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Literature DB >> 19409634

Convergence of biomarkers, bioinformatics and nanotechnology for individualized cancer treatment.

John H Phan¹, Richard A Moffitt, Todd H Stokes, Jian Liu, Andrew N Young, Shuming Nie, May D Wang.

Abstract

Recent advances in biomarker discovery, biocomputing and nanotechnology have raised new opportunities in the emerging fields of personalized medicine (in which disease detection, diagnosis and therapy are tailored to each individual's molecular profile) and predictive medicine (in which genetic and molecular information is used to predict disease development, progression and clinical outcome). Here, we discuss advanced biocomputing tools for cancer biomarker discovery and multiplexed nanoparticle probes for cancer biomarker profiling, in addition to the prospects for and challenges involved in correlating biomolecular signatures with clinical outcome. This bio-nano-info convergence holds great promise for molecular diagnosis and individualized therapy of cancer and other human diseases.

Entities: CellLine Chemical Disease Gene Mutation Species

Mesh：

Substances：
Biomarkers, Tumor

Year: 2009 PMID： 19409634 PMCID： PMC3779321 DOI： 10.1016/j.tibtech.2009.02.010

Source DB: PubMed Journal: Trends Biotechnol ISSN： 0167-7799 Impact factor: 19.536

86 in total

1. BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks.

Authors: Steven Maere; Karel Heymans; Martin Kuiper
Journal: Bioinformatics Date: 2005-06-21 Impact factor: 6.937

2. GenePattern 2.0.

Authors: Michael Reich; Ted Liefeld; Joshua Gould; Jim Lerner; Pablo Tamayo; Jill P Mesirov
Journal: Nat Genet Date: 2006-05 Impact factor: 38.330

Review 3. Biomarkers in cancer staging, prognosis and treatment selection.

Authors: Joseph A Ludwig; John N Weinstein
Journal: Nat Rev Cancer Date: 2005-11 Impact factor: 60.716

Review 4. Emerging use of nanoparticles in diagnosis and treatment of breast cancer.

Authors: Maksym V Yezhelyev; Xiaohu Gao; Yun Xing; Ahmad Al-Hajj; Shuming Nie; Ruth M O'Regan
Journal: Lancet Oncol Date: 2006-08 Impact factor: 41.316

Review 5. ERBB receptors and cancer: the complexity of targeted inhibitors.

Authors: Nancy E Hynes; Heidi A Lane
Journal: Nat Rev Cancer Date: 2005-05 Impact factor: 60.716

6. Differential gene expression identifies subgroups of renal cell carcinoma.

Authors: Keith M Skubitz; Wolfgang Zimmermann; Wolfgang Zimmerman; Robert Kammerer; Stefan Pambuccian; Amy P N Skubitz
Journal: J Lab Clin Med Date: 2006-05

7. Molecular classification of renal tumors by gene expression profiling.

Authors: Audrey N Schuetz; Qiqin Yin-Goen; Mahul B Amin; Carlos S Moreno; Cynthia Cohen; Christopher D Hornsby; Wen Li Yang; John A Petros; Muta M Issa; John G Pattaras; Kenneth Ogan; Fray F Marshall; Andrew N Young
Journal: J Mol Diagn Date: 2005-05 Impact factor: 5.568

8. High-Throughput GoMiner, an 'industrial-strength' integrative gene ontology tool for interpretation of multiple-microarray experiments, with application to studies of Common Variable Immune Deficiency (CVID).

Authors: Barry R Zeeberg; Haiying Qin; Sudarshan Narasimhan; Margot Sunshine; Hong Cao; David W Kane; Mark Reimers; Robert M Stephens; David Bryant; Stanley K Burt; Eldad Elnekave; Danielle M Hari; Thomas A Wynn; Charlotte Cunningham-Rundles; Donn M Stewart; David Nelson; John N Weinstein
Journal: BMC Bioinformatics Date: 2005-07-05 Impact factor: 3.169

9. Taverna: a tool for building and running workflows of services.

Authors: Duncan Hull; Katy Wolstencroft; Robert Stevens; Carole Goble; Mathew R Pocock; Peter Li; Tom Oinn
Journal: Nucleic Acids Res Date: 2006-07-01 Impact factor: 16.971

10. CARMAweb: comprehensive R- and bioconductor-based web service for microarray data analysis.

Authors: Johannes Rainer; Fatima Sanchez-Cabo; Gernot Stocker; Alexander Sturn; Zlatko Trajanoski
Journal: Nucleic Acids Res Date: 2006-07-01 Impact factor: 16.971

20 in total

Review 1. Cardiovascular genomics: a biomarker identification pipeline.

Authors: John H Phan; Chang F Quo; May Dongmei Wang
Journal: IEEE Trans Inf Technol Biomed Date: 2012-05-16

2. Reverse engineering biomolecular systems using -omic data: challenges, progress and opportunities.

Authors: Chang F Quo; Chanchala Kaddi; John H Phan; Amin Zollanvari; Mingqing Xu; May D Wang; Gil Alterovitz
Journal: Brief Bioinform Date: 2012-07 Impact factor: 11.622

3. The Zn(II) nanocomplex: Sonochemical synthesis, characterization, DNA- and BSA-binding, cell imaging, and cytotoxicity against the human carcinoma cell lines.

Authors: Marzieh Anjomshoa; Masoud Torkzadeh-Mahani; Marjan Shakeri; Mahboubeh Adeli-Sardou
Journal: J Fluoresc Date: 2016-03-18 Impact factor: 2.217

Convergence of biomarkers, bioinformatics and nanotechnology for individualized cancer treatment.

1. BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks.

2. GenePattern 2.0.

Review 3. Biomarkers in cancer staging, prognosis and treatment selection.

Review 4. Emerging use of nanoparticles in diagnosis and treatment of breast cancer.

Review 5. ERBB receptors and cancer: the complexity of targeted inhibitors.

6. Differential gene expression identifies subgroups of renal cell carcinoma.

7. Molecular classification of renal tumors by gene expression profiling.

8. High-Throughput GoMiner, an 'industrial-strength' integrative gene ontology tool for interpretation of multiple-microarray experiments, with application to studies of Common Variable Immune Deficiency (CVID).

9. Taverna: a tool for building and running workflows of services.

10. CARMAweb: comprehensive R- and bioconductor-based web service for microarray data analysis.

Review 1. Cardiovascular genomics: a biomarker identification pipeline.

2. Reverse engineering biomolecular systems using -omic data: challenges, progress and opportunities.

3. The Zn(II) nanocomplex: Sonochemical synthesis, characterization, DNA- and BSA-binding, cell imaging, and cytotoxicity against the human carcinoma cell lines.

Review 4. Multiscale integration of -omic, imaging, and clinical data in biomedical informatics.

5. Multiplexed detection and characterization of rare tumor cells in Hodgkin's lymphoma with multicolor quantum dots.

6. Convergence Science Arrives: How Does It Relate to Psychiatry?

7. Personalized medicine in breast cancer: a systematic review.

Review 8. Nanotechnology applications in surgical oncology.

9. omniBiomarker: A Web-Based Application for Knowledge-Driven Biomarker Identification.

10. Mechanisms of cooperation in cancer nanomedicine: towards systems nanotechnology.