Deena Gendoo

Research output

Research output per year 2011 2015 2016 2019 2024

• 24 Article
• 1 Chapter (peer-reviewed)
• 1 Review article

Research output per year

Research output per year

Search results

• 2024

  Circulating tumour DNA detects somatic variants contributing to spatial and temporal intratumural heterogeneity in head and neck squamous cell carcinoma

  Payne, K. F. B., Brotherwood, P., Suriyanarayanan, H., Brooks, J. M., Batis, N., Beggs, A. D., Gendoo, D. M. A., Mehanna, H. & Nankivell, P., 23 Apr 2024, In: Frontiers in Oncology. 14, 11 p., 1374816.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Circulating Tumor DNA 100%
  • Squamous Cell Carcinoma of Head and Neck 77%
  • Liquid Biopsy 32%
  • Cell-Free Nucleic Acids 29%
  • Neoplasms 22%
  29 Downloads (Pure)
• 2023

  A temporal in vivo catalogue of chromatin accessibility and expression profiles in pineoblastoma reveals a prevalent role for repressor elements

  Idriss, S., Hallal, M., El-Kurdi, A., Zalzali, H., El-Rassi, I., Ehli, E. A., Davis, C. M., Chung, P. E. D., Gendoo, D. M. A., Zacksenhaus, E., Saab, R. & Khoueiry, P., Mar 2023, In: Genome Research. 33, 2, p. 269–282 15 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Pinealoma 100%
  • Catalogs 85%
  • Chromatin 60%
  • Transcriptome 14%
  • Genome 10%
  30 Downloads (Pure)
• 2022

  Computational pharmacogenomic screen identifies drugs that potentiate the anti-breast cancer activity of statins

  van Leeuwen, J. E., Ba-Alawi, W., Branchard, E., Cruickshank, J., Schormann, W., Longo, J., Silvester, J., Gross, P. L., Andrews, D. W., Cescon, D. W., Haibe-Kains, B., Penn, L. Z. & Gendoo, D. M. A., 24 Oct 2022, (E-pub ahead of print) In: Nature Communications. 13, 1, 17 p., 6323.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Dipyridamole 100%
  • Hydroxymethylglutaryl Coenzyme A Reductase Inhibitor 96%
  • Mevalonate 95%
  • Pharmacogenetics 76%
  • breast 70%
  70 Downloads (Pure)

• Overview of Bioinformatics Software and Databases for Metabolic Engineering

  Gendoo, D. M. A., 14 Oct 2022, Computational Biology and Machine Learning for Metabolic Engineering and Synthetic Biology. Selvarajoo, K. (ed.). Humana New York, NY: Springer, p. 265-274 10 p. (Methods in molecular biology (Clifton, N.J.); vol. 2553).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter (peer-reviewed) › peer-review

  • Metabolic Engineering 100%
  • Metabolome 82%
  • Computational Biology 68%
  • Software 55%
  • Databases 44%
• 2021

  The anti-tumour activity of DNA methylation inhibitor 5-aza-2′-deoxycytidine is enhanced by the common analgesic paracetamol through induction of oxidative stress

  Gleneadie, H. J., Baker, A. H., Batis, N., Bryant, J., Jiang, Y., Clokie, S. J. H., Mehanna, H., Garcia, P., Gendoo, D. M. A., Roberts, S., Burley, M., Molinolo, A. A., Gutkind, J. S., Scheven, B. A., Cooper, P. R., Parish, J. L., Khanim, F. L. & Wiench, M., 31 Mar 2021, In: Cancer Letters. 501, p. 172-186 15 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Decitabine 100%
  • Acetaminophen 81%
  • DNA Methylation 76%
  • Analgesics 66%
  • Oxidative Stress 56%
  277 Downloads (Pure)
• 2020

  Bioinformatics and computational approaches for analyzing patient-derived disease models in cancer research

  Gendoo, D. M. A., 5 Feb 2020, In: Computational and Structural Biotechnology Journal. 18, p. 375-380 6 p.

  Research output: Contribution to journal › Review article › peer-review

  Open Access

  File

  • Bioinformatics 100%
  • Computational Biology 86%
  • Strength 58%
  • Heterografts 42%
  • Organoids 40%
  1 Citation (Scopus)

  176 Downloads (Pure)

• Modeling germline mutations in pineoblastoma uncovers lysosome disruption-based therapy

  Chung, P. E. D., Gendoo, D. M. A., Ghanbari-Azarnier, R., Liu, J. C., Jiang, Z., Tsui, J., Wang, D-Y., Xiao, X., Li, B., Dubuc, A., Shih, D., Remke, M., Ho, B., Garzia, L., Ben-David, Y., Kang, S-G., Croul, S., Haibe-Kains, B., Huang, A., Taylor, M. D., & 1 othersZacksenhaus, E., 14 Apr 2020, In: Nature Communications. 11, 1, 19 p., 1825.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • lysosomes 100%
  • Nortriptyline 95%
  • Pinealoma 92%
  • deletion 88%
  • mutations 73%
  5 Citations (Scopus)

  172 Downloads (Pure)
• 2019

  A subgroup of microRNAs defines PTEN-deficient, triple-negative breast cancer patients with poorest prognosis and alterations in RB1, MYC, and Wnt signaling

  Wang, D-Y., Gendoo, D. M. A., Ben-David, Y., Woodgett, J. R. & Zacksenhaus, E., 31 Jan 2019, In: Breast Cancer Research. 21, 1, 13 p., 18.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Triple Negative Breast Neoplasms 100%
  • MicroRNAs 69%
  • Catenins 34%
  • human MIRN381 microRNA 30%
  • Phosphatidylinositol 3-Kinases 27%
  12 Citations (Scopus)

  207 Downloads (Pure)

• MetaGxData: Clinically annotated breast, ovarian and pancreatic cancer datasets and their use in generating a multi-cancer gene signature

  Gendoo, D. M. A., Zon, M., Sandhu, V., Manem, V. S. K., Ratanasirigulchai, N., Chen, G. M., Waldron, L. & Haibe-Kains, B., 19 Jun 2019, In: Scientific Reports. 9, 1, 8770.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Neoplasm Genes 100%
  • Pancreatic Neoplasms 87%
  • Ovarian Neoplasms 84%
  • Datasets 73%
  • Breast Neoplasms 58%
  5 Citations (Scopus)

  230 Downloads (Pure)

• Whole genomes define concordance of matched primary, xenograft, and organoid models of pancreas cancer

  Gendoo, D. M. A., Denroche, R. E., Zhang, A., Radulovich, N., Jang, G. H., Lemire, M., Fischer, S., Chadwick, D., Lungu, I. M., Ibrahimov, E., Cao, P-J., Stein, L. D., Wilson, J. M., Bartlett, J. M. S., Tsao, M-S., Dhani, N., Hedley, D., Gallinger, S. & Haibe-Kains, B., 10 Jan 2019, In: PLoS Computational Biology. 15, 1, e1006596.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Heterografts 100%
  • pancreatic neoplasms 87%
  • Organoids 71%
  • Concordance 65%
  • adenocarcinoma 64%
  16 Citations (Scopus)

  236 Downloads (Pure)
• 2018

  Administration of Hypoxia-Activated Prodrug Evofosfamide after Conventional Adjuvant Therapy Enhances Therapeutic Outcome and Targets Cancer-Initiating Cells in Preclinical Models of Colorectal Cancer.

  Haynes, J., McKee, T. D., Haller, A., Wang, Y., Leung, C., Gendoo, D., Lima-Fernandes, E., Kreso, A., Wolman, R., Szentgyorgyi, E., Vines, D. C., Haibe-Kains, B., Wouters, B. G., Metser, U., Jaffray, D. A., Smith, M. & O'Brien, C. A., 23 Feb 2018, In: Clinical Cancer Research. 24, 9

  Research output: Contribution to journal › Article › peer-review

  • TH 302 100%
  • Prodrugs 57%
  • Colorectal Neoplasms 41%
  • Hypoxia 40%
  • Fluorouracil 21%
  8 Citations (Scopus)

• Consensus on molecular subtypes of high-grade Serous Ovarian Carcinoma

  Chen, G. M., Kannan, L., Geistlinger, L., Kofia, V., Safikhani, Z., Gendoo, D., Parmigiani, G., Birrer, M., Haibe-Kains, B. & Waldron, L., 15 Oct 2018, In: Clinical Cancer Research. 24, 20, p. 5037-5047 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Carcinoma 100%
  • Neoplasms 48%
  • Datasets 34%
  • Meta-Analysis 32%
  • Survival 23%
  29 Citations (Scopus)
• 2017

  Integrative cancer pharmacogenomics to infer large-scale drug taxonomy

  Gendoo, D., El-Hachem, N., Ghoraie, L. S., Safikhani, Z., Smirnov, P., Chung, C., Deng, K., Fang, A., Birkwood, E., Ho, C., Isserlin, R., Bader, G. D., Goldenberg, A. & Haibe-Kains, B., Jun 2017, In: Cancer Research. 77, 11, p. 3057-3069

  Research output: Contribution to journal › Article › peer-review

  • Pharmacogenetics 100%
  • Pharmaceutical Preparations 36%
  • Neoplasms 28%
  • Cheminformatics 6%
  • Drug Repositioning 5%
  21 Citations (Scopus)

• The molecular basis of breast cancer pathological phenotypes: Molecular basis of breast cancer pathological phenotypes

  Heng, Y. J., Lester, S. C., Tse, G. M., Factor, R. E., Allison, K. H., Collins, L. C., Chen, Y., Jensen, K. C., Johnson, N. B., Jeong, J. C., Punjabi, R., Shin, S. J., Singh, K., Krings, G., Eberhard, D. A., Tan, P. H., Korski, K., Waldman, F. M., Gutman, D. A., Sanders, M., & 9 othersReis-filho, J. S., Flanagan, S. R., Gendoo, D. MA., Chen, G. M., Haibe-kains, B., Ciriello, G., Hoadley, K. A., Perou, C. M. & Beck, A. H., 1 Feb 2017, In: Journal of Pathology. 241, 3, p. 375-391 17 p.

  Research output: Contribution to journal › Article › peer-review

  • Breast Neoplasms 100%
  • Phenotype 94%
  • Datasets 20%
  • Atlases 14%
  • DNA Methylation 12%
  51 Citations (Scopus)
• 2016

  Genefu: an R/Bioconductor package for computation of gene expression-based signatures in breast cancer

  Gendoo, D. M. A., Ratanasirigulchai, N., Schröder, M. S., Paré, L., Parker, J. S., Prat, A. & Haibe-Kains, B., 1 Apr 2016, In: Bioinformatics. 32, 7, p. 1097-1099 3 p.

  Research output: Contribution to journal › Article › peer-review

  • Transcriptome 100%
  • Breast Neoplasms 69%
  • Computational Biology 68%
  • Genes 14%
  • Neoplasms 11%
  121 Citations (Scopus)

• Integrated (epi)-genomic analyses identify subgroup-specific therapeutic targets in CNS rhabdoid tumors

  Torchia, J., Golbourn, B., Feng, S., Ho, K. C., Sin-Chan, P., Vasiljevic, A., Norman, J. D., Guilhamon, P., Garzia, L., Agamez, N. R., Lu, M., Chan, T. S., Picard, D., de Antonellis, P., Khuong-Quang, D-A., Planello, A. C., Zeller, C., Barsyte-Lovejoy, D., Lafay-Cousin, L., Letourneau, L., & 98 othersBourgey, M., Yu, M., Gendoo, D. M. A., Dzamba, M., Barszczyk, M., Medina, T., Riemenschneider, A. N., Morrissy, A. S., Ra, Y-S., Ramaswamy, V., Remke, M., Dunham, C. P., Yip, S., Ng, H., Lu, J-Q., Mehta, V., Albrecht, S., Pimentel, J., Chan, J. A., Somers, G. R., Faria, C. C., Roque, L., Fouladi, M., Hoffman, L. M., Moore, A. S., Wang, Y., Choi, S. A., Hansford, J. R., Catchpoole, D., Birks, D. K., Foreman, N. K., Strother, D., Klekner, A., Bognár, L., Garami, M., Hauser, P., Hortobágyi, T., Wilson, B., Hukin, J., Carret, A-S., Van Meter, T. E., Hwang, E. I., Gajjar, A., Chiou, S-H., Nakamura, H., Toledano, H., Fried, I., Fults, D., Wataya, T., Fryer, C., Eisenstat, D. D., Scheinemann, K., Fleming, A. J., Johnston, D. L., Michaud, J., Zelcer, S., Hammond, R., Afzal, S., Ramsay, D. A., Sirachainan, N., Hongeng, S., Larbcharoensub, N., Grundy, R. G., Lulla, R. R., Fangusaro, J. R., Druker, H., Bartels, U., Grant, R., Malkin, D., McGlade, C. J., Nicolaides, T., Tihan, T., Phillips, J., Majewski, J., Montpetit, A., Bourque, G., Bader, G. D., Reddy, A. T., Gillespie, G. Y., Warmuth-Metz, M., Rutkowski, S., Tabori, U., Lupien, M., Brudno, M., Schüller, U., Pietsch, T., Judkins, A. R., Hawkins, C. E., Bouffet, E., Kim, S-K., Dirks, P. B., Taylor, M. D., Erdreich-Epstein, A., Arrowsmith, C. H., De Carvalho, D. D., Rutka, J. T., Jabado, N. & Huang, A., 12 Dec 2016, In: Cancer Cell. 30, 6, p. 891-908 18 p.

  Research output: Contribution to journal › Article › peer-review

  • Typical Teratoid Rhabdoid Tumor 100%
  • Atypical Teratoid Tumor 99%
  • Rhabdoid Tumor 94%
  • Epigenomics 23%
  • 4-methyl-N-(3-(4-methylimidazol-1-yl)-5-(trifluoromethyl)phenyl)-3-((4-pyridin-3-ylpyrimidin-2-yl)amino)benzamide 12%
  104 Citations (Scopus)

• PharmacoGx: an R package for analysis of large pharmacogenomic datasets

  Smirnov, P., Safikhani, Z., El-Hachem, N., Wang, D., She, A., Olsen, C., Freeman, M., Selby, H., Gendoo, D. M. A., Grossmann, P., Beck, A. H., Aerts, H. J. W. L., Lupien, M., Goldenberg, A. & Haibe-Kains, B., 15 Apr 2016, In: Bioinformatics. 32, 8, p. 1244-1246 3 p.

  Research output: Contribution to journal › Article › peer-review

  • Pharmacogenomic Testing 100%
  • Pharmacogenetics 85%
  • Datasets 59%
  • Encyclopedias 32%
  • Pharmaceutical Preparations 31%
  84 Citations (Scopus)
• 2015

  CD73 Is Associated with Poor Prognosis in High-Grade Serous Ovarian Cancer

  Turcotte, M., Spring, K., Pommey, S., Chouinard, G., Cousineau, I., George, J., Chen, G. M., Gendoo, D. M. A., Haibe-Kains, B., Karn, T., Rahimi, K., Le Page, C., Provencher, D., Mes-Masson, A-M. & Stagg, J., 1 Nov 2015, In: Cancer Research. 75, 21, p. 4494-4503 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Ovarian Neoplasms 100%
  • Neoplasms 35%
  • nucleotidase 29%
  • Fibroblasts 27%
  • Tumor Escape 24%
  113 Citations (Scopus)

• Erratum: The First Small-Molecule Inhibitors of Members of the Ribonuclease E Family

  Kime, L., Vincent, H. A., Gendoo, D. M. A., Jourdan, S. S., Fishwick, C. W. G., Callaghan, A. J. & McDowall, K. J., 13 Jul 2015, In: Scientific Reports. 5, 1 p., 9781.

  Research output: Contribution to journal › Article › peer-review

• Medulloblastoma subgroups remain stable across primary and metastatic compartments

  Wang, X., Dubuc, A. M., Ramaswamy, V., Mack, S., Gendoo, D. M. A., Remke, M., Wu, X., Garzia, L., Luu, B., Cavalli, F., Peacock, J., López, B., Skowron, P., Zagzag, D., Lyden, D., Hoffman, C., Cho, Y-J., Eberhart, C., MacDonald, T., Li, X-N., & 9 othersVan Meter, T., Northcott, P. A., Haibe-Kains, B., Hawkins, C., Rutka, J. T., Bouffet, E., Pfister, S. M., Korshunov, A. & Taylor, M. D., Mar 2015, In: Acta Neuropathologica. 129, 3, p. 449-457 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Medulloblastoma 100%
  • Gene Expression 32%
  • DNA Methylation 26%
  • Transcriptome 25%
  • Methylation 24%
  53 Citations (Scopus)

• Personalized diagnosis of medulloblastoma subtypes across patients and model systems

  Gendoo, D., Smirnov, P., Lupien, M. & Haibe-Kains, B., Aug 2015, In: Genomics. 106, 2, p. 96-106 11 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Medulloblastoma 100%
  • Cell Line 24%
  • Neoplasms 19%
  • Brain Neoplasms 19%
  • Transcriptome 18%
  6 Citations (Scopus)

  152 Downloads (Pure)

• The first small-molecule inhibitors of members of the ribonuclease E family

  Kime, L., Vincent, H. A., Gendoo, D., Jourdan, S. S., Fishwick, C. W. G., Callaghan, A. J. & McDowall, K. J., 26 Jan 2015, In: Scientific Reports. 5, 8028.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • ribonuclease E 100%
  • Endoribonucleases 15%
  • Escherichia coli 14%
  • Anti-Bacterial Agents 13%
  • Catalysis 12%
  16 Citations (Scopus)

  94 Downloads (Pure)
• 2012

  PrionHome: a database of prions and other sequences relevant to prion phenomena.

  Gendoo, D., Harbi, D., Parthiban, M., Ehsani, S., Kumar, M., Schmitt-Ulms, G., Sowdhamini, R. & Harrison, P. M., 20 Feb 2012, In: PLoS ONE.

  Research output: Contribution to journal › Article › peer-review

  • prions 100%
  • Prions 98%
  • Databases 48%
  • Protein 32%
  • taxonomy 23%
  20 Citations (Scopus)

• The landscape of the prion protein's structural response to mutation revealed by principal component analysis of multiple NMR ensembles.

  Gendoo, D. & Paul, H., 9 Aug 2012, In: PLoS Computational Biology. e1102646.

  Research output: Contribution to journal › Article › peer-review

  • Prion Proteins 100%
  • structural response 66%
  • prions 62%
  • Nuclear magnetic resonance 59%
  • Principal Component Analysis 53%
  10 Citations (Scopus)
• 2011

  Discordant and chameleon sequences: their distribution and implications for amyloidogenicity.

  Gendoo, D. & Harrison, P. M., 1 Mar 2011, In: Protein Science. 20, 3, p. 567-579

  Research output: Contribution to journal › Article › peer-review

  • Lizards 100%
  • Protein 30%
  • Amyloidogenic Proteins 29%
  • Secondary Structure 27%
  • Protein Secondary Structure 13%
  25 Citations (Scopus)

• Origins and evolution of the HET-s prion-forming protein: searching for other amyloid-forming solenoids

  Gendoo, D. & Harrison, P. M., 11 Nov 2011, In: PLoS ONE. 6, 11, e27342.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • solenoids 100%
  • Solenoid 98%
  • prions 86%
  • Prions 84%
  • Prion Proteins 83%
  8 Citations (Scopus)

  113 Downloads (Pure)