Literature DB >> 25220419

Cancer systems biology: embracing complexity to develop better anticancer therapeutic strategies.

W Du1, O Elemento1.   

Abstract

The transformation of normal cells into cancer cells and maintenance of the malignant state and phenotypes are associated with genetic and epigenetic deregulations, altered cellular signaling responses and aberrant interactions with the microenvironment. These alterations are constantly evolving as tumor cells face changing selective pressures induced by the cells themselves, the microenvironment and drug treatments. Tumors are also complex ecosystems where different, sometime heterogeneous, subclonal tumor populations and a variety of nontumor cells coexist in a constantly evolving manner. The interactions between molecules and between cells that arise as a result of these alterations and ecosystems are even more complex. The cancer research community is increasingly embracing this complexity and adopting a combination of systems biology methods and integrated analyses to understand and predictively model the activity of cancer cells. Systems biology approaches are helping to understand the mechanisms of tumor progression and design more effective cancer therapies. These approaches work in tandem with rapid technological advancements that enable data acquisition on a broader scale, with finer accuracy, higher dimensionality and higher throughput than ever. Using such data, computational and mathematical models help identify key deregulated functions and processes, establish predictive biomarkers and optimize therapeutic strategies. Moving forward, implementing patient-specific computational and mathematical models of cancer will significantly improve the specificity and efficacy of targeted therapy, and will accelerate the adoption of personalized and precision cancer medicine.

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Year:  2014        PMID: 25220419     DOI: 10.1038/onc.2014.291

Source DB:  PubMed          Journal:  Oncogene        ISSN: 0950-9232            Impact factor:   9.867


  138 in total

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Review 2.  Feedback regulation of lymphocyte signalling.

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Review 3.  Microenvironmental regulation of tumor progression and metastasis.

Authors:  Daniela F Quail; Johanna A Joyce
Journal:  Nat Med       Date:  2013-11       Impact factor: 53.440

4.  A whole-cell computational model predicts phenotype from genotype.

Authors:  Jonathan R Karr; Jayodita C Sanghvi; Derek N Macklin; Miriam V Gutschow; Jared M Jacobs; Benjamin Bolival; Nacyra Assad-Garcia; John I Glass; Markus W Covert
Journal:  Cell       Date:  2012-07-20       Impact factor: 41.582

5.  The patterns and dynamics of genomic instability in metastatic pancreatic cancer.

Authors:  Peter J Campbell; Shinichi Yachida; Laura J Mudie; Philip J Stephens; Erin D Pleasance; Lucy A Stebbings; Laura A Morsberger; Calli Latimer; Stuart McLaren; Meng-Lay Lin; David J McBride; Ignacio Varela; Serena A Nik-Zainal; Catherine Leroy; Mingming Jia; Andrew Menzies; Adam P Butler; Jon W Teague; Constance A Griffin; John Burton; Harold Swerdlow; Michael A Quail; Michael R Stratton; Christine Iacobuzio-Donahue; P Andrew Futreal
Journal:  Nature       Date:  2010-10-28       Impact factor: 49.962

6.  Stromal gene expression predicts clinical outcome in breast cancer.

Authors:  Greg Finak; Nicholas Bertos; Francois Pepin; Svetlana Sadekova; Margarita Souleimanova; Hong Zhao; Haiying Chen; Gulbeyaz Omeroglu; Sarkis Meterissian; Atilla Omeroglu; Michael Hallett; Morag Park
Journal:  Nat Med       Date:  2008-04-27       Impact factor: 53.440

7.  Increased methylation variation in epigenetic domains across cancer types.

Authors:  Kasper Daniel Hansen; Winston Timp; Héctor Corrada Bravo; Sarven Sabunciyan; Benjamin Langmead; Oliver G McDonald; Bo Wen; Hao Wu; Yun Liu; Dinh Diep; Eirikur Briem; Kun Zhang; Rafael A Irizarry; Andrew P Feinberg
Journal:  Nat Genet       Date:  2011-06-26       Impact factor: 38.330

8.  RAF inhibitor resistance is mediated by dimerization of aberrantly spliced BRAF(V600E).

Authors:  Poulikos I Poulikakos; Yogindra Persaud; Manickam Janakiraman; Xiangju Kong; Charles Ng; Gatien Moriceau; Hubing Shi; Mohammad Atefi; Bjoern Titz; May Tal Gabay; Maayan Salton; Kimberly B Dahlman; Madhavi Tadi; Jennifer A Wargo; Keith T Flaherty; Mark C Kelley; Tom Misteli; Paul B Chapman; Jeffrey A Sosman; Thomas G Graeber; Antoni Ribas; Roger S Lo; Neal Rosen; David B Solit
Journal:  Nature       Date:  2011-11-23       Impact factor: 49.962

9.  In silico experimentation of glioma microenvironment development and anti-tumor therapy.

Authors:  Yu Wu; Yao Lu; Weiqiang Chen; Jianping Fu; Rong Fan
Journal:  PLoS Comput Biol       Date:  2012-02-02       Impact factor: 4.475

10.  A nanoparticle-based strategy for the imaging of a broad range of tumours by nonlinear amplification of microenvironment signals.

Authors:  Yiguang Wang; Kejin Zhou; Gang Huang; Christopher Hensley; Xiaonan Huang; Xinpeng Ma; Tian Zhao; Baran D Sumer; Ralph J DeBerardinis; Jinming Gao
Journal:  Nat Mater       Date:  2013-12-08       Impact factor: 43.841

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  45 in total

1.  An HRE-Binding Py-Im Polyamide Impairs Hypoxic Signaling in Tumors.

Authors:  Jerzy O Szablowski; Jevgenij A Raskatov; Peter B Dervan
Journal:  Mol Cancer Ther       Date:  2015-12-30       Impact factor: 6.261

2.  Cervical Evaluation: From Ancient Medicine to Precision Medicine.

Authors:  Helen Feltovich
Journal:  Obstet Gynecol       Date:  2017-07       Impact factor: 7.661

Review 3.  Prioritizing therapeutic targets using patient-derived xenograft models.

Authors:  K A Lodhia; A M Hadley; P Haluska; C L Scott
Journal:  Biochim Biophys Acta       Date:  2015-03-14

Review 4.  Precision targeted therapy of ovarian cancer.

Authors:  Justin Sapiezynski; Oleh Taratula; Lorna Rodriguez-Rodriguez; Tamara Minko
Journal:  J Control Release       Date:  2016-10-14       Impact factor: 9.776

5.  Effective Combination Therapies for B-cell Lymphoma Predicted by a Virtual Disease Model.

Authors:  Wei Du; Rebecca Goldstein; Yanwen Jiang; Omar Aly; Leandro Cerchietti; Ari Melnick; Olivier Elemento
Journal:  Cancer Res       Date:  2017-01-27       Impact factor: 12.701

6.  Targeting Acidity in Pancreatic Adenocarcinoma: Multispectral Optoacoustic Tomography Detects pH-Low Insertion Peptide Probes In Vivo.

Authors:  Charles W Kimbrough; Anil Khanal; Matthew Zeiderman; Bigya R Khanal; Neal C Burton; Kelly M McMasters; Selwyn M Vickers; William E Grizzle; Lacey R McNally
Journal:  Clin Cancer Res       Date:  2015-06-29       Impact factor: 12.531

7.  The SWI/SNF ATPases Are Required for Triple Negative Breast Cancer Cell Proliferation.

Authors:  Qiong Wu; Pasil Madany; Jacqueline Akech; Jason R Dobson; Stephen Douthwright; Gillian Browne; Jennifer L Colby; Georg E Winter; James E Bradner; Jitesh Pratap; Greenfield Sluder; Rohit Bhargava; Simion I Chiosea; Andre J van Wijnen; Janet L Stein; Gary S Stein; Jane B Lian; Jeffrey A Nickerson; Anthony N Imbalzano
Journal:  J Cell Physiol       Date:  2015-11       Impact factor: 6.384

8.  Network pharmacodynamic models for customized cancer therapy.

Authors:  James M Gallo; Marc R Birtwistle
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2015-04-24

9.  The Small Molecule IMR-1 Inhibits the Notch Transcriptional Activation Complex to Suppress Tumorigenesis.

Authors:  Luisana Astudillo; Thiago G Da Silva; Zhiqiang Wang; Xiaoqing Han; Ke Jin; Jeffrey VanWye; Xiaoxia Zhu; Kelly Weaver; Taiji Oashi; Pedro E M Lopes; Darren Orton; Leif R Neitzel; Ethan Lee; Ralf Landgraf; David J Robbins; Alexander D MacKerell; Anthony J Capobianco
Journal:  Cancer Res       Date:  2016-04-13       Impact factor: 12.701

10.  Towards a better cancer precision medicine: systems biology meets immunotherapy.

Authors:  Bhavneet Bhinder; Olivier Elemento
Journal:  Curr Opin Syst Biol       Date:  2017-03-08
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