany you on the journey of exploring knowledge and
personal growth!
ebookfinal.com

Fundamentals of Network Biology 1st Edition Wenjun Zhang

More Related Content

Similar to Fundamentals of Network Biology 1st Edition Wenjun Zhang (20)

Recently uploaded (20)

Fundamentals of Network Biology 1st Edition Wenjun Zhang