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Madeleine Lemieux, Ph.D. |
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Contact Information |
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| Bioinfo | Ottawa, Ontario |
| mlemieux[at]bioinfo.ca | |
| Phone | +1 617 595 6695 (cell) |
Skills |
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Education |
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| 09/90-12/95 | Ph.D., Genetics Programme, University of British Columbia, Vancouver, B.C., under the supervision of Dr. Connie J. Eaves at the Terry Fox Laboratory for Hematology/Oncology. I developed an in vitro assay to distinguish blood stem cells, capable of long-term production of both myeloid and lympoid cells, from more committed hematopoietic progenitors and then used the assay to determine how the bone marrow-repopulating ability of these stem cells evolves in culture. |
| 09/82-04/87 | Honours B.Math., Co-op Computer Science, University of Waterloo, Waterloo, Ont. Work Terms: IBM (2 terms), National Research Council of Canada, Canadian International Development Agency, Bell Northern Research (now Nortel). |
Positions and Employment |
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| 04/12-present | Independent Bioinformatics Consultant, Bioinfo, Ottawa, Ontario. |
| 06/05-03/12 | Computational Biologist, Department of Pediatric Oncology, Dana-Farber Cancer Institute and Harvard Medical School, Boston, MA. In collaboration with Drs. Andrew Kung and Vivienne Rebel, amongst others, I'm developing bioinformatics pipelines to analyze data from high-throughput platforms, including next-generation sequencing for ChIP-seq and RNA-seq as well as tiling and expression microarrays, and to integrate these data with other large-scale information sources, such as Gene Ontology and protein-protein interaction networks, to both test hypotheses and generate testable predictions. I've also provided guidance in studies involving hematopoietic cells and more generally in experimental design and analysis to post-doctoral fellows within the Department and mentored two junior bioinformatics post-docs. I was also instrumental in obtaining infrastructure funds and setting up a high-performance computing cluster to help meet the Department's growing need for computational power. |
| 01/04-12/04 | Non-gainfully but enjoyably busy living in Beijing, PRC. Met some great people, sampled lots of delicious food, travelled as much as I could, learned a little Mandarin, something about Chinese culture and a fair bit of Perl and SQL. |
| 06/00-12/03 | Bioinformatics and Information Technology Consultant, Bioinfo, Ottawa, Ont. Founder of Bioinfo and designer and implementer of its web site. |
| 07/00-12/03 | Research Associate, Ottawa Regional Cancer Centre, Ottawa, Ont., under the direction of Dr. Michael W. McBurney. In certain cancers, dysregulated growth occurs as a consequence not of mutation but of the inappropriate shutdown of regulatory genes. In this context, I researched gene silencing as a potential factor in tumour development, focusing specifically on the role of the mammalian Silent Information Regulator 2 (SIR2) protein. I examined the consequences of ablating sir2 gene expression in mice. I also analyzed data from Affymetrix microarrays used to compare gene expression in normal embryonic stem cells and a derived sir2-null cell line. I also helped supervise co-op., undergraduate and graduate students and provided advice and assistance to technicians as necessary. |
| 01/99-06/00 | Post-Doctoral Fellow, Ottawa Regional Cancer Centre, Ottawa, Ont., under the direction of Dr. Michael W. McBurney. I investigated whether repeat-induced gene silencing, a mechanism well-studied in plants, might also play a role in the rapid shut-down of transgenes in embryonic stem cells. |
| 06/96-01/99 | Post-Doctoral Fellow, Loeb Research Institute, Ottawa, Ont., under the direction of Dr. Robert J. Haché. I examined the transcriptional effects of glucocorticoid receptor-homeodomain (Hox) protein interactions. |
| 12/87-08/90 | Applications Support and Software Development Consultant, A.P.G. Inc., Ottawa, Ont. |
Professional Affiliations |
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| Member since 2005, International Society for Computational Biology (ISCB) | Scholarships and Awards |
| 2009 | RECOMB 2009 Travel Fellowship from the ISCB | 2007 | ISMB/ECCB Travel Fellowship from the U.S. Department of Energy |
| 07/97-06/00 | Junior Research Fellowship of the Canadian Cancer Society Research Institute (CCSRI) |
| 09/92-08/95 | Steve Fonyo Studentship of the CCSRI |
| 06/92-08/92 | University of British Columbia Faculty of Medicine Summer Studentship |
| 06/91-08/91 | University of British Columbia Faculty of Medicine Summer Studentship |
| 09/82 | University of Waterloo English Language Proficiency Prize |
| 09/82 | University of Waterloo René Descartes Scholarship (Mathematics) |
P. Anand, J.D. Brown, C.Y. Lin, J. Qi, R. Zhang, P.C. Artero, M.A. Alaiti, J. Bullard, K. Alazem, K.B. Margulies, T.P. Cappola, M. Lemieux, J. Plutzky, J.E. Bradner, S.M. Haldar. BET Bromodomains Mediate Transcriptional Pause Release in Heart Failure. Cell (2013) Aug 1;154(3):569-82.[Abstract]
K. Takada, D. Zhu, G.H. Bird, K. Sukhdeo, J.J. Zhao, M. Mani, M. Lemieux, D.E. Carrasco, J. Ryan, D. Horst, M. Fulcitini, N.C. Munshi, W. Xu, A.L. Kung, R.A. Shivdasani, L.D. Walensky, D.R. Carrasco. Targeted Disruption of the BCL9/β-Catenin Complex Inhibits Oncogenic Wnt Signaling. Sci Transl Med (2012) Aug 22;4(148):148ra117.[Abstract]
M.M. Matzuk, M.R. McKeown, P. Filippakopoulos, Q. Li, L. Ma, J.E. Agno, M.E. Lemieux, S. Picaud, R.N. Yu, J. Qi, S. Knapp, J.E. Bradner. Small-Molecule Inhibition of BRDT for Male Contraception. Cell (2012) Aug 17;150(4):673-84.[Abstract]
S.N. Zimmer, M.E. Lemieux (co-first author), B.P. Karia, C. Day, T. Zhou, Q. Zhou, A.L. Kung, U. Suresh, Y. Chen, M.C. Kinney, A.J.R. Bishop, V.I. Rebel. Mice heterozygous for CREB binding protein are hypersensitive to γ-radiation and invariably develop myelodysplastic/myeloproliferative neoplasm. Exp Hematol (2012) Apr;40(4):295-306.e5. Epub 2011 Dec 20.[Abstract]
M.E. Lemieux, Z. Cheng, Q. Zhou, R. White, J. Cornell, A.L. Kung and V.I. Rebel. Inactivation of a single copy of Crebbp selectively alters pre-mRNA processing in mouse hematopoietic stem cells. PLoS One (2011) 6(8):e24153. Epub 2011 Aug 25.[Abstract]
J.E. Delmore, G.C. Issa, M.E. Lemieux, P.B. Rahl, J. Shi, H.M. Jacobs, E. Kastritis, T. Gilpatrick, R.M. Paranal, J. Qi, M. Chesi, A.C. Schinzel, M.R. McKeown, T.P. Heffernan, C.R. Vakoc, P.L. Bergsagel, I.M. Ghobrial, P.G. Richardson, R.A. Young, W.C. Hahn, K.C. Anderson, A.L. Kung, J.E. Bradner and C.S. Mitsiades. BET bromodomain inhibition as a therapeutic strategy to target c-Myc. Cell (2011) Sep 16;146(6):904-17. Epub 2011 Sep 1.[Abstract]
B.E. Schwartz, M.D. Hofer, M.E. Lemieux, D.E. Bauer, M.J. Cameron, N.H. West, E.S. Agoston, N. Reynoird, S. Khochbin, T.A. Ince, A. Christie, K.A. Janeway, S.O. Vargas, A.R. Perez-Atayde, J.C. Aster, S.E. Sallan, A.L. Kung, J.E. Bradner and C.A. French. Differentiation of NUT midline carcinoma by epigenomic reprogramming. Cancer Res (2011) Apr 1;71(7):2686-96. Epub 2011 Mar 29.[Abstract]
B.G. Wilson, X. Wang, X. Shen, E.S. McKenna, M.E. Lemieux, Y.J. Cho, E.C. Koellhoffer, S.L. Pomeroy, S.H. Orkin and C.W. Roberts. Epigenetic antagonism between polycomb and SWI/SNF complexes during oncogenic transformation. Cancer Cell (2010) Oct 19;18(4):316-28.[Abstract]
E.A. Kimbrel, M.E. Lemieux, X. Xia, T.E. Davis and A.L. Kung. Systematic in vivo structure-function analysis of p300 in hematopoiesis. Blood (2009) 114:4804-4812. Epub 2009 Oct 12. [Abstract]
X. Xia, M.E. Lemieux, W. Li, J.S. Carroll, M. Brown, X.S. Liu and A.L. Kung. Integrative analysis of HIF binding and transactivation reveals its role in maintaining histone methylation homeostasis. Proc Natl Acad Sci USA (2009) Mar 17;106(11):4260-5. Epub 2009 Mar 2. [Abstract]
T.V. Kolesnikova, A.R. Kazarov, M.E. Lemieux, M.A. Lafleur, S. Kesari, A.L. Kung and M.E. Hemler. Glioblastoma inhibition by cell surface immunoglobulin protein EWI-2, in vitro and in vivo. Neoplasia (2009) Jan;11(1):77-86, 4p following 86. [Abstract]
A.V. Krivtsov, Z. Feng, M.E. Lemieux, J. Faber, S. Vempati, A.U. Sinha, X. Xia, J. Jesneck, A.P. Bracken, L.B. Silverman, J.L. Kutok, A.L. Kung and S.A. Armstrong. H3K79 methylation profiles define murine and human MLL-AF4 leukemias. Cancer Cell (2008) Nov 4;14(5):355-68. [Abstract]
D.S. Ziegler, R.D. Wright, S. Keshari, M.E. Lemieux, M.A. Tran, M. Jain, L. Zawel and A.L. Kung. Resistance of human glioblastoma multiforme cells to growth factor inhibitors is overcome by blockade of inhibitor of apoptosis proteins. J Clin Invest (2008) Sep;118(9):3109-22. [Abstract]
L. Bordone, M.C. Motta, F. Picard, A. Robinson, U.S. Jhala, J. Apfeld, T. McDonagh, M. Lemieux, M. McBurney, A. Szilvasi, E.J. Easlon, S.J. Lin, L. Guarente. Sirt1 regulates insulin secretion by repressing UCP2 in pancreatic beta cells. PLoS Biol (2006) Feb;4(2):e31. [Abstract]
M.E. Lemieux, X. Yang, K. Jardine, X. He, K.A. Jacobsen, W.A. Staines, M.E. Harper, and M.W. McBurney. The Sirt1 deacetylase modulates the insulin-like growth factor signalling pathway in mammals. Mech Age Dev (2005) Oct;126(10):1097-105. [Abstract]
M.C. Motta, N. Divecha, M. Lemieux, C. Kamel, D. Chen, W. Gu, Y. Bultsma, M. McBurney and L. Guarente. Mammalian SIRT1 Represses Forkhead Transcription Factors. Cell (2004) 116(4):551-63. [Abstract]
M.W. McBurney, X. Yang, K. Jardine, M. Bieman, J. Th'ng and M. Lemieux. The Absence of SIR2alpha Protein Has No Effect on Global Gene Silencing in Mouse Embryonic Stem Cells. Mol Cancer Res (2003) Mar;1(5):402-9. [Abstract]
M.W. McBurney, X. Yang, K. Jardine, M. Hixon, K. Boekelheide, J.R. Webb, P.M. Lansdorp and M. Lemieux. The mammalian SIR2alpha protein has a role in embryogenesis and gametogenesis. Mol Cell Biol (2003) 23(1):38-54. [Abstract]
J.M. Wang, G.G. Préfontaine, M.E. Lemieux, L. Pope, M.A. Akimenko and R.J. Haché. Developmental effects of ectopic expression of the glucocorticoid receptor DNA binding domain are alleviated by an amino acid substitution that interferes with homeodomain binding. Mol Cell Biol (1999) 19(10):7106-7122. [Abstract]
G.G. Préfontaine, R. Walther, W. Giffin, M.E. Lemieux, L. Pope and R.J. Haché. Selective binding of steroid hormone receptors to octamer transcription factors determines transcriptional synergism at the mouse mammary tumor virus promoter. J Biol Chem (1999) 274(38):26713-26719. [Abstract]
G.G. Préfontaine, M.E. Lemieux, W. Giffen, C. Schild-Poulter, L. Pope, E. LaCasse, P. Walker and R.J. Haché. Recruitment of octamer transcription factors to DNA by glucocorticoid receptor. Mol Cell Biol (1998) 18(6):3416-3430. [Abstract]
M.E. Lemieux, S.M. Chappel, M. Hale, C.L. Miller, R.K. Humphries and C.J. Eaves. Differential ability of Flt3 ligand, interleukin-11 and Steel factor to support the generation of B cell progenitors from primitive murine fetal liver cells. Exp Hematol (1997) 25(9):951-957. [Abstract]
M.E. Lemieux and C.J. Eaves. Identification of properties that can distinguish primitive populations of stromal-cell-responsive lympho-myeloid cells from cells that are stromal-cell-responsive but lymphoid-restricted and cells that have lympho-myeloid potential but are also capable of competitively repopulating myeloablated recipients. Blood (1996) 88(5):1639-1648. [Abstract]
C.L. Miller, V.I. Rebel, M.E. Lemieux, C.D. Helgason, P.M. Lansdorp and C.J. Eaves. Studies of W-mutant mice provide evidence for alternate mechanisms capable of activating hematopoietic stem cells. Exp Hematol (1996) 24(2):185-194. [Abstract]
M.E. Lemieux, V.I. Rebel, P.M. Lansdorp and C.J. Eaves. Characterization and purification of a primitive hematopoietic cell type in adult mouse marrow capable of lympho-myeloid differentiation in long-term marrow "switch" cultures. Blood (1995) 86(4):1339-1347. [Abstract]