Nanoinformatics: developing new computing applications for nanomedicine

Nanoinformatics has recently emerged to address the need of computing applications at the nano level. In this regard, the authors have participated in various initiatives to identify its concepts, foundations and challenges. While nanomaterials open up the possibility for developing new devices in many industrial and scientific areas, they also offer breakthrough perspectives for the prevention, diagnosis and treatment of diseases. In this paper, we analyze the different aspects of nanoinformatics and suggest five research topics to help catalyze new research and development in the area, particularly focused on nanomedicine. We also encompass the use of informatics to further the biological and clinical applications of basic research in nanoscience and nanotechnology, and the related concept of an extended “nanotype” to coalesce information related to nanoparticles. We suggest how nanoinformatics could accelerate developments in nanomedicine, similarly to what happened with the Human Genome and other -omics projects, on issues like exchanging modeling and simulation methods and tools, linking toxicity information to clinical and personal databases or developing new approaches for scientific ontologies, among many others.

[1]  Mingjun Zhang,et al.  Complex mathematical models of biology at the nanoscale. , 2009, Wiley interdisciplinary reviews. Nanomedicine and nanobiotechnology.

[2]  Betty Y. S. Kim,et al.  Current concepts: Nanomedicine , 2010 .

[3]  V Maojo,et al.  Biomedical Ontologies: Toward Scientific Debate , 2011, Methods of Information in Medicine.

[4]  José L. V. Mejino,et al.  A reference ontology for biomedical informatics: the Foundational Model of Anatomy , 2003, J. Biomed. Informatics.

[5]  V Maojo,et al.  International Efforts in Nanoinformatics Research Applied to Nanomedicine , 2010, Methods of Information in Medicine.

[6]  Victor Maojo,et al.  Medical Informatics and Bioinformatics: European Efforts to Facilitate Synergy , 2001, J. Biomed. Informatics.

[7]  Martin Fritts,et al.  Nanoinformatics and DNA-Based Computing: Catalyzing Nanomedicine , 2010, Pediatric Research.

[8]  Michael Schroeder,et al.  GoPubMed: exploring PubMed with the Gene Ontology , 2005, Nucleic Acids Res..

[9]  M. Ashburner,et al.  The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration , 2007, Nature Biotechnology.

[10]  Victor Maojo,et al.  Synergy between medical informatics and bioinformatics: facilitating genomic medicine for future health care , 2004, J. Biomed. Informatics.

[11]  M. Guyer,et al.  Charting a course for genomic medicine from base pairs to bedside , 2011, Nature.

[12]  Isaac S. Kohane,et al.  Bioinformatics and Clinical Informatics: The Imperative to Collaborate , 2000, J. Am. Medical Informatics Assoc..

[13]  Martin Fritts,et al.  Nanoinformatics: Developing Advanced Informatics Applications for Nanomedicine , 2011 .

[14]  Russ B. Altman,et al.  Bioinformatics in support of molecular medicine , 1998, AMIA.

[15]  Robert A. Freitas,et al.  Nanomedicine, Volume Iia: Biocompatibility , 2003 .

[16]  Paula A. Kiberstis,et al.  It's Not Just the Genes , 2002, Science.

[17]  Gordon Clapworthy,et al.  The Virtual Physiological Human - a European initiative for in silico human modelling -. , 2008, The journal of physiological sciences : JPS.

[18]  王林,et al.  GoPubmed , 2010 .

[19]  Robert A. Freitas,et al.  Nanomedicine, Volume I: Basic Capabilities , 1999 .

[20]  D. Goodsell,et al.  Visualization of macromolecular structures , 2010, Nature Methods.

[21]  L. Brooke.  The National Library of Medicine. , 1980, Hospital libraries.

[22]  Victor Maojo,et al.  Viewpoint Paper: Bioinformatics and Medical Informatics: Collaborations on the Road to Genomic Medicine? , 2003, J. Am. Medical Informatics Assoc..

[23]  Miguel García-Remesal,et al.  BIRI: a new approach for automatically discovering and indexing available public bioinformatics resources from the literature , 2009, BMC Bioinformatics.

[24]  Nathan A. Baker,et al.  NanoParticle Ontology for cancer nanotechnology research , 2011, J. Biomed. Informatics.

[25]  K. Jain.  The Handbook of Nanomedicine , 2008, Humana Press.

[26]  Haruki Nakamura,et al.  Announcing the worldwide Protein Data Bank , 2003, Nature Structural Biology.

[27]  C. Kulikowski.  The Micro-Macro Spectrum of Medical Informatics Challenges: From Molecular Medicine to Transforming Health Care in a Globalizing Society , 2002, Methods of Information in Medicine.