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  1. Research

    The effect of parameter variability in the allometric projection of leaf growth rates for eelgrass (Zostera marina L.) II: the importance of data quality control procedures in bias reduction

    Eelgrass grants important ecological benefits including a nursery for waterfowl and fish species, shoreline stabilization, nutrient recycling and carbon sequestration. Upon the exacerbation of deleterious anth...

    Héctor Echavarría-Heras, Cecilia Leal-Ramírez, Enrique Villa-Diharce and Nohe R. Cazarez-Castro

    Theoretical Biology and Medical Modelling 2015 12:30

    Published on: 1 December 2015

  2. Research

    Bioengineering thermodynamics of biological cells

    Cells are open complex thermodynamic systems. They can be also regarded as complex engines that execute a series of chemical reactions. Energy transformations, thermo-electro-chemical processes and transports ...

    Umberto Lucia

    Theoretical Biology and Medical Modelling 2015 12:29

    Published on: 1 December 2015

  3. Research

    Modeling optimal treatment strategies in a heterogeneous mixing model

    Many mathematical models assume random or homogeneous mixing for various infectious diseases. Homogeneous mixing can be generalized to mathematical models with multi-patches or age structure by incorporating c...

    Seoyun Choe and Sunmi Lee

    Theoretical Biology and Medical Modelling 2015 12:28

    Published on: 25 November 2015

  4. Research

    A measure of regularity for polygonal mosaics in biological systems

    The quantification of the spatial order of biological patterns or mosaics provides useful information as many properties are determined by the spatial distribution of their constituent elements. These are usua...

    Gabriela Contreras-Figueroa, Luis Hernández-Sandoval and José L. Aragón

    Theoretical Biology and Medical Modelling 2015 12:27

    Published on: 16 November 2015

  5. Research

    A Boolean network model of human gonadal sex determination

    Gonadal sex determination (GSD) in humans is a complex biological process that takes place in early stages of embryonic development when the bipotential gonadal primordium (BGP) differentiates towards testes o...

    Osiris Ríos, Sara Frias, Alfredo Rodríguez, Susana Kofman, Horacio Merchant, Leda Torres and Luis Mendoza

    Theoretical Biology and Medical Modelling 2015 12:26

    Published on: 16 November 2015

  6. Research

    A new method for the extraction of fetal ECG from the dependent abdominal signals using blind source separation and adaptive noise cancellation techniques

    The electrocardiogram (ECG) is a diagnostic tool that records the electrical activity of the heart, and depicts it as a series of graph-like tracings, or waves. Being able to interpret these details allows dia...

    Abdelghani Ghazdali, Abdelilah Hakim, Amine Laghrib, Nezha Mamouni and Said Raghay

    Theoretical Biology and Medical Modelling 2015 12:25

    Published on: 14 November 2015

  7. Research

    Disc degeneration implies low back pain

    Low back pain exerts a tremendous burden on individual patients and society due to its prevalence and ability to cause long-term disability. Contemporary treatment and prevention efforts are stymied by the abs...

    Chang-Jiang Zheng and James Chen

    Theoretical Biology and Medical Modelling 2015 12:24

    Published on: 9 November 2015

  8. Research

    In silico characterization and Molecular modeling of double-strand break repair protein MRE11 from Phoenix dactylifera v deglet nour

    DNA double-strand breaks (DSBs) are highly cytotoxic and mutagenic. MRE11 plays an essential role in repairing DNA by cleaving broken ends through its 3′ to 5′ exonuclease and single-stranded DNA endonuclease act...

    Imen Rekik, Zayneb Chaabene, C. Douglas Grubb, Noureddine Drira, Foued Cheour and Amine Elleuch

    Theoretical Biology and Medical Modelling 2015 12:23

    Published on: 5 November 2015

  9. Research

    PDON: Parkinson’s disease ontology for representation and modeling of the Parkinson’s disease knowledge domain

    Despite the unprecedented and increasing amount of data, relatively little progress has been made in molecular characterization of mechanisms underlying Parkinson’s disease. In the area of Parkinson’s research...

    Erfan Younesi, Ashutosh Malhotra, Michaela Gündel, Phil Scordis, Alpha Tom Kodamullil, Matt Page, Bernd Müller, Stephan Springstubbe, Ullrich Wüllner, Dieter Scheller and Martin Hofmann-Apitius

    Theoretical Biology and Medical Modelling 2015 12:20

    Published on: 22 September 2015

  10. Research Article

    Fanconi anemia cells with unrepaired DNA damage activate components of the checkpoint recovery process

    The FA/BRCA pathway repairs DNA interstrand crosslinks. Mutations in this pathway cause Fanconi anemia (FA), a chromosome instability syndrome with bone marrow failure and cancer predisposition. Upon DNA damag...

    Alfredo Rodríguez, Leda Torres, Ulises Juárez, David Sosa, Eugenio Azpeitia, Benilde García-de Teresa, Edith Cortés, Rocío Ortíz, Ana M. Salazar, Patricia Ostrosky-Wegman, Luis Mendoza and Sara Frías

    Theoretical Biology and Medical Modelling 2015 12:19

    Published on: 18 September 2015

  11. Research

    The waiting time problem in a model hominin population

    Functional information is normally communicated using specific, context-dependent strings of symbolic characters. This is true within the human realm (texts and computer programs), and also within the biologic...

    John Sanford, Wesley Brewer, Franzine Smith and John Baumgardner

    Theoretical Biology and Medical Modelling 2015 12:18

    Published on: 17 September 2015

  12. Review

    General overview on structure prediction of twilight-zone proteins

    Protein structure prediction from amino acid sequence has been one of the most challenging aspects in computational structural biology despite significant progress in recent years showed by critical assessment...

    Bee Yin Khor, Gee Jun Tye, Theam Soon Lim and Yee Siew Choong

    Theoretical Biology and Medical Modelling 2015 12:15

    Published on: 4 September 2015

  13. Research

    Effects of different interchain linkers on biological activity of an anti-prostate cancer single-chain bispecific antibody

    A single-chain bispecific antibody (scBsAb; an engineered antibody), has promising clinical applications. Nonetheless, the effect of different interchain linkers on its activity is poorly understood.

    Chao-hui Hao, Qian-he Han, Zhong-jie Shan, Jian-ting Hu, Nan Zhang and Xue-pei Zhang

    Theoretical Biology and Medical Modelling 2015 12:14

    Published on: 6 August 2015

  14. Reviewer acknowledgement

    Annual acknowledgement of manuscript reviewers

    The Editors of Theoretical Biology and Medical Modelling would like to thank all the Reviewers who have contributed to the journal in Volume 11 (2014).

    Hiroshi Nishiura, Edward Rietman and Rongling Wu

    Theoretical Biology and Medical Modelling 2015 12:4

    Published on: 3 July 2015

  15. Review

    Proposal of a hybrid approach for tumor progression and tumor-induced angiogenesis

    One of the main challenges in cancer modelling is to improve the knowledge of tumor progression in areas related to tumor growth, tumor-induced angiogenesis and targeted therapies efficacy. For this purpose, i...

    Patricio Cumsille, Aníbal Coronel, Carlos Conca, Cristóbal Quiñinao and Carlos Escudero

    Theoretical Biology and Medical Modelling 2015 12:13

    Published on: 2 July 2015

  16. Research

    Proteins interaction network and modeling of IGVH mutational status in chronic lymphocytic leukemia

    Chronic lymphocytic leukemia (CLL) is an incurable malignancy of mature B-lymphocytes, characterized as being a heterogeneous disease with variable clinical manifestation and survival. Mutational statuses of r...

    María Camila Álvarez-Silva, Sally Yepes, Maria Mercedes Torres and Andrés Fernando González Barrios

    Theoretical Biology and Medical Modelling 2015 12:12

    Published on: 20 June 2015

  17. Research

    Enhancing dendritic cell immunotherapy for melanoma using a simple mathematical model

    The immunotherapy using dendritic cells (DCs) against different varieties of cancer is an approach that has been previously explored which induces a specific immune response. This work presents a mathematical ...

    E. Castillo-Montiel, J. C. Chimal-Eguía, J. Ignacio Tello, G. Piñon-Zaráte, M. Herrera-Enríquez and AE. Castell-Rodríguez

    Theoretical Biology and Medical Modelling 2015 12:11

    Published on: 9 June 2015

  18. Review

    Cell cycle progression is regulated by intertwined redox oscillators

    The different phases of the eukaryotic cell cycle are exceptionally well-preserved phenomena. DNA decompaction, RNA and protein synthesis (in late G1 phase) followed by DNA replication (in S phase) and lipid synt...

    Jorgelindo da Veiga Moreira, Sabine Peres, Jean-Marc Steyaert, Erwan Bigan, Loïc Paulevé, Marcel Levy Nogueira and Laurent Schwartz

    Theoretical Biology and Medical Modelling 2015 12:10

    Published on: 29 May 2015

  19. Research

    A novel hypothesis for atherosclerosis as a cholesterol sulfate deficiency syndrome

    Despite a vast literature, atherosclerosis and the associated ischemia/reperfusion injuries remain today in many ways a mystery. Why do atheromatous plaques make and store a supply of cholesterol and sulfate w...

    Stephanie Seneff, Robert M. Davidson, Ann Lauritzen, Anthony Samsel and Glyn Wainwright

    Theoretical Biology and Medical Modelling 2015 12:9

    Published on: 27 May 2015

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