Hongdo Do

Summary

Affiliation: Peter MacCallum Cancer Centre
Country: Australia

Publications

  1. pmc Limited copy number-high resolution melting (LCN-HRM) enables the detection and identification by sequencing of low level mutations in cancer biopsies
    Hongdo Do
    Department of Pathology, University of Melbourne, Parkville, Victoria, 3010, Australia
    Mol Cancer 8:82. 2009
  2. pmc Dramatic reduction of sequence artefacts from DNA isolated from formalin-fixed cancer biopsies by treatment with uracil- DNA glycosylase
    Hongdo Do
    Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia
    Oncotarget 3:546-58. 2012
  3. pmc HER3 and downstream pathways are involved in colonization of brain metastases from breast cancer
    Leonard Da Silva
    Molecular and Cellular Pathology, The University of Queensland Centre for Clinical Research, and School of Medicine, Building 918 B71, RBWH complex, Brisbane, 4029, Australia
    Breast Cancer Res 12:R46. 2010
  4. pmc High resolution melting analysis for rapid and sensitive EGFR and KRAS mutation detection in formalin fixed paraffin embedded biopsies
    Hongdo Do
    Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, Locked Bag 1, A Beckett St, Melbourne, Victoria 8006, Australia
    BMC Cancer 8:142. 2008
  5. pmc Detection of the transforming AKT1 mutation E17K in non-small cell lung cancer by high resolution melting
    Hongdo Do
    Department of Pathology, Peter MacCallum Cancer Centre, Locked Bag 1, A Beckett St, Melbourne, Victoria, 8006, Australia
    BMC Res Notes 1:14. 2008
  6. doi request reprint The clinical relevance of pathologic subtypes in metastatic lung adenocarcinoma
    Timothy D Clay
    Department of Medical Oncology, St Vincent s Hospital, Melbourne Department of Medicine, University of Melbourne Translational Genomics and Epigenomics Laboratory, Ludwig Institute for Cancer Research, Olivia Newton John Cancer and Wellness Centre, Heidelberg Department of Pathology, University of Melbourne Department of Medicine, Eastern Hill Academic Centre, Melbourne Medical School, Faculty of Medicine, Dentistry and Health Sciences, University of Melbourne Department of Respiratory Medicine, St Vincent s Hospital Department of Thoracic Surgery, St Vincent s Hospital, Melbourne Department of Surgery, University of Melbourne and Department of Anatomical Pathology, St Vincent s Hospital, Melbourne, Australia
    J Thorac Oncol 9:654-63. 2014
  7. doi request reprint Reducing sequence artifacts in amplicon-based massively parallel sequencing of formalin-fixed paraffin-embedded DNA by enzymatic depletion of uracil-containing templates
    Hongdo Do
    Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, East Melbourne, Victoria, Australia
    Clin Chem 59:1376-83. 2013
  8. doi request reprint Comparison of 3 Methodologies for Genotyping of Small Deletion and Insertion Polymorphisms
    Su Kah Goh
    Translational Genomics and Epigenomics Laboratory, Olivia Newton John Cancer Research Institute, Heidelberg, Victoria, Australia Department of Surgery, University of Melbourne, Austin Health, Heidelberg, Victoria, Australia
    Clin Chem 62:1012-9. 2016
  9. ncbi request reprint Digital PCR of Genomic Rearrangements for Monitoring Circulating Tumour DNA
    Hongdo Do
    Translational Genomics and Epigenomics Laboratory, Olivia Newton John Cancer Research Institute, Melbourne, Vic, 3084, Australia
    Adv Exp Med Biol 924:139-146. 2016
  10. pmc Mapping of actionable mutations to histological subtype domains in lung adenocarcinoma: implications for precision medicine
    Gavin M Wright
    University of Melbourne Department of Surgery, St Vincent s Hospital Melbourne, Victoria, Australia
    Oncotarget 5:2107-15. 2014

Collaborators

Detail Information

Publications24

  1. pmc Limited copy number-high resolution melting (LCN-HRM) enables the detection and identification by sequencing of low level mutations in cancer biopsies
    Hongdo Do
    Department of Pathology, University of Melbourne, Parkville, Victoria, 3010, Australia
    Mol Cancer 8:82. 2009
    ..The dilutions used (based on Ct values) are chosen such that mutations, if present, can be detected by the direct sequencing of amplicons with aberrant melting patterns...
  2. pmc Dramatic reduction of sequence artefacts from DNA isolated from formalin-fixed cancer biopsies by treatment with uracil- DNA glycosylase
    Hongdo Do
    Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia
    Oncotarget 3:546-58. 2012
    ....
  3. pmc HER3 and downstream pathways are involved in colonization of brain metastases from breast cancer
    Leonard Da Silva
    Molecular and Cellular Pathology, The University of Queensland Centre for Clinical Research, and School of Medicine, Building 918 B71, RBWH complex, Brisbane, 4029, Australia
    Breast Cancer Res 12:R46. 2010
    ..Metastases to the brain from breast cancer have a high mortality, and basal-like breast cancers have a propensity for brain metastases. However, the mechanisms that allow cells to colonize the brain are unclear...
  4. pmc High resolution melting analysis for rapid and sensitive EGFR and KRAS mutation detection in formalin fixed paraffin embedded biopsies
    Hongdo Do
    Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, Locked Bag 1, A Beckett St, Melbourne, Victoria 8006, Australia
    BMC Cancer 8:142. 2008
    ..However, up to now it has not been fully validated for clinical samples when formalin-fixed paraffin-embedded (FFPE) sections are the only material available for analysis as is often the case...
  5. pmc Detection of the transforming AKT1 mutation E17K in non-small cell lung cancer by high resolution melting
    Hongdo Do
    Department of Pathology, Peter MacCallum Cancer Centre, Locked Bag 1, A Beckett St, Melbourne, Victoria, 8006, Australia
    BMC Res Notes 1:14. 2008
    ..AKT1 is a pivotal mediator of signalling pathways involved in cell survival, proliferation and growth. The E17K mutation stimulates downstream signalling and exhibits transforming activity in vitro and in vivo...
  6. doi request reprint The clinical relevance of pathologic subtypes in metastatic lung adenocarcinoma
    Timothy D Clay
    Department of Medical Oncology, St Vincent s Hospital, Melbourne Department of Medicine, University of Melbourne Translational Genomics and Epigenomics Laboratory, Ludwig Institute for Cancer Research, Olivia Newton John Cancer and Wellness Centre, Heidelberg Department of Pathology, University of Melbourne Department of Medicine, Eastern Hill Academic Centre, Melbourne Medical School, Faculty of Medicine, Dentistry and Health Sciences, University of Melbourne Department of Respiratory Medicine, St Vincent s Hospital Department of Thoracic Surgery, St Vincent s Hospital, Melbourne Department of Surgery, University of Melbourne and Department of Anatomical Pathology, St Vincent s Hospital, Melbourne, Australia
    J Thorac Oncol 9:654-63. 2014
    ..We investigated the clinical relevance of these patterns...
  7. doi request reprint Reducing sequence artifacts in amplicon-based massively parallel sequencing of formalin-fixed paraffin-embedded DNA by enzymatic depletion of uracil-containing templates
    Hongdo Do
    Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, East Melbourne, Victoria, Australia
    Clin Chem 59:1376-83. 2013
    ..We investigated whether sequence artifacts were problematic in amplicon-based massively parallel sequencing and what effect UDG pretreatment had on reducing these artifacts...
  8. doi request reprint Comparison of 3 Methodologies for Genotyping of Small Deletion and Insertion Polymorphisms
    Su Kah Goh
    Translational Genomics and Epigenomics Laboratory, Olivia Newton John Cancer Research Institute, Heidelberg, Victoria, Australia Department of Surgery, University of Melbourne, Austin Health, Heidelberg, Victoria, Australia
    Clin Chem 62:1012-9. 2016
    ..Closed-tube" approaches involving no or minimal post-PCR handling are preferred. We compared 3 distinct methodologies to determine an optimal platform for DIP genotyping...
  9. ncbi request reprint Digital PCR of Genomic Rearrangements for Monitoring Circulating Tumour DNA
    Hongdo Do
    Translational Genomics and Epigenomics Laboratory, Olivia Newton John Cancer Research Institute, Melbourne, Vic, 3084, Australia
    Adv Exp Med Biol 924:139-146. 2016
    ..This approach can be used as a model for all cancers with rearranged genomes...
  10. pmc Mapping of actionable mutations to histological subtype domains in lung adenocarcinoma: implications for precision medicine
    Gavin M Wright
    University of Melbourne Department of Surgery, St Vincent s Hospital Melbourne, Victoria, Australia
    Oncotarget 5:2107-15. 2014
    ..From a practical perspective, small biopsies may not adequately represent a tumor's full mutational profile, particularly for later arising but prognostically important mutations such as those in the KRAS and BRAF genes. ..
  11. pmc Integrated mutation, copy number and expression profiling in resectable non-small cell lung cancer
    Genni M Newnham
    Department of Oncology, St Vincent s Hospital, Victoria Pde, Melbourne, 3065, Australia
    BMC Cancer 11:93. 2011
    ....
  12. doi request reprint Differential mechanisms of CDKN2A (p16) alteration in oral tongue squamous cell carcinomas and correlation with patient outcome
    Annette M Lim
    Department of Medical Oncology, Peter MacCallum Cancer Centre, East Melbourne, Australia University of Melbourne, Australia Research Division, Peter MacCallum Cancer Centre, East Melbourne, Australia
    Int J Cancer 135:887-95. 2014
    ..However, no correlation was identified between different potential mechanisms of CDKN2A disruption and clinical characteristics or patient outcome. ..
  13. pmc A critical re-assessment of DNA repair gene promoter methylation in non-small cell lung carcinoma
    Hongdo Do
    1 Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, Melbourne, Victoria, 8006, Australia 2 Translational Genomics and Epigenomics Laboratory, Ludwig Institute for Medical Research, Olivia Newton John Cancer and Wellness Centre, Austin Hospital, Heidelberg, Victoria, 3084, Australia 3 Department of Pathology, University of Melbourne, Parkville, Victoria, 3010, Australia
    Sci Rep 4:4186. 2014
    ..Data from The Cancer Genome Atlas (TCGA) was consistent with these findings. The study emphasises the importance of using appropriate methodology for accurate assessment of promoter methylation. ..
  14. pmc Targeted-capture massively-parallel sequencing enables robust detection of clinically informative mutations from formalin-fixed tumours
    Stephen Q Wong
    Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, East Melbourne, Victoria, 3002, Australia
    Sci Rep 3:3494. 2013
    ..All regions were adequately covered with independent reads regardless of GC content. This study indicates that hybridisation capture is a robust approach for massively parallel sequencing of FFPE samples. ..
  15. doi request reprint EGFR gene copy number alterations are not a useful screening tool for predicting EGFR mutation status in lung adenocarcinoma
    Prudence A Russell
    1Department of Anatomical Pathology, St Vincent s Hospital, University of Melbourne, Fitzroy 2Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, East Melbourne 3Department of Medical Oncology, St Vincent s Hospital, University of Melbourne, Fitzroy 4University of Melbourne Department of Surgery, St Vincent s Hospital, Fitzroy 5Department of Respiratory and Sleep Medicine, St Vincent s Hospital, University of Melbourne, Fitzroy, Victoria, Australia
    Pathology 46:32-6. 2014
    ..9% and 79%, respectively. Despite a significant relationship between EGFR GCN alterations and EGFR mutations, our results indicate that EGFR GCN as detected by SISH is not a suitable way to select patients for EGFR mutation testing...
  16. doi request reprint Temporal changes of EGFR mutations and T790M levels in tumour and plasma DNA following AZD9291 treatment
    Puey Ling Chia
    Department of Medical Oncology, Austin Health, Melbourne, Australia Olivia Newton John Cancer Research Institute, Austin Health, Melbourne, Australia Electronic address
    Lung Cancer 98:29-32. 2016
    ..As resistance mechanisms are variable, monitoring levels of the initial activating EGFR mutation may facilitate more reliable detection of progression. ..
  17. doi request reprint Reduced abundance of the E3 ubiquitin ligase E6AP contributes to decreased expression of the INK4/ARF locus in non-small cell lung cancer
    Cristina Gamell
    Tumour Suppression Laboratory, Peter MacCallum Cancer Centre, Melbourne, Victoria 3000, Australia
    Sci Signal 10:. 2017
    ..These findings define a previously unrecognized tumor-suppressive role for E6AP in NSCLC, reveal an alternative silencing mechanism of the INK4/ARF locus, and reveal E6AP as a potential prognostic marker in NSCLC...
  18. doi request reprint Loss of CDKN2A expression is a frequent event in primary invasive melanoma and correlates with sensitivity to the CDK4/6 inhibitor PD0332991 in melanoma cell lines
    Richard J Young
    Research Division, Peter MacCallum Cancer Centre, East Melbourne, Vic, Australia
    Pigment Cell Melanoma Res 27:590-600. 2014
    ..In 47 melanoma cell lines homozygous loss, methylation or mutation of CDKN2A gene or loss of protein (p16(INK) (4A) ) predicted sensitivity to the CDK4/6 inhibitor PD0332991, while RB1 loss predicted resistance...
  19. pmc Intratumoral genetic heterogeneity in metastatic melanoma is accompanied by variation in malignant behaviors
    Matthew Anaka
    Cancer Immuno biology Lab, Ludwig Institute for Cancer Research Melbourne, Austin Branch, Melbourne, Victoria 3084, Australia
    BMC Med Genomics 6:40. 2013
    ..Increased clonal diversity has been correlated with a poor prognosis for cancer patients, and we therefore examined genetic, transcriptional, and functional diversity in metastatic melanoma...
  20. pmc Sequence artefacts in a prospective series of formalin-fixed tumours tested for mutations in hotspot regions by massively parallel sequencing
    Stephen Q Wong
    Department of Pathology, Peter MacCallum Cancer Centre, East Melbourne, Victoria 3002, Australia
    BMC Med Genomics 7:23. 2014
    ..The prevalence of formalin-induced DNA damage and its impact on molecular testing and clinical genomics remains poorly understood...
  21. doi request reprint DNA methylation biomarkers in cancer: progress towards clinical implementation
    Thomas Mikeska
    Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, Locked Bag 1, A Beckett Street, Melbourne, Victoria 8006, Australia
    Expert Rev Mol Diagn 12:473-87. 2012
    ..Finally, we summarize the current state of clinical implementation for some of the most widely studied and well-validated DNA methylation biomarkers, including SEPT9, VIM, SHOX2, PITX2 and MGMT...
  22. doi request reprint Probe-Free Digital PCR Quantitative Methodology to Measure Donor-Specific Cell-Free DNA after Solid-Organ Transplantation
    Su Kah Goh
    Translational Genomics and Epigenomics Laboratory, Olivia Newton John Cancer Research Institute, Heidelberg, Victoria, Australia
    Clin Chem . 2017
    ..The strategic placement of one primer to hybridize across an allelic breakpoint ensured highly specific PCR amplification, which then enabled the absolute quantification of donor-specific alleles by probe-free ddPCR...
  23. doi request reprint Sequence artifacts in DNA from formalin-fixed tissues: causes and strategies for minimization
    Hongdo Do
    Translational Genomics and Epigenomics Laboratory, Olivia Newton John Cancer Research Institute, Heidelberg, Victoria, Australia Department of Pathology, University of Melbourne, Parkville, Victoria, Australia School of Cancer Medicine, La Trobe University, Bundoora, Victoria, Australia
    Clin Chem 61:64-71. 2015
    ..Understanding of the sources of sequence artifacts in FFPE tissues and implementation of preventative strategies are critical to improve the accurate detection of actionable mutations...
  24. doi request reprint Multicenter randomized, open-label phase II trial of sequential erlotinib and gemcitabine compared with gemcitabine monotherapy as first-line therapy in elderly or ECOG PS two patients with advanced NSCLC
    Michael Michael
    Division of Cancer Medicine, Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia
    Asia Pac J Clin Oncol 11:4-14. 2015
    ..The aim of this study was to evaluate the efficacy and tolerance of sequential erlotinib and gemcitabine versus gemcitabine monotherapy as first-line therapy in elderly or ECOG PS-2 patients with advanced non-small cell lung carcinoma...