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Melkikh AV. Unsolved morphogenesis problems and the hidden order. Biosystems 2024; 239:105218. [PMID: 38653448 DOI: 10.1016/j.biosystems.2024.105218] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2024] [Revised: 04/18/2024] [Accepted: 04/20/2024] [Indexed: 04/25/2024]
Abstract
In this work, the morphogenesis mechanisms are considered from the complexity perspective. It is shown that both morphogenesis and the functioning of organs should be unstable in the case of short-range interaction potentials. The repeatability of forms during evolution is a strong argument for its directionality. The formation of organs during evolution can occur only in the presence of a priori information about the structure of such an organ. The focus of the discussion is not merely on constraining potential possibilities but on the concept of directed evolution itself. A morphogenesis model was constructed based on nontrivial quantum effects. These interaction effects between biologically important molecules ensure the accurate synthesis of cells, tissues, and organs.
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Affiliation(s)
- A V Melkikh
- Ural Federal University, Yekaterinburg, Russia.
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2
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Galván I, Hassasfar A, Adams B, Petruccione F. Isotope effects on radical pair performance in cryptochrome: A new hypothesis for the evolution of animal migration: The quantum biology of migration. Bioessays 2024; 46:e2300152. [PMID: 37888800 DOI: 10.1002/bies.202300152] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Revised: 09/28/2023] [Accepted: 10/10/2023] [Indexed: 10/28/2023]
Abstract
Mechanisms occurring at the atomic level are now known to drive processes essential for life, as revealed by quantum effects on biochemical reactions. Some macroscopic characteristics of organisms may thus show an atomic imprint, which may be transferred across organisms and affect their evolution. This possibility is considered here for the first time, with the aim of elucidating the appearance of an animal innovation with an unclear evolutionary origin: migratory behaviour. This trait may be mediated by a radical pair (RP) mechanism in the retinal flavoprotein cryptochrome, providing essential magnetic orientation for migration. Isotopes may affect the performance of quantum processes through their nuclear spin. Here, we consider a simple model and then apply the standard open quantum system approach to the spin dynamics of cryptochrome RP. We changed the spin quantum number (I) and g-factor of hydrogen and nitrogen isotopes to investigate their effect on RP's yield and magnetic sensitivity. Strong differences arose between isotopes with I = 1 and I = 1/2 in their contribution to cryptochrome magnetic sensitivity, particularly regarding Earth's magnetic field strengths (25-65 µT). In most cases, isotopic substitution improved RP's magnetic sensitivity. Migratory behaviour may thus have been favoured in animals with certain isotopic compositions of cryptochrome.
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Affiliation(s)
- Ismael Galván
- Department of Evolutionary Ecology, National Museum of Natural Sciences, CSIC, Madrid, Spain
| | - Abbas Hassasfar
- Department of Physics, Stellenbosch University, Stellenbosch, South Africa
| | - Betony Adams
- Quantum Research Group, School of Chemistry and Physics, University of KwaZulu-Natal, Durban, South Africa
- The Guy Foundation, Beaminster, Dorset, UK
| | - Francesco Petruccione
- Department of Physics, Stellenbosch University, Stellenbosch, South Africa
- School for Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa
- National Institute for Theoretical and Computational Sciences (NITheCS), Stellenbosch, South Africa
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3
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Igamberdiev AU. Overcoming the limits of natural computation in biological evolution toward the maximization of system efficiency. Biol J Linn Soc Lond 2022. [DOI: 10.1093/biolinnean/blac093] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Abstract
Abstract
The goal-directedness of biological evolution is realized via the anticipatory achievement of the final state of the system that corresponds to the condition of its perfection in self-maintenance and in adaptability. In the course of individual development, a biological system maximizes its power via synergistic effects and becomes able to perform external work most efficiently. In this state, defined as stasis, robust self-maintaining configurations act as attractors resistant to external and internal perturbations. This corresponds to the local energy–time constraints that most efficiently fit the integral optimization of the whole system. In evolution, major evolutionary transitions that establish new states of stasis are achieved via codepoiesis, a process in which the undecided statements of existing coding systems form the basis for the evolutionary unfolding of the system by assigning new values to them. The genetic fixation of this macroevolutionary process leads to new programmes of individual development representing the process of natural computation. The phenomenon of complexification in evolution represents a metasystem transition that results in maximization of a system’s power and in the ability to increase external work performed by the system.
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Affiliation(s)
- Abir U Igamberdiev
- Department of Biology, Memorial University of Newfoundland , St. John’s, NL, A1C 5S7 , Canada
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4
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Iurato G, Igamberdiev AU. D'Arcy W. Thompson's On Growth and Form: A landmark for the mathematical foundations of epigenetics. Biosystems 2020; 198:104279. [DOI: 10.1016/j.biosystems.2020.104279] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2020] [Revised: 10/07/2020] [Accepted: 10/16/2020] [Indexed: 11/30/2022]
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5
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Chou PY, Denadai R, Chen SH, Tseng HJ, Hsu CK, Wang SW, Hallac R, Chen CH, Kane AA, Lo LJ. Identifying Three-Dimensional Facial Fluctuating Asymmetry in Normal Pediatric Individuals: A Panel Assessment Outcome Study of Clinicians and Observers. J Clin Med 2019; 8:E648. [PMID: 31083393 PMCID: PMC6571690 DOI: 10.3390/jcm8050648] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2019] [Revised: 05/08/2019] [Accepted: 05/08/2019] [Indexed: 02/05/2023] Open
Abstract
This study measured three-dimensional facial fluctuating asymmetry in 600 normal and healthy Taiwanese individuals (6 to 12 years old) and assessed the perceptions of increasing levels of facial fluctuating asymmetric severity by using a panel composed of 20 clinicians (surgical professionals), as well as 20 adult and 40 pre-adolescent observers. On average, this normal cohort presented a facial fluctuating asymmetry of 0.96 ± 0.52 mm, with 0.52 ± 0.05, 0.67 ± 0.09, 1.01 ± 0.10, and 1.71 ± 0.36 mm for levels I, II, III, and IV of severity, respectively. For all categories of raters, significant differences in the average symmetry-asymmetry scale values were observed, with level I < level II < level III = level IV (all p < 0.01, except for level III vs. IV comparisons with p > 0.05). For level I, pre-adolescent observers presented a significantly (p < 0.05) higher symmetry-asymmetry scale value than adult observers, with no significant (all p > 0.05) differences for other comparisons. For overall facial asymmetry and levels II, III, and IV, no significant (all p > 0.05) differences were observed. This study reveals that the normal pediatric face is asymmetric and the panel assessment of facial fluctuating asymmetry was influenced by the level of severity and the category of raters and contributes to the literature by revealing that pre-adolescent raters present a similar or higher perception of facial asymmetry than adult raters.
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Affiliation(s)
- Pang-Yun Chou
- Department of Plastic and Reconstructive Surgery and Craniofacial Research Center, Chang Gung Memorial Hospital, Chang Gung University, Taoyuan 333, Taiwan.
| | - Rafael Denadai
- Department of Plastic and Reconstructive Surgery and Craniofacial Research Center, Chang Gung Memorial Hospital, Chang Gung University, Taoyuan 333, Taiwan.
| | - Shih-Heng Chen
- Department of Plastic and Reconstructive Surgery and Craniofacial Research Center, Chang Gung Memorial Hospital, Chang Gung University, Taoyuan 333, Taiwan.
| | - Hsiao-Jung Tseng
- Clinical Trial Center, Chang Gung Memorial Hospital, Taoyuan 333, Taiwan.
| | - Chih-Kai Hsu
- Department of Plastic and Reconstructive Surgery and Craniofacial Research Center, Chang Gung Memorial Hospital, Chang Gung University, Taoyuan 333, Taiwan.
| | - Sheng-Wei Wang
- Department of Biomedical Engineering, National Yang-Ming University, Taipei 112, Taiwan.
| | - Rami Hallac
- Analytical Imaging and Modeling Center, Children's Medical Center, Dallas, TX 75207, USA.
| | - Chih-Hao Chen
- Department of Plastic and Reconstructive Surgery and Craniofacial Research Center, Chang Gung Memorial Hospital, Chang Gung University, Taoyuan 333, Taiwan.
| | - Alex A Kane
- Analytical Imaging and Modeling Center, Children's Medical Center, Dallas, TX 75207, USA.
- Department of Plastic Surgery, UT Southwestern, Dallas, TX 75390, USA.
| | - Lun-Jou Lo
- Department of Plastic and Reconstructive Surgery and Craniofacial Research Center, Chang Gung Memorial Hospital, Chang Gung University, Taoyuan 333, Taiwan.
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Ekrami O, Claes P, White JD, Zaidi AA, Shriver MD, Van Dongen S. Measuring asymmetry from high-density 3D surface scans: An application to human faces. PLoS One 2018; 13:e0207895. [PMID: 30586353 PMCID: PMC6306226 DOI: 10.1371/journal.pone.0207895] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2018] [Accepted: 11/07/2018] [Indexed: 12/02/2022] Open
Abstract
Perfect bilateral symmetry is the optimal outcome of the development of bilateral traits in the absence of developmental perturbations. Any random perturbation in this perfect symmetrical state is called Fluctuating Asymmetry (FA). Many studies have been conducted on FA as an indicator of Developmental Instability (DI) and its possible link with stress and individual quality in general and with attractiveness, health and level of masculinity or femininity in humans. Most human studies of facial asymmetry use 2D pictures and a limited number of landmarks. We developed a protocol to utilize high-density 3D scans of human faces to measure the level of asymmetry. A completely symmetric spatially dense anthropometric mask with paired vertices is non-rigidly mapped on target faces using an Iterative Closest Point (ICP) registration algorithm. A set of 19 manually indicated landmarks were used to validate the mapping precision. The protocol's accuracy in FA calculation is assessed, and results show that a spatially dense approach is more accurate. In addition, it generates an integrated asymmetry estimate across the entire face. Finally, the automatic nature of the protocol provides a great advantage by omitting the tedious step of manual landmark indication on the biological structure of interest.
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Affiliation(s)
- Omid Ekrami
- Evolutionary Ecology Group, Department of Biology, University of Antwerp, Antwerp, Belgium
| | - Peter Claes
- Medical Imaging Research Center (MIRC), Department of Electrical Engineering–ESAT, Faculty of Engineering, KU Leuven, Leuven, Belgium
| | - Julie D. White
- Department of Anthropology, The Pennsylvania State University, University Park, Pennsylvania, United States of America
| | - Arslan A. Zaidi
- Department of Anthropology, The Pennsylvania State University, University Park, Pennsylvania, United States of America
| | - Mark D. Shriver
- Department of Anthropology, The Pennsylvania State University, University Park, Pennsylvania, United States of America
| | - Stefan Van Dongen
- Evolutionary Ecology Group, Department of Biology, University of Antwerp, Antwerp, Belgium
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7
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Mechanisms of directed evolution of morphological structures and the problems of morphogenesis. Biosystems 2018; 168:26-44. [DOI: 10.1016/j.biosystems.2018.04.004] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2017] [Revised: 04/19/2018] [Accepted: 04/24/2018] [Indexed: 12/21/2022]
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8
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Amaral SP, Tawara MH, Fernandez-Villamarin M, Borrajo E, Martínez-Costas J, Vidal A, Riguera R, Fernandez-Megia E. Tuning the Size of Nanoassembles: A Hierarchical Transfer of Information from Dendrimers to Polyion Complexes. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201712244] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Sandra P. Amaral
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Química Orgánica; Universidade de Santiago de Compostela; Jenaro de la Fuente s/n 15782 Santiago de Compostela Spain
| | - Maun H. Tawara
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Química Orgánica; Universidade de Santiago de Compostela; Jenaro de la Fuente s/n 15782 Santiago de Compostela Spain
| | - Marcos Fernandez-Villamarin
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Química Orgánica; Universidade de Santiago de Compostela; Jenaro de la Fuente s/n 15782 Santiago de Compostela Spain
| | - Erea Borrajo
- Departamento de Fisioloxía and Centro Singular de Investigación en Medicina Molecular e Enfermidades Crónicas (CIMUS); Universidade de Santiago de Compostela; Instituto de Investigaciones Sanitarias de Santiago de Compostela (IDIS); 15782 Santiago de Compostela Spain
| | - José Martínez-Costas
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Bioquímica e Bioloxía Molecular; Universidade de Santiago de Compostela; 15782 Santiago de Compostela Spain
| | - Anxo Vidal
- Departamento de Fisioloxía and Centro Singular de Investigación en Medicina Molecular e Enfermidades Crónicas (CIMUS); Universidade de Santiago de Compostela; Instituto de Investigaciones Sanitarias de Santiago de Compostela (IDIS); 15782 Santiago de Compostela Spain
| | - Ricardo Riguera
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Química Orgánica; Universidade de Santiago de Compostela; Jenaro de la Fuente s/n 15782 Santiago de Compostela Spain
| | - Eduardo Fernandez-Megia
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Química Orgánica; Universidade de Santiago de Compostela; Jenaro de la Fuente s/n 15782 Santiago de Compostela Spain
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9
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Amaral SP, Tawara MH, Fernandez-Villamarin M, Borrajo E, Martínez-Costas J, Vidal A, Riguera R, Fernandez-Megia E. Tuning the Size of Nanoassembles: A Hierarchical Transfer of Information from Dendrimers to Polyion Complexes. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/anie.201712244] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Sandra P. Amaral
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Química Orgánica; Universidade de Santiago de Compostela; Jenaro de la Fuente s/n 15782 Santiago de Compostela Spain
| | - Maun H. Tawara
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Química Orgánica; Universidade de Santiago de Compostela; Jenaro de la Fuente s/n 15782 Santiago de Compostela Spain
| | - Marcos Fernandez-Villamarin
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Química Orgánica; Universidade de Santiago de Compostela; Jenaro de la Fuente s/n 15782 Santiago de Compostela Spain
| | - Erea Borrajo
- Departamento de Fisioloxía and Centro Singular de Investigación en Medicina Molecular e Enfermidades Crónicas (CIMUS); Universidade de Santiago de Compostela; Instituto de Investigaciones Sanitarias de Santiago de Compostela (IDIS); 15782 Santiago de Compostela Spain
| | - José Martínez-Costas
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Bioquímica e Bioloxía Molecular; Universidade de Santiago de Compostela; 15782 Santiago de Compostela Spain
| | - Anxo Vidal
- Departamento de Fisioloxía and Centro Singular de Investigación en Medicina Molecular e Enfermidades Crónicas (CIMUS); Universidade de Santiago de Compostela; Instituto de Investigaciones Sanitarias de Santiago de Compostela (IDIS); 15782 Santiago de Compostela Spain
| | - Ricardo Riguera
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Química Orgánica; Universidade de Santiago de Compostela; Jenaro de la Fuente s/n 15782 Santiago de Compostela Spain
| | - Eduardo Fernandez-Megia
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS) and Departamento de Química Orgánica; Universidade de Santiago de Compostela; Jenaro de la Fuente s/n 15782 Santiago de Compostela Spain
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10
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Slijepcevic P. Evolutionary epistemology: Reviewing and reviving with new data the research programme for distributed biological intelligence. Biosystems 2017; 163:23-35. [PMID: 29199093 DOI: 10.1016/j.biosystems.2017.11.008] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2017] [Revised: 11/27/2017] [Accepted: 11/27/2017] [Indexed: 02/06/2023]
Abstract
Numerous studies in microbiology, eukaryotic cell biology, plant biology, biomimetics, synthetic biology, and philosophy of science appear to support the principles of the epistemological theory inspired by evolution, also known as "Evolutionary Epistemology", or EE. However, that none of the studies acknowledged EE suggests that its principles have not been formulated with sufficient clarity and depth to resonate with the interests of the empirical research community. In this paper I review evidence in favor of EE, and also reformulate EE principles to better inform future research. The revamped programme may be tentatively called Research Programme for Distributed Biological Intelligence. Intelligence I define as the capacity of organisms to gain information about their environment, process that information internally, and translate it into phenotypic forms. This multistage progression may be expressed through the acronym IGPT (information-gain-process-translate). The key principles of the programme may be summarized as follows. (i) Intelligence, a universal biological phenomenon promoting individual fitness, is required for effective organism-environment interactions. Given that animals represent less than 0.01% of the planetary biomass, neural intelligence is not the evolutionary norm. (ii) The basic unit of intelligence is a single cell prokaryote. All other forms of intelligence are derived. (iii) Intelligence is hierarchical. It ranges from bacteria to the biosphere or Gaia. (iv) The concept of "information" acquires a new meaning because information processing is at the heart of biological intelligence. All biological systems, from bacteria to Gaia, are intelligent, open thermodynamic systems that exchange information, matter and energy with the environment. (v) The organism-environment interaction is cybernetic. As much as the organism changes due to the influence of the environment, the organism's responses to induced changes affect the environment and subsequent organism-environment interactions. Based on the above principles a new research agenda can be formulated to explore different forms of biological intelligence.
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Affiliation(s)
- Predrag Slijepcevic
- Department of Life Sciences, College of Health and Life Sciences, Brunel University London, Uxbridge, UB8 3PH, United Kingdom.
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Tomalia DA, Khanna SN. A Systematic Framework and Nanoperiodic Concept for Unifying Nanoscience: Hard/Soft Nanoelements, Superatoms, Meta-Atoms, New Emerging Properties, Periodic Property Patterns, and Predictive Mendeleev-like Nanoperiodic Tables. Chem Rev 2016; 116:2705-74. [DOI: 10.1021/acs.chemrev.5b00367] [Citation(s) in RCA: 166] [Impact Index Per Article: 20.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Donald A. Tomalia
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States
- Department of Physics, Virginia Commonwealth University, Richmond, Virginia 23284, United States
- National Dendrimer & Nanotechnology Center, NanoSynthons LLC, 1200 North Fancher Avenue, Mt. Pleasant, Michigan 48858, United States
| | - Shiv N. Khanna
- Department
of Physics, Virginia Commonwealth University, Richmond, Virginia 23284, United States
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12
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Igamberdiev AU. Biomechanical and coherent phenomena in morphogenetic relaxation processes. Biosystems 2012; 109:336-45. [DOI: 10.1016/j.biosystems.2012.05.006] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2012] [Revised: 05/04/2012] [Accepted: 05/14/2012] [Indexed: 01/06/2023]
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13
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Rosen BM, Wilson CJ, Wilson DA, Peterca M, Imam MR, Percec V. Dendron-Mediated Self-Assembly, Disassembly, and Self-Organization of Complex Systems. Chem Rev 2009; 109:6275-540. [DOI: 10.1021/cr900157q] [Citation(s) in RCA: 1066] [Impact Index Per Article: 71.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Brad M. Rosen
- Roy & Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323
| | - Christopher J. Wilson
- Roy & Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323
| | - Daniela A. Wilson
- Roy & Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323
| | - Mihai Peterca
- Roy & Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323
| | - Mohammad R. Imam
- Roy & Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323
| | - Virgil Percec
- Roy & Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323
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