Algorithmic and artificial intelligence methods for protein bioinformatics / / edited by Yi Pan, Jianxin Wang, Min Li |
Edizione | [First edition.] |
Pubbl/distr/stampa | Hoboken, New Jersey : , : Wiley : , : IEEE Computer Society, , [2014] |
Descrizione fisica | 1 online resource (708 p.) |
Disciplina | 572/.6 |
Collana | Wiley series in bioinformatics |
Soggetto topico |
Proteins - Analysis - Mathematics
Bioinformatics Artificial intelligence |
ISBN |
1-118-56781-1
1-118-56786-2 1-118-56792-7 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Nota di contenuto |
PREFACE ix -- CONTRIBUTORS xv -- I FROM PROTEIN SEQUENCE TO STRUCTURE -- 1 EMPHASIZING THE ROLE OF PROTEINS IN CONSTRUCTION OF THE DEVELOPMENTAL GENETIC TOOLKIT IN PLANTS 3 -- Anamika Basu and Anasua Sarkar -- 2 PROTEIN SEQUENCE MOTIF INFORMATION DISCOVERY 41 -- Bernard Chen -- 3 IDENTIFYING CALCIUM BINDING SITES IN PROTEINS 57 -- Hui Liu and Hai Deng -- 4 REVIEW OF IMBALANCED DATA LEARNING FOR PROTEIN METHYLATION PREDICTION 71 -- Zejin Ding and Yan-Qing Zhang -- 5 ANALYSIS AND PREDICTION OF PROTEIN POSTTRANSLATIONAL MODIFICATION SITES 91 -- Jianjiong Gao, Qiuming Yao, Curtis Harrison Bollinger, and Dong Xu -- II PROTEIN ANALYSIS AND PREDICTION -- 6 PROTEIN LOCAL STRUCTURE PREDICTION 109 -- Wei Zhong, Jieyue He, Robert W. Harrison, Phang C. Tai, and Yi Pan -- 7 PROTEIN STRUCTURAL BOUNDARY PREDICTION 125 -- Gulsah Altun -- 8 PREDICTION OF RNA BINDING SITES IN PROTEINS 153 -- Zhi-Ping Liu and Luonan Chen -- 9 ALGORITHMIC FRAMEWORKS FOR PROTEIN DISULFIDE CONNECTIVITY DETERMINATION 171 -- Rahul Singh, William Murad, and Timothy Lee -- 10 PROTEIN CONTACT ORDER PREDICTION: UPDATE 205 -- Yi Shi, Jianjun Zhou, David S. Wishart, and Guohui Lin -- 11 PROGRESS IN PREDICTION OF OXIDATION STATES OF CYSTEINES VIA COMPUTATIONAL APPROACHES 217 -- Aiguo Du, Hui Liu, Hai Deng, and Yi Pan -- 12 COMPUTATIONAL METHODS IN CRYOELECTRON MICROSCOPY 3D STRUCTURE RECONSTRUCTION 231 -- Fa Zhang, Xiaohua Wan, and Zhiyong Liu -- III PROTEIN STRUCTURE ALIGNMENT AND ASSESSMENT -- 13 FUNDAMENTALS OF PROTEIN STRUCTURE ALIGNMENT 255 -- Mark Brandt, Allen Holder, and Yosi Shibberu -- 14 DISCOVERING 3D PROTEIN STRUCTURES FOR OPTIMAL STRUCTURE ALIGNMENT 281 -- TomáS Novosád, Václav Sna-Sel, Ajith Abraham, and Jack Y. Yang -- 15 ALGORITHMIC METHODOLOGIES FOR DISCOVERY OF NONSEQUENTIAL PROTEIN STRUCTURE SIMILARITIES 299 -- Bhaskar DasGupta, Joseph Dundas, and Jie Liang -- 16 FRACTAL RELATED METHODS FOR PREDICTING PROTEIN STRUCTURE CLASSES AND FUNCTIONS 317 -- Zu-Guo Yu, Vo Anh, Jian-Yi Yang, and Shao-Ming Zhu.
17 PROTEIN TERTIARY MODEL ASSESSMENT 339 -- Anjum Chida, Robert W. Harrison, and Yan-Qing Zhang -- IV PROTEIN-PROTEIN ANALYSIS OF BIOLOGICAL NETWORKS -- 18 NETWORK ALGORITHMS FOR PROTEIN INTERACTIONS 357 -- Suely Oliveira -- 19 IDENTIFYING PROTEIN COMPLEXES FROM PROTEIN-PROTEIN INTERACTION NETWORKS 377 -- Jianxin Wang, Min Li, and Xiaoqing Peng -- 20 PROTEIN FUNCTIONAL MODULE ANALYSIS WITH PROTEIN-PROTEIN INTERACTION (PPI) NETWORKS 393 -- Lei Shi, Xiujuan Lei, and Aidong Zhang -- 21 EFFICIENT ALIGNMENTS OF METABOLIC NETWORKS WITH BOUNDED TREEWIDTH 413 -- Qiong Cheng, Piotr Berman, Robert W. Harrison, and Alexander Zelikovsky -- 22 PROTEIN-PROTEIN INTERACTION NETWORK ALIGNMENT: ALGORITHMS AND TOOLS 431 -- Valeria Fionda -- V APPLICATION OF PROTEIN BIOINFORMATICS -- 23 PROTEIN-RELATED DRUG ACTIVITY COMPARISON USING SUPPORT VECTOR MACHINES 451 -- Wei Zhong and Jieyue He -- 24 FINDING REPETITIONS IN BIOLOGICAL NETWORKS: CHALLENGES, TRENDS, AND APPLICATIONS 461 -- Simona E. Rombo -- 25 MeTaDoR: ONLINE RESOURCE AND PREDICTION SERVER FOR MEMBRANE TARGETING PERIPHERAL PROTEINS 481 -- Nitin Bhardwaj, Morten Källberg, Wonhwa Cho, and Hui Lu -- 26 BIOLOGICAL NETWORKS-BASED ANALYSIS OF GENE EXPRESSION SIGNATURES 495 -- Gang Chen and Jianxin Wang -- INDEX 507. |
Record Nr. | UNINA-9910138993603321 |
Hoboken, New Jersey : , : Wiley : , : IEEE Computer Society, , [2014] | ||
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Lo trovi qui: Univ. Federico II | ||
|
Algorithmic and artificial intelligence methods for protein bioinformatics / / edited by Yi Pan, Jianxin Wang, Min Li |
Edizione | [First edition.] |
Pubbl/distr/stampa | Hoboken, New Jersey : , : Wiley : , : IEEE Computer Society, , [2014] |
Descrizione fisica | 1 online resource (708 p.) |
Disciplina | 572/.6 |
Collana | Wiley series in bioinformatics |
Soggetto topico |
Proteins - Analysis - Mathematics
Bioinformatics Artificial intelligence |
ISBN |
1-118-56781-1
1-118-56786-2 1-118-56792-7 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Nota di contenuto |
PREFACE ix -- CONTRIBUTORS xv -- I FROM PROTEIN SEQUENCE TO STRUCTURE -- 1 EMPHASIZING THE ROLE OF PROTEINS IN CONSTRUCTION OF THE DEVELOPMENTAL GENETIC TOOLKIT IN PLANTS 3 -- Anamika Basu and Anasua Sarkar -- 2 PROTEIN SEQUENCE MOTIF INFORMATION DISCOVERY 41 -- Bernard Chen -- 3 IDENTIFYING CALCIUM BINDING SITES IN PROTEINS 57 -- Hui Liu and Hai Deng -- 4 REVIEW OF IMBALANCED DATA LEARNING FOR PROTEIN METHYLATION PREDICTION 71 -- Zejin Ding and Yan-Qing Zhang -- 5 ANALYSIS AND PREDICTION OF PROTEIN POSTTRANSLATIONAL MODIFICATION SITES 91 -- Jianjiong Gao, Qiuming Yao, Curtis Harrison Bollinger, and Dong Xu -- II PROTEIN ANALYSIS AND PREDICTION -- 6 PROTEIN LOCAL STRUCTURE PREDICTION 109 -- Wei Zhong, Jieyue He, Robert W. Harrison, Phang C. Tai, and Yi Pan -- 7 PROTEIN STRUCTURAL BOUNDARY PREDICTION 125 -- Gulsah Altun -- 8 PREDICTION OF RNA BINDING SITES IN PROTEINS 153 -- Zhi-Ping Liu and Luonan Chen -- 9 ALGORITHMIC FRAMEWORKS FOR PROTEIN DISULFIDE CONNECTIVITY DETERMINATION 171 -- Rahul Singh, William Murad, and Timothy Lee -- 10 PROTEIN CONTACT ORDER PREDICTION: UPDATE 205 -- Yi Shi, Jianjun Zhou, David S. Wishart, and Guohui Lin -- 11 PROGRESS IN PREDICTION OF OXIDATION STATES OF CYSTEINES VIA COMPUTATIONAL APPROACHES 217 -- Aiguo Du, Hui Liu, Hai Deng, and Yi Pan -- 12 COMPUTATIONAL METHODS IN CRYOELECTRON MICROSCOPY 3D STRUCTURE RECONSTRUCTION 231 -- Fa Zhang, Xiaohua Wan, and Zhiyong Liu -- III PROTEIN STRUCTURE ALIGNMENT AND ASSESSMENT -- 13 FUNDAMENTALS OF PROTEIN STRUCTURE ALIGNMENT 255 -- Mark Brandt, Allen Holder, and Yosi Shibberu -- 14 DISCOVERING 3D PROTEIN STRUCTURES FOR OPTIMAL STRUCTURE ALIGNMENT 281 -- TomáS Novosád, Václav Sna-Sel, Ajith Abraham, and Jack Y. Yang -- 15 ALGORITHMIC METHODOLOGIES FOR DISCOVERY OF NONSEQUENTIAL PROTEIN STRUCTURE SIMILARITIES 299 -- Bhaskar DasGupta, Joseph Dundas, and Jie Liang -- 16 FRACTAL RELATED METHODS FOR PREDICTING PROTEIN STRUCTURE CLASSES AND FUNCTIONS 317 -- Zu-Guo Yu, Vo Anh, Jian-Yi Yang, and Shao-Ming Zhu.
17 PROTEIN TERTIARY MODEL ASSESSMENT 339 -- Anjum Chida, Robert W. Harrison, and Yan-Qing Zhang -- IV PROTEIN-PROTEIN ANALYSIS OF BIOLOGICAL NETWORKS -- 18 NETWORK ALGORITHMS FOR PROTEIN INTERACTIONS 357 -- Suely Oliveira -- 19 IDENTIFYING PROTEIN COMPLEXES FROM PROTEIN-PROTEIN INTERACTION NETWORKS 377 -- Jianxin Wang, Min Li, and Xiaoqing Peng -- 20 PROTEIN FUNCTIONAL MODULE ANALYSIS WITH PROTEIN-PROTEIN INTERACTION (PPI) NETWORKS 393 -- Lei Shi, Xiujuan Lei, and Aidong Zhang -- 21 EFFICIENT ALIGNMENTS OF METABOLIC NETWORKS WITH BOUNDED TREEWIDTH 413 -- Qiong Cheng, Piotr Berman, Robert W. Harrison, and Alexander Zelikovsky -- 22 PROTEIN-PROTEIN INTERACTION NETWORK ALIGNMENT: ALGORITHMS AND TOOLS 431 -- Valeria Fionda -- V APPLICATION OF PROTEIN BIOINFORMATICS -- 23 PROTEIN-RELATED DRUG ACTIVITY COMPARISON USING SUPPORT VECTOR MACHINES 451 -- Wei Zhong and Jieyue He -- 24 FINDING REPETITIONS IN BIOLOGICAL NETWORKS: CHALLENGES, TRENDS, AND APPLICATIONS 461 -- Simona E. Rombo -- 25 MeTaDoR: ONLINE RESOURCE AND PREDICTION SERVER FOR MEMBRANE TARGETING PERIPHERAL PROTEINS 481 -- Nitin Bhardwaj, Morten Källberg, Wonhwa Cho, and Hui Lu -- 26 BIOLOGICAL NETWORKS-BASED ANALYSIS OF GENE EXPRESSION SIGNATURES 495 -- Gang Chen and Jianxin Wang -- INDEX 507. |
Record Nr. | UNINA-9910828144803321 |
Hoboken, New Jersey : , : Wiley : , : IEEE Computer Society, , [2014] | ||
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Lo trovi qui: Univ. Federico II | ||
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Apolipoproteins [[electronic resource] ] : regulatory functions, health effects and role in disease / / Adrik D. Sidorov and Misha Y. Nikitin, editors |
Pubbl/distr/stampa | New York, : Nova Biomedical, 2012 |
Descrizione fisica | 1 online resource (166 p.) |
Disciplina | 572/.6 |
Altri autori (Persone) |
SidorovAdrik D
NikitinMisha Y |
Collana |
Protein biochemistry, synthesis, structure and cellular functions
Protein science and engineering |
Soggetto topico |
Apolipoproteins
Apolipoproteins - Health aspects |
Soggetto genere / forma | Electronic books. |
ISBN | 1-62257-498-2 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Record Nr. | UNINA-9910453216403321 |
New York, : Nova Biomedical, 2012 | ||
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Lo trovi qui: Univ. Federico II | ||
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Apolipoproteins [[electronic resource] ] : regulatory functions, health effects and role in disease / / Adrik D. Sidorov and Misha Y. Nikitin, editors |
Pubbl/distr/stampa | New York, : Nova Biomedical, 2012 |
Descrizione fisica | 1 online resource (166 p.) |
Disciplina | 572/.6 |
Altri autori (Persone) |
SidorovAdrik D
NikitinMisha Y |
Collana |
Protein biochemistry, synthesis, structure and cellular functions
Protein science and engineering |
Soggetto topico |
Apolipoproteins
Apolipoproteins - Health aspects |
ISBN | 1-62257-498-2 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Record Nr. | UNINA-9910779790003321 |
New York, : Nova Biomedical, 2012 | ||
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Lo trovi qui: Univ. Federico II | ||
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Automation in proteomics and genomics [[electronic resource] ] : an engineering case-based approach / / [edited by] Gil Alterovitz, Roseann Benson, Marco Ramoni |
Pubbl/distr/stampa | Chichester, West Sussex, U.K. ; ; Hoboken, N.J., : John Wiley, 2009 |
Descrizione fisica | 1 online resource (341 p.) |
Disciplina | 572/.6 |
Altri autori (Persone) |
AlterovitzGil
BensonRoseann RamoniMarco F |
Soggetto topico |
Proteomics - Automation
Genomics - Automation Proteomics - Data processing Genomics - Data processing |
ISBN |
1-282-12328-9
9786612123283 0-470-74119-8 0-470-74117-1 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Nota di contenuto | section 1. Fundamentals of molecular and cellular biology -- section 2. Analysis via automation -- section 3. Design via automation -- section 4. Integration. |
Record Nr. | UNINA-9910146137203321 |
Chichester, West Sussex, U.K. ; ; Hoboken, N.J., : John Wiley, 2009 | ||
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Lo trovi qui: Univ. Federico II | ||
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Automation in proteomics and genomics : an engineering case-based approach / / [edited by] Gil Alterovitz, Roseann Benson, Marco Ramoni |
Edizione | [1st ed.] |
Pubbl/distr/stampa | Chichester, West Sussex, U.K. ; ; Hoboken, N.J., : John Wiley, 2009 |
Descrizione fisica | 1 online resource (341 p.) |
Disciplina | 572/.6 |
Altri autori (Persone) |
AlterovitzGil
BensonRoseann RamoniMarco F |
Soggetto topico |
Proteomics - Automation
Genomics - Automation Proteomics - Data processing Genomics - Data processing |
ISBN |
1-282-12328-9
9786612123283 0-470-74119-8 0-470-74117-1 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Nota di contenuto | section 1. Fundamentals of molecular and cellular biology -- section 2. Analysis via automation -- section 3. Design via automation -- section 4. Integration. |
Record Nr. | UNINA-9910825787603321 |
Chichester, West Sussex, U.K. ; ; Hoboken, N.J., : John Wiley, 2009 | ||
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Lo trovi qui: Univ. Federico II | ||
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C-reactive protein [[electronic resource] ] : new research / / Satoshi Nagasawa, editor |
Pubbl/distr/stampa | New York, : Nova Biomedical Books, c2009 |
Descrizione fisica | 1 online resource (373 p.) |
Disciplina | 572/.6 |
Altri autori (Persone) | NagasawaSatoshi |
Soggetto topico |
C-reactive protein
Acute phase proteins |
Soggetto genere / forma | Electronic books. |
ISBN | 1-60876-824-4 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Record Nr. | UNINA-9910452490303321 |
New York, : Nova Biomedical Books, c2009 | ||
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Lo trovi qui: Univ. Federico II | ||
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C-reactive protein [[electronic resource] ] : new research / / Satoshi Nagasawa, editor |
Pubbl/distr/stampa | New York, : Nova Biomedical Books, c2009 |
Descrizione fisica | 1 online resource (373 p.) |
Disciplina | 572/.6 |
Altri autori (Persone) | NagasawaSatoshi |
Soggetto topico |
C-reactive protein
Acute phase proteins |
ISBN | 1-60876-824-4 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Record Nr. | UNINA-9910779648103321 |
New York, : Nova Biomedical Books, c2009 | ||
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Lo trovi qui: Univ. Federico II | ||
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Cellular proteins and their fatty acids in health and disease / / Asim K. Duttaroy and Friedrich Spener (eds.) |
Pubbl/distr/stampa | Weinheim, : Wiley-VCH, c2003 |
Descrizione fisica | 1 online resource (484 p.) |
Disciplina | 572/.6 |
Altri autori (Persone) |
DuttaroyAsim K
SpenerF (Friedrich) |
Soggetto topico | Fatty acid-binding proteins |
ISBN |
1-280-52037-X
9786610520374 3-527-60528-2 3-527-60154-6 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Nota di contenuto |
Cellular Proteins and Their Fatty Acids in Health and Disease; Preface; Contents; List of Contributors; Part 1 The Molecular Basis of Protein-Lipid Interaction and Functional Consequences; 1 Structure-Function of CD36 and Evidence for its Role in Facilitating Membrane Fatty Acid Transport; 1.1 Introduction; 1.2 Primary Structure; 1.3 Ligand Binding Domains; 1.4 Membrane Localization and Role in Cell Signaling; 1.5 CD36 Gene Structure and Regulation; 1.6 CD36 Deficiency; 1.7 CD36 and Platelet Function; 1.8 CD36 and Atherosclerosis; 1.9 CD36 and Phagocytosis; 1.10 CD36 and Angiogenesis
1.11 CD36 and Malaria1.12 CD36 and Fatty Acid Transport; 1.12.1 CD36 is Identified as a Mediator of FA Uptake; 1.12.2 CD36, SHR, and Insulin Resistance; 1.12.3 CD36 Transgenic and Knockout Mice Models; 1.12.4 CD36-null Mice - the Fed Phenotype; 1.12.5 CD36-null Mice - the Fasting Phenotype; 1.12.6 CD36 and Insulin Responsiveness in the Mouse; 1.13 Perspectives and Future Directions; 1.14 References; 2 Role and Function of FATPs in Fatty Acid Uptake; 2.1 Introduction; 2.2 Identification of Fatty Acid Transporter Proteins; 2.3 Structure of FATPs; 2.4 Function of FATPs 2.5 Regulation of FATP expression2.6 Significance of FATPs; 2.7 References; 3 Function, Expression, and Regulation of Human ABC Transporters; 3.1 Introduction; 3.2 Structural Features of ATP Binding Cassette (ABC) Transporters; 3.3 Overview of Human ABC Gene Subfamilies; 3.3.1 The ABCA (ABC1) Subfamily; 3.3.2 The ABCB (MDR/TAP) Subfamily; 3.3.3 The ABCC (CFTR/MRP) Subfamily; 3.3.4 The ABCD (ALD) Subfamily; 3.3.5 The ABCE (OABP) and ABCF (GCN20) Subfamilies; 3.3.6 The ABCG (White) Subfamily; 3.4 Diseases and Phenotypes Caused by ABC Transporters; 3.4.1 Familial HDL-deficiency and ABCA1 3.4.2 Retinal Degeneration and ABCA4 (ABCR)3.4.3 Cystic Fibrosis (ABCC7/CFTR); 3.4.4 Multidrug Resistance (ABCB1/MDR1, ABCC1/MRP1, ABCG2); 3.4.5 Adrenoleukodystrophy (ABCD1/ALD); 3.4.6 Sulfonylurea Receptor (ABCC8/SUR); 3.5 Function and Regulation of ABC Transporters in Lipid Transport; 3.5.1 ABCA1 in Macrophage Lipid Transport; 3.5.2 ABCG1 and Other ABCG members in Sterol Homeostasis; 3.5.3 ABC Transporters involved in Hepatobiliary Transport; 3.6 Conclusions and Perspectives; 3.7 References; 4 Albumin Receptors - Structure and Function; 4.1 Introduction 4.2 The Search for an Albumin Receptor4.2.1 The Endothelium-Albumin Relationship: Early Concepts; 4.2.2 Identification of Receptors for Native and Modified Albumin in Endothelial Cells; 4.3 Albumin Receptors in the Kidney; 4.3.1 Glomerular Handling of Albumin; 4.3.2 Binding and Uptake of Albumin in the Kidney Proximal Tubule; 4.4 Megalin and Cubilin as Proximal Tubule Albumin Receptors; 4.4.1 Megalin; 4.4.2 Cubilin; 4.5 Albumin as a Signaling Molecule - Implications for Albumin Receptor Function; 4.5.1 LDLR Family as Signaling Receptors; 4.5.2 Megalin as a Signaling Receptor; 4.6 Summary 4.7 References |
Record Nr. | UNINA-9910877134103321 |
Weinheim, : Wiley-VCH, c2003 | ||
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Lo trovi qui: Univ. Federico II | ||
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Gene sharing and evolution [[electronic resource] ] : the diversity of protein functions / / Joram Piatigorsky |
Autore | Piatigorsky Joram |
Pubbl/distr/stampa | Cambridge, Mass., : Harvard University Press, 2007 |
Descrizione fisica | 1 online resource (337 p.) |
Disciplina | 572/.6 |
Soggetto topico |
Genetic regulation
Proteins - Evolution Eye - Molecular aspects Crystalline lens |
Soggetto genere / forma | Electronic books. |
ISBN | 0-674-04212-3 |
Classificazione | WG 1940 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Nota di contenuto | Frontmatter -- Contents -- Illustrations -- Preface -- 1. What Is "Gene Sharing"? -- 2. Multifunctions and Functional Shifts: Echos from the Past -- 3. The Elusive Concept of a "Gene" -- 4. Eyes and Lenses: Gene Sharing by Crystallins -- 5. The Enigmatic "Corneal Crystallins": Putative Cases of Gene Sharing -- 6. Gene Sharing as a Common Event: Many Multifunctional Proteins -- 7. Gene Sharing during Gene Expression -- 8. Gene Sharing As a Dynamic Evolutionary Process: Antifreeze Proteins and Hemoglobins -- 9. Gene Duplication and the Evolution of New Functions -- 10. Gene Sharing and Systems Biology: Implications and Speculations -- 11. Recapitulations: Ambiguities and Possibilities -- Glossary -- References -- Index |
Record Nr. | UNINA-9910455140103321 |
Piatigorsky Joram
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Cambridge, Mass., : Harvard University Press, 2007 | ||
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Lo trovi qui: Univ. Federico II | ||
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