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Cancer bioinformatics: bioinformatic methods, network biomarkers and precision medicine

The "Cancer bioinformatics" thematic series focuses on the latest developments in the emerging field of systems clinical medicine in cancer which integrates systems biology, clinical science, omics-based technology, bioinformatics and computational science to improve diagnosis, therapies and prognosis of cancer.

Xiangdong Wang

  1. Research article

    Cascaded discrimination of normal, abnormal, and confounder classes in histopathology: Gleason grading of prostate cancer

    Automated classification of histopathology involves identification of multiple classes, including benign, cancerous, and confounder categories. The confounder tissue classes can often mimic and share attribute...

    Scott Doyle, Michael D Feldman, Natalie Shih, John Tomaszewski and Anant Madabhushi

    BMC Bioinformatics 2012 13:282

    Published on: 30 October 2012

  2. Research article

    A molecular computational model improves the preoperative diagnosis of thyroid nodules

    Thyroid nodules with indeterminate cytological features on fine needle aspiration (FNA) cytology have a 20% risk of thyroid cancer. The aim of the current study was to determine the diagnostic utility of an 8-...

    Sara Tomei, Ivo Marchetti, Katia Zavaglia, Francesca Lessi, Alessandro Apollo, Paolo Aretini, Giancarlo Di Coscio, Generoso Bevilacqua and Chiara Mazzanti

    BMC Cancer 2012 12:396

    Published on: 7 September 2012

  3. Methodology

    A dynamic model for tumour growth and metastasis formation

    A simple and fast computational model to describe the dynamics of tumour growth and metastasis formation is presented. The model is based on the calculation of successive generations of tumour cells and enable...

    Volker Haustein and Udo Schumacher

    Journal of Clinical Bioinformatics 2012 2:11

    Published on: 5 July 2012

  4. Research article

    Prognostic gene signatures for patient stratification in breast cancer - accuracy, stability and interpretability of gene selection approaches using prior knowledge on protein-protein interactions

    Stratification of patients according to their clinical prognosis is a desirable goal in cancer treatment in order to achieve a better personalized medicine. Reliable predictions on the basis of gene signatures...

    Yupeng Cun and Holger Fröhlich

    BMC Bioinformatics 2012 13:69

    Published on: 1 May 2012

  5. Research article

    Gene expression signatures modulated by epidermal growth factor receptor activation and their relationship to cetuximab resistance in head and neck squamous cell carcinoma

    Aberrant activation of signaling pathways downstream of epidermal growth factor receptor (EGFR) has been hypothesized to be one of the mechanisms of cetuximab (a monoclonal antibody against EGFR) resistance in...

    Elana J Fertig, Qing Ren, Haixia Cheng, Hiromitsu Hatakeyama, Adam P Dicker, Ulrich Rodeck, Michael Considine, Michael F Ochs and Christine H Chung

    BMC Genomics 2012 13:160

    Published on: 1 May 2012

  6. Research

    Gene regulatory network inference: evaluation and application to ovarian cancer allows the prioritization of drug targets

    Altered networks of gene regulation underlie many complex conditions, including cancer. Inferring gene regulatory networks from high-throughput microarray expression data is a fundamental but challenging task ...

    Piyush B Madhamshettiwar, Stefan R Maetschke, Melissa J Davis, Antonio Reverter and Mark A Ragan

    Genome Medicine 2012 4:41

    Published on: 1 May 2012

  7. Research article

    Synthetic Lethal Screen Identifies NF-κB as a Target for Combination Therapy with Topotecan for patients with Neuroblastoma

    Despite aggressive multimodal treatments the overall survival of patients with high-risk neuroblastoma remains poor. The aim of this study was to identify novel combination chemotherapy to improve survival rat...

    Patricia S Tsang, Adam T Cheuk, Qing-Rong Chen, Young K Song, Thomas C Badgett, Jun S Wei and Javed Khan

    BMC Cancer 2012 12:101

    Published on: 21 March 2012