Publications

2020

Widespread and tissue-specific expression of endogenous retroelements in human somatic tissues.
Larouche JD, Trofimov A, Hesnard L, Ehx G, Zhao Q, Vincent K, Durette C, Gendron P, Laverdure JP, Bonneil É, Côté C, Lemieux S, Thibault P, Perreault C.
Genome Med. 2020 Apr 28;12(1):40.
PMID: 32345368

Proteogenomics Uncovers a Vast Repertoire of Shared Tumor-Specific Antigens in Ovarian Cancer.
Zhao Q, Laverdure JP, Lanoix J, Durette C, Côté C, Bonneil É, Laumont CM, Gendron P, Vincent K, Courcelles M, Lemieux S, Millar DG, Ohashi PS, Thibault P, Perreault C.
Cancer Immunol Res. 2020 Apr;8(4):544-555.
PMID: 32047025

MAPDP: A Cloud-Based Computational Platform for Immunopeptidomics Analyses.
Courcelles M, Durette C, Daouda T, Laverdure JP, Vincent K, Lemieux S, Perreault C, Thibault P.
J Proteome Res. 2020 Apr 3;19(4):1873-1881.
PMID: 32108478

Major multilevel molecular divergence between THP-1 cells from different biorepositories.
Noronha N, Ehx G, Meunier MC, Laverdure JP, Thériault C, Perreault C.
Int J Cancer. 2020 Mar 12.
PMID: 32163592

High frequency of germline RUNX1 mutations in RUNX1 mutated AML patients.
Simon L, Spinella JF, Yao CY, Lavallée VP, Boivin I, Boucher G, Audemard E, Bordeleau ME, Lemieux S, Hebert J, Sauvageau G.
Blood. 2020 Feb 13. pii: blood.2019003357.
PMID: 32315381

Genetic characterization of ABT-199 sensitivity in human AML.
Bisaillon R, Moison C, Thiollier C, Krosl J, Bordeleau ME, Lehnertz B, Lavallée VP, MacRae T, Mayotte N, Labelle C, Boucher G, Spinella JF, Boivin I, D’Angelo G, Lavallée S, Marinier A, Lemieux S, Hébert J, Sauvageau G.
Leukemia. 2020 Jan;34(1):63-74.
PMID: 31300747

2019

Human models of NUP98-KDM5A megakaryocytic leukemia in mice contribute to uncovering new biomarkers and therapeutic vulnerabilities.
Cardin S, Bilodeau M, Roussy M, Aubert L, Milan T, Jouan L, Rouette A, Laramée L, Gendron P, Duchaine J, Decaluwe H, Spinella JF, Mourad S, Couture F, Sinnett D, Haddad É, Landry JR, Ma J, Humphries RK, Roux PP, Hébert J, Gruber TA, Wilhelm BT, Cellot S.
Blood Adv. 2019 Nov 12;3(21):3307-3321.
PMID: 31698461

Cryptic recurrent ACIN1-NUTM1 fusions in non KMT2A-rearranged infant acute lymphoblastic leukemia.
Pincez T, Landry JR, Roussy M, Jouan L, Bilodeau M, Laramée L, Couture F, Sinnett D, Gendron P, Hébert J, Oligny L, Rouette A, Tran TH, Wilhelm B, Bittencourt H, Cellot S
Genes Chromosomes Cancer. 2019 Sep 12.
PMID: 31515871

IDH1 as a Cooperating Mutation in AML Arising in the Context of Shwachman-Diamond Syndrome.
Mourad S, Bilodeau M, Roussy M, Laramée L, Boulianne L, Rouette A, Jouan L, Gendron P, Duval M, Teira P, Hébert J, Bittencourt H, Pastore Y, Landry JR, Cellot S.
Front Oncol. 2019 Aug 14;9:772. doi: 10.3389/fonc.2019.00772. eCollection 2019.
PMID: 31475115

Targeted variant detection using unaligned RNA-Seq reads.
Audemard EO, Gendron P, Feghaly A, Lavallée VP, Hébert J, Sauvageau G, Lemieux S.
Life Sci Alliance. 2019 Aug 19;2(4). pii: e201900336. doi: 10.26508/lsa.201900336. Print 2019 Aug.
PMID: 31427380

Apoptotic endothelial cells release small extracellular vesicles loaded with immunostimulatory viral-like RNAs.
Hardy MP, Audemard É, Migneault F, Feghaly A, Brochu S, Gendron P, Boilard É, Major F, Dieudé M, Hébert MJ, Perreault C
Sci Rep 2019-05-10;9(1):7203.
PMID: 31076589

Hepatic leukemia factor is a novel leukemic stem cell regulator in DNMT3A, NPM1, and FLT3-ITD triple-mutated AML.
Garg S, Reyes-Palomares A, He L, Bergeron A, Lavallée VP, Lemieux S, Gendron P, Rohde C, Xia J, Jagdhane P, Müller-Tidow C, Lipka DB, Imren S, Humphries RK, Waskow C, Vick B, Jeremias I, Richard-Carpentier G, Hébert J, Sauvageau G, Zaugg J, Barabé F, Pabst C
Blood 2019-05-10.
PMID: 31076446

Role of SUMOylation in differential ERα transcriptional repression by tamoxifen and fulvestrant in breast cancer cells.
Traboulsi T, El Ezzy M, Dumeaux V, Audemard E, Mader S.
Oncogene. 2019 Feb;38(7):1019-1037. doi: 10.1038/s41388-018-0468-9. Epub 2018 Sep 6.
PMID: 30190545

2018

Noncoding regions are the main source of targetable tumor-specific antigens.
Laumont CM, Vincent K, Hesnard L, Audemard É, Bonneil É, Laverdure JP, Gendron P, Courcelles M, Hardy MP, Côté C, Durette C, St-Pierre C, Benhammadi M, Lanoix J, Vobecky S, Haddad E, Lemieux S, Thibault P, Perreault C.
Sci Transl Med. 2018 Dec 5;10(470). pii: eaau5516. doi: 10.1126/scitranslmed.aau5516.
Pubmed ID: 30518613

HIV-1 employs multiple mechanisms to resist Cas9/sgRNA targeting the viral primer binding site
Wang Z, Wang W, Cui YC, Pan Q, Zhu W, Gendron P, Guo F, Cen S, Witcher M, Liang C.
J Virol. 2018 Aug 1. pii: JVI.01135-18. doi: 10.1128/JVI.01135-18.
Pubmed ID: 30068653

Target variant detection in leukemia using unaligned RNA-Seq reads
Éric Audemard, Patrick Gendron, Vincent-Philippe Lavallée, Josée Hébert, Guy Sauvageau, Sebastien Lemieux
bioRxiv 295808; doi: https://doi.org/10.1101/295808

NUP98-BPTF gene fusion identified in primary refractory acute megakaryoblastic leukemia of infancy.
Roussy M, Bilodeau M, Jouan L, Tibout P, Laramée L, Lemyre E, Léveillé F, Tihy F, Cardin S, Sauvageau C, Couture F, Louis I, Choblet A, Patey N, Gendron P, Duval M, Teira P, Hébert J, Wilhelm BT, Choi JK, Gruber TA, Bittencourt H, Cellot S
Genes Chromosomes Cancer. 2018.
Pubmed ID: 29427526

2017

Detection of Quiescent Radioresistant Epithelial Progenitors in the Adult Thymus.
Dumont-Lagacé M, Gerbe H, Daouda T, Laverdure JP, Brochu S, Lemieux S, Gagnon É, Perreault C.
Front Immunol. 2017 Dec 5;8:1717.
Pubmed ID: 29259606

Chemogenomic landscape of RUNX1-mutated AML reveals importance of RUNX1 allele dosage in genetics and glucocorticoid sensitivity.
Simon L, Lavallée VP, Bordeleau ME, Krosl J, Baccelli I, Boucher G, Lehnertz B, Chagraoui J, MacRae T, Ruel R, Chantigny YA, Lemieux S, Marinier A, Hébert J, Sauvageau G
Clin. Cancer Res. 2017.
Pubmed ID: 28855357

UBAP2L is amplified in a large subset of human lung adenocarcinoma and is critical for epithelial lung cell identity and tumor metastasis.
Aucagne R, Girard S, Mayotte N, Lehnertz B, Lopes-Paciencia S, Gendron P, Boucher G, Chagraoui J, Sauvageau G
FASEB J. 2017.
Pubmed ID: 28754713

MiSTIC, an integrated platform for the analysis of heterogeneity in large tumour transcriptome datasets.
Lemieux S, Sargeant T, Laperrière D, Ismail H, Boucher G, Rozendaal M, Lavallée VP, Ashton-Beaucage D, Wilhelm B, Hébert J, Hilton DJ, Mader S, Sauvageau G.
Nucleic Acids Res. 2017 May 4. doi: 10.1093/nar/gkx338
PMID: 28472340

A novel approach for the identification of efficient combination therapies in primary human acute myeloid leukemia specimens.
Baccelli I, Krosl J, Boucher G, Boivin I, Lavallée VP, Hébert J, Lemieux S, Marinier A, Sauvageau G.
Blood Cancer J. 2017 Feb 17;7(2):e529. doi: 10.1038/bcj.2017.10.
PMID: 28211886

2016

MHC class I-associated peptides derive from selective regions of the human genome.
Pearson H, Daouda T, Granados DP, Durette C, Bonneil E, Courcelles M, Rodenbrock A, Laverdure JP, Côté C, Mader S, Lemieux S, Thibault P, Perreault C.
J Clin Invest. 2016
PMID: 27841757

Expression of immunoproteasome genes is regulated by cell-intrinsic and -extrinsic factors in human cancers.
Rouette A, Trofimov A, Haberl D, Boucher G, Lavallée VP, D’Angelo G, Hébert J, Sauvageau G, Lemieux S, Perreault C
Sci Rep. 2016 Sep 23;6:34019.
PMID: 27659694

myCircos: Facilitating the Creation and Use of Circos Plots Online
Labelle C, Boucher G, Lemieux S
BioRxiv 2016-05-10.

CRISPR/Cas9-Derived Mutations Both Inhibit HIV-1 Replication and Accelerate Viral Escape
Zhen Wang, Qinghua Pan, Patrick Gendron, Weijun Zhu, Fei Guo, Shan Cen, Mark A. Wainberg, Chen Liang
Cell Reports 2016
PMID: 27068471

Chemo-genomic interrogation of CEBPA mutated AML reveals recurrent CSF3R mutations and subgroup sensitivity to JAK inhibitors.
Lavallée VP, Krosl J, Lemieux S, Boucher G, Gendron P, Pabst C, Boivin I, Marinier A, Guidos CJ, Meloche S, Hébert J, Sauvageau G
Blood 2016-03-31.
PMID: 27034432

RNA-sequencing analysis of core binding factor AML identifies recurrent ZBTB7A mutations and defines RUNX1-CBFA2T3 fusion signature.
Lavallée VP, Lemieux S, Boucher G, Gendron P, Boivin I, Armstrong RN, Sauvageau G, Hébert J
Blood 2016-03-11.
PMID: 26968532

Proteogenomic-based discovery of minor histocompatibility antigens with suitable features for immunotherapy of hematologic cancers.
Granados DP, Rodenbrock A, Laverdure JP, Côté C, Caron-Lizotte O, Carli C, Pearson H, Janelle V, Durette C, Bonneil E, Roy DC, Delisle JS, Lemieux S, Thibault P, Perreault C
Leukemia 2016-02-09.
PMID: 26857467

Identification of MYC mutations in acute myeloid leukemias with NUP98-NSD1 translocations.
Lavallée VP, Lemieux S, Boucher G, Gendron P, Boivin I, Girard S, Hébert J, Sauvageau G
Leukemia 2016-02-09.
PMID: 26859078

GPR56 identifies primary human acute myeloid leukemia cells with high repopulating potential in vivo.
Pabst C, Bergeron A, Lavallée VP, Yeh J, Gendron P, Norddahl GL, Krosl J, Boivin I, Deneault E, Simard J, Imren S, Boucher G, Eppert K, Herold T, Bohlander SK, Humphries K, Lemieux S, Hébert J, Sauvageau G, Barabé F
Blood 2016-02-01.
PMID: 26834243

Global proteogenomic analysis of human MHC class I-associated peptides derived from non-canonical reading frames.
Laumont CM, Daouda T, Laverdure JP, Bonneil É, Caron-Lizotte O, Hardy MP, Granados DP, Durette C, Lemieux S, Thibault P, Perreault C
Nat Commun 2016-01-01;7:10238.
PMID: 26728094

2015

The transcriptomic landscape and directed chemical interrogation of MLL-rearranged acute myeloid leukemias.
Lavallée VP, Baccelli I, Krosl J, Wilhelm B, Barabé F, Gendron P, Boucher G, Lemieux S, Marinier A, Meloche S, Hébert J, Sauvageau G
Nat. Genet. 2015-09-01;47(9):1030-7.
PMID: 26237430

EVI1-rearranged acute myeloid leukemias are characterized by distinct molecular alterations.
Lavallée VP, Gendron P, Lemieux S, D’Angelo G, Hébert J, Sauvageau G
Blood 2015-01-01;125(1):140-3.
PMID: 25331116

2014

Long non-coding RNA expression in normal and leukemic human blood samples: Towards the identification of novel biomarkers and hematopoietic regulators
Lehnertz B, Boucher G, Mallard W, Gendron P, Hebert J, Lemieux S, Rinn J, Sauvageau G
Exp. Hematol. 2014-08-01;42(8 Suppl):S45.

AML with EVI1 rearrangements are characterized by SF3B1 and IKZF1 mutations and distinct expression of MECOM isoforms.
Lavallée VP, Boivin I, Armstrong RN, Lemieux S, Gendron P, Hebert J, Sauvageau G
Exp. Hematol. 2014-08-01;42(8 Suppl):S44.
PMID: 25106277

The sonic hedgehog factor GLI1 imparts drug resistance through inducible glucuronidation
Zahreddine HA, Culjkovic-Kraljacic B, Assouline S, Gendron P, Romeo AA, Morris SJ, Cormack G, Jaquith JB, Cerchietti L, Cocolakis E, Amri A, Bergeron J, Leber B, Becker MW, Pei S, Jordan CT, Miller WH, Borden KL.
Nature. 2014 Jul 3;511(7507):90-3.
PMID: 24870236

Impact of genomic polymorphisms on the repertoire of human MHC class I-associated peptides.
Granados DP, Sriranganadane D, Daouda T, Zieger A, Laumont CM, Caron-Lizotte O, Boucher G, Hardy MP, Gendron P, Côté C, Lemieux S, Thibault P, Perreault C
Nat Commun 2014-04-09;5:3600.
PMID: 24714562

Identification of small molecules that support human leukemia stem cell activity ex vivo.
Pabst C, Krosl J, Fares I, Boucher G, Ruel R, Marinier A, Lemieux S, Hébert J, Sauvageau G
Nat. Methods 2014-04-01;11(4):436-42.
PMID: 24562423

A Functional Screen Reveals an Extensive Layer of Transcriptional and Splicing Control Underlying RAS/MAPK Signaling in Drosophila.
Ashton-Beaucage D, Udell CM, Gendron P, Sahmi M, Lefrançois M, Baril C, Guenier AS, Duchaine J, Lamarre D, Lemieux S, Therrien M
PLoS Biol. 2014-03-01;12(3):e1001809.
PMID: 24643257

2013

Harnessing virtual machines to simplify next-generation DNA sequencing analysis.
Nocq J, Celton M, Gendron P, Lemieux S, Wilhelm BT
Bioinformatics 2013-09-01;29(17):2075-83.
PMID: 23786767

The expanding roles of Gβγ subunits in G protein-coupled receptor signaling and drug action.
Khan SM, Sleno R, Gora S, Zylbergold P, Laverdure JP, Labbé JC, Miller GJ, Hébert TE.
Pharmacol Rev. 2013 Feb 13;65(2):545-77.
PMID:23406670

The TGF-β-Smad3 pathway inhibits CD28-dependent cell growth and proliferation of CD4 T cells.
Delisle JS, Giroux M, Boucher G, Landry JR, Hardy MP, Lemieux S, Jones RG, Wilhelm BT, Perreault C.
Genes Immun. 2013 Mar;14(2):115-26.
PMID: 23328844

2012

MHC I-associated peptides preferentially derive from transcripts bearing miRNA response elements.
Granados DP, Yahyaoui W, Laumont CM, Daouda T, Muratore-Schroeder TL, Côté C, Laverdure JP, Lemieux S, Thibault P, Perreault C
Blood 2012-06-28;119(26):e181-91.
PMID: 22438248

A key role for EZH2 and associated genes in mouse and human adult T-cell acute leukemia.
Simon C, Chagraoui J, Krosl J, Gendron P, Wilhelm B, Lemieux S, Boucher G, Chagnon P, Drouin S, Lambert R, Rondeau C, Bilodeau A, Lavallée S, Sauvageau M, Hébert J, Sauvageau G
Genes Dev. 2012-04-01;26(7):651-6.
PMID: 22431509

Redefining interferon-producing killer dendritic cells as a novel intermediate in NK-cell differentiation.
Guimont-Desrochers F, Boucher G, Dong Z, Dupuis M, Veillette A, Lesage S.
Blood. 2012 May 10;119(19):4349-57.
PMID: 22353997

Asymmetric segregation and self-renewal of hematopoietic stem and progenitor cells with endocytic Ap2a2.
Ting SB, Deneault E, Hope K, Cellot S, Chagraoui J, Mayotte N, Dorn JF, Laverdure JP, Harvey M, Hawkins ED, Russell SM, Maddox PS, Iscove NN, Sauvageau G.
Blood. 2012 Mar 15;119(11):2510-22.
PMID: 22174158

2011

The MHC I immunopeptidome conveys to the cell surface an integrative view of cellular regulation.
Caron E, Vincent K, Fortier MH, Laverdure JP, Bramoullé A, Hardy MP, Voisin G, Roux PP, Lemieux S, Thibault P, Perreault C
Mol. Syst. Biol. 2011-01-01;7:533.
PMID: 21952136

RNA-seq analysis of 2 closely related leukemia clones that differ in their self-renewal capacity.
Wilhelm BT, Briau M, Austin P, Faubert A, Boucher G, Chagnon P, Hope K, Girard S, Mayotte N, Landry JR, Hébert J, Sauvageau G.
Blood. 2011 Jan 13;117(2):e27-38.
PMID: 20980679

2010

Genome-wide interrogation of Mammalian stem cell fate determinants by nested chromosome deletions.
Fortier S, Bilodeau M, Macrae T, Laverdure JP, Azcoitia V, Girard S, Chagraoui J, Ringuette N, Hébert J, Krosl J, Mayotte N, Sauvageau G.
PLoS Genet. 2010 Dec 9;6(12):e1001241.
PMID: 21170304

The exon junction complex controls the splicing of MAPK and other long intron-containing transcripts in Drosophila.
Ashton-Beaucage D, Udell CM, Lavoie H, Baril C, Lefrançois M, Chagnon P, Gendron P, Caron-Lizotte O, Bonneil E, Thibault P, Therrien M.
Cell. 2010 Oct 15;143(2):251-62.
PMID: 20946983

Distinct antiviral signaling pathways in primary human hepatocytes and their differential disruption by HCV NS3 protease.
Jouan L, Melançon P, Rodrigue-Gervais IG, Raymond VA, Selliah S, Boucher G, Bilodeau M, Grandvaux N, Lamarre D.
J Hepatol. 2010 Feb;52(2):167-75.
PMID: 20006398

2009

Analysis of blood stem cell activity and cystatin gene expression in a mouse model presenting a chromosomal deletion encompassing Csta and Stfa2l1.
Bilodeau M, MacRae T, Gaboury L, Laverdure JP, Hardy MP, Mayotte N, Paradis V, Harton S, Perreault C, Sauvageau G.
PLoS One. 2009 Oct 19;4(10):e7500.
PMID: 19838297

Identification of the Candida albicans Cap1p regulon.
Znaidi S, Barker KS, Weber S, Alarco AM, Liu TT, Boucher G, Rogers PD, Raymond M.
Eukaryot Cell. 2009 Jun;8(6):806-20.
PMID: 19395663

A functional screen to identify novel effectors of hematopoietic stem cell activity.
Deneault E, Cellot S, Faubert A, Laverdure JP, Fréchette M, Chagraoui J, Mayotte N, Sauvageau M, Ting SB, Sauvageau G.
Cell. 2009 Apr 17;137(2):369-79.
PMID: 19379700

Depletion of the cullin Cdc53p induces morphogenetic changes in Candida albicans.
Trunk K, Gendron P, Nantel A, Lemieux S, Roemer T, Raymond M
Eukaryotic Cell 2009-05-01;8(5):756-67.
PMID: 19270112