Publications | Laboratoire Lemieux

Azadeh Hajmirza, Laura Simon, Jalila Chagraoui, Nadine Mayotte, Jean-Francois Spinella, Tara Macrae, Bernhard Lehnertz, Thierry Bertomeu, Jasmin Coulombe-Huntington, Geneviève Boucher, Sébastien Lemieux, Mike Tyers, Josée Hébert, Guy Sauvageau (2022). Targeting PLZF Enhances Glucocorticoid Sensitivity in Acute Myeloid Leukemia. Blood, 2022.

Guillaume Richard-Carpentier, Francois Beliveau, Sandrine Lacoste, Jean-Francois Spinella, Michael Vladovsky, Patrick Gendron, Sébastien Lemieux, Vincent-Philippe Lavallee, Guy Sauvageau, Josée Hébert (2022). IL1R1 Expression Predicts the Benefit from Allogeneic Hematopoietic Stem Cell Transplantation in Patients with Acute Myeloid Leukemia and Intermediate-Risk Cytogenetics. Blood, 2022.

Feghaly Albert, Gabrielle Thauvette, Marie-Christine Meunier, William Lemieux, Diane Fournier, Lucie Richard, Sébastien Lemieux, Guy Sauvageau, Sandra Cohen, David Desjardins (2022). ECT Match: Optimizing Small-Scale Cord Blood Banking through HLA Analysis. Cord Blood Connect, 2022.

Zhaoguan Wu, Éric Bonneil, Michael Belford, Cornelia Boeser, Maria Virginia Ruiz Cuevas, Sébastien Lemieux, Jean-Jacques Dunyach, Pierre Thibault (2022). Proteogenomics and Differential Ion Mobility Enable the Exploration of the Mutational Landscape in Colon Cancer Cells. Analytical Chemistry, 2022.

Michael Lang, Sébastien Lemieux, Josée Hébert, Guy Sauvageau, H Zawati Ma'n (2021). Legal and Ethical Considerations for the Design and Use of Web Portals for Researchers, Clinicians, and Patients: Scoping Literature Review. Journal of Medical Internet Research.

J. Krosl, M. E. Bordeleau, C. Moison, T. Macrae, I. Boivin, N. Mayotte, D. Gracias, I. Baccelli, V. P. Lavallee, R. Bisaillon, B. Lehnertz, R. Mendoza-Sanchez, R. Ruel, T. Bertomeu, J. Coulombe-Huntington, G. Boucher, N. Noronha, C. Pabst, M. Tyers, P. Gendron, S. Lemieux, F. Barabe, A. Marinier, J. Hebert, G. Sauvageau (2021). Vesicular trafficking is a key determinant of the statin response in acute myeloid leukemia. In: Blood Advances, pp. bloodadvances.2021006047, https://doi.org/10.1182/bloodadvances.2021006047.

M. Dumont-Lagace, Q. Li, M. Tanguay, J. Chagraoui, T. Kientega, G. B. Cardin, A. Brasey, A. Trofimov, C. Carli, I. Ahmad, N. M. Bambace, L. Bernard, T. L. Kiss, J. Roy, D. C. Roy, S. Lemieux, C. Perreault, F. Rodier, S. F. Dufresne, L. Busque, S. Lachance, G. Sauvageau, S. Cohen, J. S. Delisle (2021). UM171-Expanded Cord Blood Transplants Support Robust T Cell Reconstitution with Low Rates of Severe Infections. In: Transplant Cell Ther, (27), 1, pp. 76.e1–76.e9, https://doi.org/10.1016/j.bbmt.2020.09.031.

V. Janelle, M. Neault, M. E. Lebel, D. De Sousa, S. Boulet, L. Durrieu, C. Carli, C. Muzac, S. Lemieux, N. Labrecque, H. Melichar, F. Mallette, J. S. Delisle (2021). p16INK4a Regulates Cellular Senescence in PD-1-Expressing Human T Cells. In: Front. Immunol., (12), pp. 698565, https://doi.org/10.3389/fimmu.2021.698565, https://www.frontiersin.org/articles/10.3389/fimmu.2021.698565/full.

M. V. Ruiz Cuevas, M. P. Hardy, J. Holly, E Bonneil, C. Durette, M. Courcelles, J. Lanoix, C. Cote, L. M. Staudt, S. Lemieux, P. Thibault, C. Perreault, J. W. Yewdell (2021). Most non-canonical proteins uniquely populate the proteome or immunopeptidome. In: Cell Rep, (34), 10, pp. 108815, https://doi.org/10.1016/j.celrep.2021.108815.

T. Daouda, M. Dumont-Lagace, A. Feghaly, Y. Benslimane, R. Panes, M. Courcelles, M. Benhammadi, L. Harrington, P. Thibault, F. Major, Y. Bengio, E. Gagnon, S. Lemieux, C. Perreault (2021). CAMAP: Artificial neural networks unveil the role of codon arrangement in modulating MHC-I peptides presentation. In: PLoS computational biology, (17), 10, pp. e1009482, https://doi.org/10.1371/journal.pcbi.1009482.

Maria Virginia Ruiz, Anca Apavaloaei, Qingchuan Zhao, Marie-Pierre Hardy, Sébastien Lemieux, Claude Perreault, Grégory Ehx (2021). BamQuery: A new proteogenomic tool to explore the immunopeptidome and validate tumor‐specific antigens.. European Journal of Immunology, 51 (S1), p. 60, 2021. doi: 10.1002/eji.202170200.

J. D. Larouche, A. Trofimov, L. Hesnard, G. Ehx, Q. Zhao, K. Vincent, C. Durette, P. Gendron, J. P. Laverdure, E. Bonneil, C. Cote, S. Lemieux, P. Thibault, C. Perreault (2020). Widespread and tissue-specific expression of endogenous retroelements in human somatic tissues. In: Genome Med, (12), 1, pp. 40, https://doi.org/10.1186/s13073-020-00740-7, https://www.ncbi.nlm.nih.gov/pubmed/32345368.

C. V. De Jamblinne, B. Decelle, M. Dehghani, M. Joseph, N. Sriskandarajah, K. Leguay, B. Rambaud, S. Lemieux, P. P. Roux, D. R. Hipfner, S. Carreno (2020). STRIPAK regulates Slik localization to control mitotic morphogenesis and epithelial integrity. In: J Cell Biol, (219), 11, https://doi.org/10.1083/jcb.201911035.

Q. Zhao, J. P. Laverdure, J. Lanoix, C. Durette, C. Cote, E Bonneil, C. M. Laumont, P. Gendron, K. Vincent, M. Courcelles, S. Lemieux, D. G. Millar, P. S. Ohashi, P. Thibault, C. Perreault (2020). Proteogenomics Uncovers a Vast Repertoire of Shared Tumor-Specific Antigens in Ovarian Cancer. In: Cancer Immunol Res, (8), 4, pp. 544–555, https://doi.org/10.1158/2326-6066.Cir-19-0541.

M. Courcelles, C. Durette, T. Daouda, J. P. Laverdure, K. Vincent, S. Lemieux, C. Perreault, P. Thibault (2020). MAPDP: A Cloud-Based Computational Platform for Immunopeptidomics Analyses. In: J Proteome Res, (19), 4, pp. 1873–1881, https://doi.org/10.1021/acs.jproteome.9b00859.

L. Simon, J. F. Spinella, C. Y. Yao, V. P. Lavallee, I. Boivin, G. Boucher, E. Audemard, M. E. Bordeleau, S. Lemieux, J. Hebert, G. Sauvageau (2020). High frequency of germline RUNX1 mutations in patients with RUNX1-mutated AML. In: Blood, (135), 21, pp. 1882–1886, https://doi.org/10.1182/blood.2019003357.

S. Cohen, J. Roy, S. Lachance, J. S. Delisle, A. Marinier, L. Busque, D. C. Roy, F. Barabe, I. Ahmad, N. Bambace, L. Bernard, T. Kiss, P. Bouchard, P. Caudrelier, S. Landais, F. Larochelle, J. Chagraoui, B. Lehnertz, S. Corneau, E. Tomellini, J. J. A. van Kampen, J. J. Cornelissen, M. Dumont-Lagace, M. Tanguay, Q. Li, S. Lemieux, P. W. Zandstra, G. Sauvageau (2020). Hematopoietic stem cell transplantation using single UM171-expanded cord blood: a single-arm, phase 1-2 safety and feasibility study. In: Lancet Haematol, (7), 2, pp. e134–e145, https://doi.org/10.1016/s2352-3026(19)30202-9.

R. Bisaillon, C. Moison, C. Thiollier, J. Krosl, M. E. Bordeleau, B. Lehnertz, V. P. Lavallee, T. Macrae, N. Mayotte, C. Labelle, G. Boucher, J. F. Spinella, I. Boivin, G. D'Angelo, S. Lavallee, A. Marinier, S. Lemieux, J. Hebert, G. Sauvageau (2020). Genetic characterization of ABT-199 sensitivity in human AML. In: Leukemia, (34), 1, pp. 63–74, https://doi.org/10.1038/s41375-019-0485-x.

A. Trofimov, J. P. Cohen, Y. Bengio, C. Perreault, S. Lemieux (2020). Factorized embeddings learns rich and biologically meaningful embedding spaces using factorized tensor decomposition. In: Bioinformatics, (36), Suppl_1, pp. i417–i426, https://doi.org/10.1093/bioinformatics/btaa488.

E. O. Audemard, P. Gendron, A. Feghaly, V. P. Lavallee, J. Hebert, G. Sauvageau, S. Lemieux (2019). Targeted variant detection using unaligned RNA-Seq reads. In: Life Sci Alliance, (2), 4, https://doi.org/10.26508/lsa.201900336.

M. Dumont-Lagace, T. Daouda, L. Depoers, J. Zumer, Y. Benslimane, S. Brochu, L. Harrington, S. Lemieux, C. Perreault (2019). Qualitative Changes in Cortical Thymic Epithelial Cells Drive Postpartum Thymic Regeneration. In: Front Immunol, (10), pp. 3118, https://doi.org/10.3389/fimmu.2019.03118.

I. Baccelli, Y. Gareau, B. Lehnertz, S. Gingras, J. F. Spinella, S. Corneau, N. Mayotte, S. Girard, M. Frechette, V. Blouin-Chagnon, K. Leveille, I. Boivin, T. Macrae, J. Krosl, C. Thiollier, V. P. Lavallee, E. Kanshin, T. Bertomeu, J. Coulombe-Huntington, C. St-Denis, M. E. Bordeleau, G. Boucher, P. P. Roux, S. Lemieux, M. Tyers, P. Thibault, J. Hebert, A. Marinier, G. Sauvageau (2019). Mubritinib Targets the Electron Transport Chain Complex I and Reveals the Landscape of OXPHOS Dependency in Acute Myeloid Leukemia. In: Cancer Cell, (36), 1, pp. 84–99.e8, https://doi.org/10.1016/j.ccell.2019.06.003.

C. Labelle, A. Marinier, S. Lemieux (2019). Enhancing the drug discovery process: Bayesian inference for the analysis and comparison of dose-response experiments. In: Bioinformatics, (35), 14, pp. i464–i473, https://doi.org/10.1093/bioinformatics/btz335.

M. Marquis, C. Beaubois, V. P. Lavallee, M. Abrahamowicz, C. Danieli, S. Lemieux, I. Ahmad, A. Wei, S. B. Ting, S. Fleming, A. Schwarer, D. Grimwade, W. Grey, R. K. Hills, P. Vyas, N. Russell, G. Sauvageau, J. Hebert (2019). Correction: High expression of HMGA2 independently predicts poor clinical outcomes in acute myeloid leukemia. In: Blood Cancer J, (9), 3, pp. 28, https://doi.org/10.1038/s41408-019-0190-z.

C. Moison, V. P. Lavallee, C. Thiollier, B. Lehnertz, I. Boivin, N. Mayotte, Y. Gareau, M. Frechette, V. Blouin-Chagnon, S. Corneau, S. Lavallee, S. Lemieux, A. Marinier, J. Hebert, G. Sauvageau (2019). Complex karyotype AML displays G2/M signature and hypersensitivity to PLK1 inhibition. In: Blood Adv, (3), 4, pp. 552–563, https://doi.org/10.1182/bloodadvances.2018028480, http://www.bloodadvances.org/lookup/doi/10.1182/bloodadvances.2018028480.

V. P. Lavallee, J. Chagraoui, T. Macrae, M. Marquis, A. Bonnefoy, J. Krosl, S. Lemieux, A. Marinier, C. Pabst, GE Rivard, J. Hebert, G. Sauvageau (2018). Transcriptomic landscape of acute promyelocytic leukemia reveals aberrant surface expression of the platelet aggregation agonist Podoplanin. In: Leukemia, (32), 6, pp. 1349–1357, https://doi.org/10.1038/s41375-018-0069-1.

S. Lemieux, T. Sargeant, D. Laperriere, H. Ismail, G. Boucher, M. Rozendaal, V. P. Lavallee, D. Ashton-Beaucage, B. Wilhelm, J. Hebert, D. J. Hilton, S. Mader, G. Sauvageau (2017). MiSTIC, an integrated platform for the analysis of heterogeneity in large tumour transcriptome datasets. In: Nucleic Acids Res, (45), 13, pp. e122, https://doi.org/10.1093/nar/gkx338.

M. Dumont-Lagace, H. Gerbe, T. Daouda, J. P. Laverdure, S. Brochu, S. Lemieux, E Gagnon, C. Perreault (2017). Detection of Quiescent Radioresistant Epithelial Progenitors in the Adult Thymus. In: Front Immunol, (8), pp. 1717, https://doi.org/10.3389/fimmu.2017.01717.

L. Simon, V. P. Lavallee, M. E. Bordeleau, J. Krosl, I. Baccelli, G. Boucher, B. Lehnertz, J. Chagraoui, T. Macrae, R. Ruel, Y. Chantigny, S. Lemieux, A. Marinier, J. Hebert, G. Sauvageau (2017). Chemogenomic Landscape of RUNX1-mutated AML Reveals Importance of RUNX1 Allele Dosage in Genetics and Glucocorticoid Sensitivity. In: Clin Cancer Res, (23), 22, pp. 6969–6981, https://doi.org/10.1158/1078-0432.Ccr-17-1259.

I. Baccelli, J. Krosl, G. Boucher, I. Boivin, V. P. Lavallee, J. Hebert, S. Lemieux, A. Marinier, G. Sauvageau (2017). A novel approach for the identification of efficient combination therapies in primary human acute myeloid leukemia specimens. In: Blood Cancer J, (7), 2, pp. e529, https://doi.org/10.1038/bcj.2017.10.

A. Maiga, S. Lemieux, C. Pabst, V. P. Lavallee, M. Bouvier, G. Sauvageau, J. Hebert (2016). Transcriptome analysis of G protein-coupled receptors in distinct genetic subgroups of acute myeloid leukemia: identification of potential disease-specific targets. In: Blood Cancer J, (6), 6, pp. e431, https://doi.org/10.1038/bcj.2016.36.

V. P. Lavallee, S. Lemieux, G. Boucher, P. Gendron, I. Boivin, R. N. Armstrong, G. Sauvageau, J. Hebert (2016). RNA-sequencing analysis of core binding factor AML identifies recurrent ZBTB7A mutations and defines RUNX1-CBFA2T3 fusion signature. In: Blood, (127), 20, pp. 2498–501, https://doi.org/10.1182/blood-2016-03-703868.

T. Daouda, C. Perreault, S. Lemieux (2016). pyGeno: A Python package for precision medicine and proteogenomics. In: F1000Res, (5), pp. 381, https://doi.org/10.12688/f1000research.8251.2.

D. P. Granados, A. Rodenbrock, J. P. Laverdure, C. Cote, O. Caron-Lizotte, C. Carli, H. Pearson, V. Janelle, C. Durette, E. Bonneil, D. C. Roy, J. S. Delisle, S. Lemieux, P. Thibault, C. Perreault (2016). Proteogenomic-based discovery of minor histocompatibility antigens with suitable features for immunotherapy of hematologic cancers. In: Leukemia, (30), 6, pp. 1344–54, https://doi.org/10.1038/leu.2016.22.

H. Pearson, T. Daouda, D. P. Granados, C. Durette, E. Bonneil, M. Courcelles, A. Rodenbrock, J. P. Laverdure, C. Cote, S. Mader, S. Lemieux, P. Thibault, C. Perreault (2016). MHC class I-associated peptides derive from selective regions of the human genome. In: J Clin Invest, (126), 12, pp. 4690–4701, https://doi.org/10.1172/jci88590.

V. P. Lavallee, S. Lemieux, G. Boucher, P. Gendron, I. Boivin, S. Girard, J. Hebert, G. Sauvageau (2016). Identification of MYC mutations in acute myeloid leukemias with NUP98-NSD1 translocations. In: Leukemia, (30), 7, pp. 1621–4, https://doi.org/10.1038/leu.2016.19.

C. Pabst, A. Bergeron, V. P. Lavallee, J. Yeh, P. Gendron, G. L. Norddahl, J. Krosl, I. Boivin, E. Deneault, J. Simard, S. Imren, G. Boucher, K. Eppert, T. Herold, S. K. Bohlander, K. Humphries, S. Lemieux, J. Hebert, G. Sauvageau, F. Barabe (2016). GPR56 identifies primary human acute myeloid leukemia cells with high repopulating potential in vivo. In: Blood, (127), 16, pp. 2018–27, https://doi.org/10.1182/blood-2015-11-683649.

C. M. Laumont, T. Daouda, J. P. Laverdure, E Bonneil, O. Caron-Lizotte, M. P. Hardy, D. P. Granados, C. Durette, S. Lemieux, P. Thibault, C. Perreault (2016). Global proteogenomic analysis of human MHC class I-associated peptides derived from non-canonical reading frames. In: Nat Commun, (7), pp. 10238, https://doi.org/10.1038/ncomms10238.

A. Rouette, A. Trofimov, D. Haberl, G. Boucher, V. P. Lavallee, G. D'Angelo, J. Hebert, G. Sauvageau, S. Lemieux, C. Perreault (2016). Expression of immunoproteasome genes is regulated by cell-intrinsic and -extrinsic factors in human cancers. In: Sci Rep, (6), pp. 34019, https://doi.org/10.1038/srep34019.

V. P. Lavallee, J. Krosl, S. Lemieux, G. Boucher, P. Gendron, C. Pabst, I. Boivin, A. Marinier, C. J. Guidos, S. Meloche, J. Hebert, G. Sauvageau (2016). Chemo-genomic interrogation of CEBPA mutated AML reveals recurrent CSF3R mutations and subgroup sensitivity to JAK inhibitors. In: Blood, (127), 24, pp. 3054–61, https://doi.org/10.1182/blood-2016-03-705053.

V. P. Lavallee, I. Baccelli, J. Krosl, B. Wilhelm, F. Barabe, P. Gendron, G. Boucher, S. Lemieux, A. Marinier, S. Meloche, J. Hebert, G. Sauvageau (2015). The transcriptomic landscape and directed chemical interrogation of MLL-rearranged acute myeloid leukemias. In: Nat Genet, (47), 9, pp. 1030–7, https://doi.org/10.1038/ng.3371.

E. Bonneau, N. Girard, S. Lemieux, P. Legault (2015). The NMR structure of the II-III-VI three-way junction from the Neurospora VS ribozyme reveals a critical tertiary interaction and provides new insights into the global ribozyme structure. In: Rna, (21), 9, pp. 1621–32, https://doi.org/10.1261/rna.052076.115.

V. P. Lavallee, P. Gendron, S. Lemieux, G. D'Angelo, J. Hebert, G. Sauvageau (2015). EVI1-rearranged acute myeloid leukemias are characterized by distinct molecular alterations. In: Blood, (125), 1, pp. 140–3, https://doi.org/10.1182/blood-2014-07-591529.

C. St-Pierre, A. Trofimov, S. Brochu, S. Lemieux, C. Perreault (2015). Differential Features of AIRE-Induced and AIRE-Independent Promiscuous Gene Expression in Thymic Epithelial Cells. In: J Immunol, (195), 2, pp. 498–506, https://doi.org/10.4049/jimmunol.1500558.

B. Gerby, C. S. Tremblay, M. Tremblay, S. Rojas-Sutterlin, S. Herblot, J. Hebert, G. Sauvageau, S. Lemieux, E. Lecuyer, D. F. Veiga, T. Hoang (2014). SCL, LMO1 and Notch1 reprogram thymocytes into self-renewing cells. In: PLoS Genet, (10), 12, pp. e1004768, https://doi.org/10.1371/journal.pgen.1004768.

D. P. Granados, D. Sriranganadane, T. Daouda, A. Zieger, C. M. Laumont, O. Caron-Lizotte, G. Boucher, M. P. Hardy, P. Gendron, C. Cote, S. Lemieux, P. Thibault, C. Perreault (2014). Impact of genomic polymorphisms on the repertoire of human MHC class I-associated peptides. In: Nat Commun, (5), pp. 3600, https://doi.org/10.1038/ncomms4600.

C. Pabst, J. Krosl, I. Fares, G. Boucher, R. Ruel, A. Marinier, S. Lemieux, J. Hebert, G. Sauvageau (2014). Identification of small molecules that support human leukemia stem cell activity ex vivo. In: Nat Methods, (11), 4, pp. 436–42, https://doi.org/10.1038/nmeth.2847.

M. Celton, A. Forest, G. Gosse, S. Lemieux, J. Hebert, G. Sauvageau, B. T. Wilhelm (2014). Epigenetic regulation of GATA2 and its impact on normal karyotype acute myeloid leukemia. In: Leukemia, (28), 8, pp. 1617–26, https://doi.org/10.1038/leu.2014.67.

D. Ashton-Beaucage, C. M. Udell, P. Gendron, M. Sahmi, M. Lefrancois, C. Baril, A. S. Guenier, J. Duchaine, D. Lamarre, S. Lemieux, M. Therrien (2014). A functional screen reveals an extensive layer of transcriptional and splicing control underlying RAS/MAPK signaling in Drosophila. In: PLoS Biol, (12), 3, pp. e1001809, https://doi.org/10.1371/journal.pbio.1001809.

C. St-Pierre, S. Brochu, J. R. Vanegas, M. Dumont-Lagace, S. Lemieux, C. Perreault (2013). Transcriptome sequencing of neonatal thymic epithelial cells. In: Sci Rep, (3), pp. 1860, https://doi.org/10.1038/srep01860.

J. S. Delisle, M. Giroux, G. Boucher, J. R. Landry, M. P. Hardy, S. Lemieux, R. G. Jones, B. T. Wilhelm, C. Perreault (2013). The TGF-β-Smad3 pathway inhibits CD28-dependent cell growth and proliferation of CD4 T cells. In: Genes Immun, (14), 2, pp. 115–26, https://doi.org/10.1038/gene.2012.63.

T. Macrae, T. Sargeant, S. Lemieux, J. Hebert, E. Deneault, G. Sauvageau (2013). RNA-Seq reveals spliceosome and proteasome genes as most consistent transcripts in human cancer cells. In: PLoS One, (8), 9, pp. e72884, https://doi.org/10.1371/journal.pone.0072884.

M. Courcelles, C. Fremin, L. Voisin, S. Lemieux, S. Meloche, P. Thibault (2013). Phosphoproteome dynamics reveal novel ERK1/2 MAP kinase substrates with broad spectrum of functions. In: Mol Syst Biol, (9), pp. 669, https://doi.org/10.1038/msb.2013.25.

J. Nocq, M. Celton, P. Gendron, S. Lemieux, B. T. Wilhelm (2013). Harnessing virtual machines to simplify next-generation DNA sequencing analysis. In: Bioinformatics, (29), 17, pp. 2075–83, https://doi.org/10.1093/bioinformatics/btt352.

J. Lacombe, G. Krosl, M. Tremblay, B. Gerby, R. Martin, P. D. Aplan, S. Lemieux, T. Hoang (2013). Genetic interaction between Kit and Scl. In: Blood, (122), 7, pp. 1150–61, https://doi.org/10.1182/blood-2011-01-331819.

P. Serhal, S. Lemieux (2013). Correction of spatial bias in oligonucleotide array data. In: Adv Bioinformatics, (2013), pp. 167915, https://doi.org/10.1155/2013/167915.

M. Courcelles, G. Bridon, S. Lemieux, P. Thibault (2012). Occurrence and detection of phosphopeptide isomers in large-scale phosphoproteomics experiments. In: J Proteome Res, (11), 7, pp. 3753–65, https://doi.org/10.1021/pr300229m.

D. P. Granados, W. Yahyaoui, C. M. Laumont, T. Daouda, T. L. Muratore-Schroeder, C. Cote, J. P. Laverdure, S. Lemieux, P. Thibault, C. Perreault (2012). MHC I-associated peptides preferentially derive from transcripts bearing miRNA response elements. In: Blood, (119), 26, pp. e181–91, https://doi.org/10.1182/blood-2012-02-412593.

J. Lacroix-Labonte, N. Girard, S. Lemieux, P. Legault (2012). Helix-length compensation studies reveal the adaptability of the VS ribozyme architecture. In: Nucleic Acids Res, (40), 5, pp. 2284–93, https://doi.org/10.1093/nar/gkr1018.

C. Simon, J. Chagraoui, J. Krosl, P. Gendron, B. Wilhelm, S. Lemieux, G. Boucher, P. Chagnon, S. Drouin, R. Lambert, C. Rondeau, A. Bilodeau, S. Lavallee, M. Sauvageau, J. Hebert, G. Sauvageau (2012). A key role for EZH2 and associated genes in mouse and human adult T-cell acute leukemia. In: Genes Dev, (26), 7, pp. 651–6, https://doi.org/10.1101/gad.186411.111.

E. Caron, K. Vincent, M. H. Fortier, J. P. Laverdure, A. Bramoulle, M. P. Hardy, G. Voisin, P. P. Roux, S. Lemieux, P. Thibault, C. Perreault (2011). The MHC I immunopeptidome conveys to the cell surface an integrative view of cellular regulation. In: Mol Syst Biol, (7), pp. 533, https://doi.org/10.1038/msb.2011.68.

M. Courcelles, S. Lemieux, L. Voisin, S. Meloche, P. Thibault (2011). ProteoConnections: a bioinformatics platform to facilitate proteome and phosphoproteome analyses. In: Proteomics, (11), 13, pp. 2654–71, https://doi.org/10.1002/pmic.201000776.

D. De Verteuil, T. L. Muratore-Schroeder, D. P. Granados, M. H. Fortier, M. P. Hardy, A. Bramoulle, E. Caron, K. Vincent, S. Mader, S. Lemieux, P. Thibault, C. Perreault (2010). Deletion of immunoproteasome subunits imprints on the transcriptome and has a broad impact on peptides presented by major histocompatibility complex I molecules. In: Mol Cell Proteomics, (9), 9, pp. 2034–47, https://doi.org/10.1074/mcp.M900566-MCP200.

E. Caron, S. Ghosh, Y. Matsuoka, D. Ashton-Beaucage, M. Therrien, S. Lemieux, C. Perreault, P. P. Roux, H. Kitano (2010). A comprehensive map of the mTOR signaling network. In: Mol Syst Biol, (6), pp. 453, https://doi.org/10.1038/msb.2010.108.

M. Trost, L. English, S. Lemieux, M. Courcelles, M. Desjardins, P. Thibault (2009). The phagosomal proteome in interferon-gamma-activated macrophages. In: Immunity, (30), 1, pp. 143–54, https://doi.org/10.1016/j.immuni.2008.11.006.

B. Devkota, A. S. Petrov, S. Lemieux, M. B. Boz, L. Tang, A. Schneemann, J. E. Johnson, S. C. Harvey (2009). Structural and electrostatic characterization of pariacoto virus: implications for viral assembly. In: Biopolymers, (91), 7, pp. 530–8, https://doi.org/10.1002/bip.21168.

K. Trunk, P. Gendron, A. Nantel, S. Lemieux, T. Roemer, M. Raymond (2009). Depletion of the cullin Cdc53p induces morphogenetic changes in Candida albicans. In: Eukaryot Cell, (8), 5, pp. 756–67, https://doi.org/10.1128/ec.00332-08.

M. H. Fortier, E. Caron, M. P. Hardy, G. Voisin, S. Lemieux, C. Perreault, P. Thibault (2008). The MHC class I peptide repertoire is molded by the transcriptome. In: J Exp Med, (205), 3, pp. 595–610, https://doi.org/10.1084/jem.20071985.

P. Bouchard, J. Lacroix-Labonte, G. Desjardins, P. Lampron, V. Lisi, S. Lemieux, F. Major, P. Legault (2008). Role of SLV in SLI substrate recognition by the Neurospora VS ribozyme. In: Rna, (14), 4, pp. 736–48, https://doi.org/10.1261/rna.824308.

M. Sauvageau, M. Miller, S. Lemieux, J. Lessard, J. Hebert, G. Sauvageau (2008). Quantitative expression profiling guided by common retroviral insertion sites reveals novel and cell type specific cancer genes in leukemia. In: Blood, (111), 2, pp. 790–9, https://doi.org/10.1182/blood-2007-07-098236.

N. D. Fedorova, N. Khaldi, V. S. Joardar, R. Maiti, P. Amedeo, M. J. Anderson, J. Crabtree, J. C. Silva, J. H. Badger, A. Albarraq, S. Angiuoli, H. Bussey, P. Bowyer, P. J. Cotty, P. S. Dyer, A. Egan, K. Galens, C. M. Fraser-Liggett, B. J. Haas, J. M. Inman, R. Kent, S. Lemieux, I. Malavazi, J. Orvis, T. Roemer, C. M. Ronning, J. P. Sundaram, G. Sutton, G. Turner, J. C. Venter, O. R. White, B. R. Whitty, P. Youngman, K. H. Wolfe, G. H. Goldman, J. R. Wortman, B. Jiang, D. W. Denning, W. C. Nierman (2008). Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus. In: PLoS Genet, (4), 4, pp. e1000046, https://doi.org/10.1371/journal.pgen.1000046.

S. Znaidi, S. Weber, O. Z. Al-Abdin, P. Bomme, S. Saidane, S. Drouin, S. Lemieux, X. De Deken, F. Robert, M. Raymond (2008). Genomewide location analysis of Candida albicans Upc2p, a regulator of sterol metabolism and azole drug resistance. In: Eukaryot Cell, (7), 5, pp. 836–47, https://doi.org/10.1128/ec.00070-08.

D. Xu, B. Jiang, T. Ketela, S. Lemieux, K. Veillette, N. Martel, J. Davison, S. Sillaots, S. Trosok, C. Bachewich, H. Bussey, P. Youngman, T. Roemer (2007). Genome-wide fitness test and mechanism-of-action studies of inhibitory compounds in Candida albicans. In: PLoS Pathog, (3), 6, pp. e92, https://doi.org/10.1371/journal.ppat.0030092.

M. Heroux, M. Hogue, S. Lemieux, M. Bouvier (2007). Functional calcitonin gene-related peptide receptors are formed by the asymmetric assembly of a calcitonin receptor-like receptor homo-oligomer and a monomer of receptor activity-modifying protein-1. In: J Biol Chem, (282), 43, pp. 31610–20, https://doi.org/10.1074/jbc.M701790200.

W. Hu, S. Sillaots, S. Lemieux, J. Davison, S. Kauffman, A. Breton, A. Linteau, C. Xin, J. Bowman, J. Becker, B. Jiang, T. Roemer (2007). Essential gene identification and drug target prioritization in Aspergillus fumigatus. In: PLoS Pathog, (3), 3, pp. e24, https://doi.org/10.1371/journal.ppat.0030024.

S. Lemieux (2006). Probe-level linear model fitting and mixture modeling results in high accuracy detection of differential gene expression. In: BMC Bioinformatics, (7), pp. 391, https://doi.org/10.1186/1471-2105-7-391.

S. Lemieux, F. Major (2006). Automated extraction and classification of RNA tertiary structure cyclic motifs. In: Nucleic Acids Res, (34), 8, pp. 2340–6, https://doi.org/10.1093/nar/gkl120.

T. Roemer, B. Jiang, J. Davison, T. Ketela, K. Veillette, A. Breton, F. Tandia, A. Linteau, S. Sillaots, C. Marta, N. Martel, S. Veronneau, S. Lemieux, S. Kauffman, J. Becker, R. Storms, C. Boone, H. Bussey (2003). Large-scale essential gene identification in Candida albicans and applications to antifungal drug discovery. In: Mol Microbiol, (50), 1, pp. 167–81, https://doi.org/10.1046/j.1365-2958.2003.03697.x.

S. Lemieux, F. Major (2002). RNA canonical and non-canonical base pairing types: a recognition method and complete repertoire. In: Nucleic Acids Res, (30), 19, pp. 4250–63, https://doi.org/10.1093/nar/gkf540.

P. Gendron, S. Lemieux, F. Major (2001). Quantitative analysis of nucleic acid three-dimensional structures. In: J Mol Biol, (308), 5, pp. 919–36, https://doi.org/10.1006/jmbi.2001.4626.

S. Lemieux, P. Chartrand, R. Cedergren, F. Major (1998). Modeling active RNA structures using the intersection of conformational space: application to the lead-activated ribozyme. In: Rna, (4), 7, pp. 739–49, https://doi.org/10.1017/s1355838298971266.

F. Zhang, S. Lemieux, X. Wu, D. St-Arnaud, C. T. McMurray, F. Major, D. Anderson (1998). Function of hexameric RNA in packaging of bacteriophage phi 29 DNA in vitro. In: Mol Cell, (2), 1, pp. 141–7, https://doi.org/10.1016/s1097-2765(00)80123-9.