| Year |
Citation |
Score |
| 2023 |
Chasles S, Major F. Automatic recognition of complementary strands: lessons regarding machine learning abilities in RNA folding. Frontiers in Genetics. 14: 1254226. PMID 37732325 DOI: 10.3389/fgene.2023.1254226 |
0.347 |
|
| 2023 |
Dupont MJ, Major F. D-ORB: A Web Server to Extract Structural Features of Related But Unaligned RNA Sequences. Journal of Molecular Biology. 435: 168181. PMID 37468182 DOI: 10.1016/j.jmb.2023.168181 |
0.441 |
|
| 2021 |
Daouda T, Dumont-Lagacé M, Feghaly A, Benslimane Y, Panes R, Courcelles M, Benhammadi M, Harrington L, Thibault P, Major F, Bengio Y, Gagnon É, Lemieux S, Perreault C. CAMAP: Artificial neural networks unveil the role of codon arrangement in modulating MHC-I peptides presentation. Plos Computational Biology. 17: e1009482. PMID 34679099 DOI: 10.1371/journal.pcbi.1009482 |
0.45 |
|
| 2020 |
Major F. From transient recognition to efficient silencing: a RISCky business. Nature Structural & Molecular Biology. 27: 519-520. PMID 32472108 DOI: 10.1038/S41594-020-0451-3 |
0.502 |
|
| 2020 |
Miao Z, Adamiak RW, Antczak M, Boniecki MJ, Bujnicki JM, Chen SJ, Cheng CY, Cheng Y, Chou FC, Das R, Dokholyan NV, Ding F, Geniesse C, Jiang Y, Joshi A, ... ... Major F, et al. RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers. Rna (New York, N.Y.). PMID 32371455 DOI: 10.1261/Rna.075341.120 |
0.542 |
|
| 2019 |
Hardy MP, Audemard É, Migneault F, Feghaly A, Brochu S, Gendron P, Boilard É, Major F, Dieudé M, Hébert MJ, Perreault C. Apoptotic endothelial cells release small extracellular vesicles loaded with immunostimulatory viral-like RNAs. Scientific Reports. 9: 7203. PMID 31076589 DOI: 10.1038/S41598-019-43591-Y |
0.521 |
|
| 2018 |
Yan Y, Acevedo M, Mignacca L, Desjardins P, Scott N, Imane R, Quenneville J, Robitaille J, Feghaly A, Gagnon E, Ferbeyre G, Major F. The sequence features that define efficient and specific hAGO2-dependent miRNA silencing guides. Nucleic Acids Research. 46: 8181-8196. PMID 30239883 DOI: 10.1093/Nar/Gky546 |
0.36 |
|
| 2017 |
Yao J, Reinharz V, Major F, Waldispühl J. RNA-MoIP: prediction of RNA secondary structure and local 3D motifs from sequence data. Nucleic Acids Research. PMID 28666332 DOI: 10.1093/Nar/Gkx575 |
0.596 |
|
| 2017 |
Yao J, Reinharz V, Major F, Waldisphül J. RNA-MoIP: prediction of RNA secondary structure and local 3D motifs from sequence data. Nucleic Acids Research. PMID 28525607 DOI: 10.1093/Nar/Gkx429 |
0.543 |
|
| 2017 |
Miao Z, Adamiak RW, Antczak M, Batey RT, Becka AJ, Biesiada M, Boniecki MJ, Bujnicki J, Chen SJ, Cheng CY, Chou FC, Ferré-D'Amaré AR, Das R, Dawson WK, Feng D, ... ... Major F, et al. RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme. Rna (New York, N.Y.). PMID 28138060 DOI: 10.1261/Rna.060368.116 |
0.605 |
|
| 2016 |
Dallaire P, Major F. Exploring Alternative RNA Structure Sets Using MC-Flashfold and db2cm. Methods in Molecular Biology (Clifton, N.J.). 1490: 237-51. PMID 27665603 DOI: 10.1007/978-1-4939-6433-8_15 |
0.593 |
|
| 2016 |
Dallaire P, Tan H, Szulwach K, Ma C, Jin P, Major F. Structural dynamics control the MicroRNA maturation pathway. Nucleic Acids Research. PMID 27651454 DOI: 10.1093/Nar/Gkw793 |
0.318 |
|
| 2015 |
Weill N, Lisi V, Scott N, Dallaire P, Pelloux J, Major F. MiRBooking simulates the stoichiometric mode of action of microRNAs. Nucleic Acids Research. 43: 6730-8. PMID 26089388 DOI: 10.1093/Nar/Gkv619 |
0.353 |
|
| 2015 |
Miao Z, Adamiak RW, Blanchet MF, Boniecki M, Bujnicki JM, Chen SJ, Cheng C, Chojnowski G, Chou FC, Cordero P, Cruz JA, Ferré-D'Amaré AR, Das R, Ding F, Dokholyan NV, ... ... Major F, et al. RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures. Rna (New York, N.Y.). 21: 1066-84. PMID 25883046 DOI: 10.1261/Rna.049502.114 |
0.603 |
|
| 2015 |
Wheeler EC, Washburn MC, Major F, Rusch DB, Hundley HA. Noncoding regions of C. elegans mRNA undergo selective adenosine to inosine deamination and contain a small number of editing sites per transcript. Rna Biology. 12: 162-74. PMID 25826568 DOI: 10.1080/15476286.2015.1017220 |
0.481 |
|
| 2014 |
Blanchet MF, St-Onge K, Lisi V, Robitaille J, Hamel S, Major F. Computational identification of RNA functional determinants by three-dimensional quantitative structure-activity relationships. Nucleic Acids Research. 42: 11261-71. PMID 25200082 DOI: 10.1093/Nar/Gku816 |
0.686 |
|
| 2014 |
Koan SL, Roy J, Parisien M, Major F. Predict RNA 2D and 3D Structure over the Internet Using MC-Tools Handbook of Rna Biochemistry: Second, Completely Revised and Enlarged Edition. 2: 633-666. DOI: 10.1002/9783527647064.ch30 |
0.373 |
|
| 2012 |
Reinharz V, Major F, Waldispühl J. Towards 3D structure prediction of large RNA molecules: an integer programming framework to insert local 3D motifs in RNA secondary structure. Bioinformatics (Oxford, England). 28: i207-14. PMID 22689763 DOI: 10.1093/Bioinformatics/Bts226 |
0.622 |
|
| 2012 |
Parisien M, Major F. Determining RNA three-dimensional structures using low-resolution data. Journal of Structural Biology. 179: 252-60. PMID 22387042 DOI: 10.1016/J.Jsb.2011.12.024 |
0.522 |
|
| 2012 |
Cruz JA, Blanchet MF, Boniecki M, Bujnicki JM, Chen SJ, Cao S, Das R, Ding F, Dokholyan NV, Flores SC, Huang L, Lavender CA, Lisi V, Major F, Mikolajczak K, et al. RNA-Puzzles: a CASP-like evaluation of RNA three-dimensional structure prediction. Rna (New York, N.Y.). 18: 610-25. PMID 22361291 DOI: 10.1261/Rna.031054.111 |
0.583 |
|
| 2011 |
Kloc M, Dallaire P, Reunov A, Major F. Structural messenger RNA contains cytokeratin polymerization and depolymerization signals. Cell and Tissue Research. 346: 209-22. PMID 21987223 DOI: 10.1007/S00441-011-1255-X |
0.533 |
|
| 2011 |
Lerman YV, Kennedy SD, Shankar N, Parisien M, Major F, Turner DH. NMR structure of a 4 x 4 nucleotide RNA internal loop from an R2 retrotransposon: identification of a three purine-purine sheared pair motif and comparison to MC-SYM predictions. Rna (New York, N.Y.). 17: 1664-77. PMID 21778280 DOI: 10.1261/Rna.2641911 |
0.567 |
|
| 2010 |
Mullen MA, Olson KJ, Dallaire P, Major F, Assmann SM, Bevilacqua PC. RNA G-Quadruplexes in the model plant species Arabidopsis thaliana: prevalence and possible functional roles. Nucleic Acids Research. 38: 8149-63. PMID 20860998 DOI: 10.1093/Nar/Gkq804 |
0.492 |
|
| 2010 |
Yang S, Parisien M, Major F, Roux B. RNA structure determination using SAXS data. The Journal of Physical Chemistry. B. 114: 10039-48. PMID 20684627 DOI: 10.1021/Jp1057308 |
0.593 |
|
| 2010 |
Cruz-Toledo J, Dumontier M, Parisien M, Major F. RKB: a Semantic Web knowledge base for RNA. Journal of Biomedical Semantics. 1: S2. PMID 20626922 DOI: 10.1186/2041-1480-1-S1-S2 |
0.514 |
|
| 2009 |
Ensterö M, Daniel C, Wahlstedt H, Major F, Ohman M. Recognition and coupling of A-to-I edited sites are determined by the tertiary structure of the RNA. Nucleic Acids Research. 37: 6916-26. PMID 19740768 DOI: 10.1093/Nar/Gkp731 |
0.454 |
|
| 2009 |
Parisien M, Cruz JA, Westhof E, Major F. New metrics for comparing and assessing discrepancies between RNA 3D structures and models. Rna (New York, N.Y.). 15: 1875-85. PMID 19710185 DOI: 10.1261/Rna.1700409 |
0.515 |
|
| 2009 |
McGraw AP, Mokdad A, Major F, Bevilacqua PC, Babitzke P. Molecular basis of TRAP-5'SL RNA interaction in the Bacillus subtilis trp operon transcription attenuation mechanism. Rna (New York, N.Y.). 15: 55-66. PMID 19033375 DOI: 10.1261/Rna.1314409 |
0.47 |
|
| 2008 |
Parisien M, Major F. The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data. Nature. 452: 51-5. PMID 18322526 DOI: 10.1038/Nature06684 |
0.638 |
|
| 2008 |
Bouchard P, Lacroix-Labonté J, Desjardins G, Lampron P, Lisi V, Lemieux S, Major F, Legault P. Role of SLV in SLI substrate recognition by the Neurospora VS ribozyme. Rna (New York, N.Y.). 14: 736-48. PMID 18314503 DOI: 10.1261/Rna.824308 |
0.614 |
|
| 2008 |
Major F, Thibault P. RNA Tertiary Structure Prediction Bioinformatics-From Genomes to Therapies. 1: 491-539. DOI: 10.1002/9783527619368.ch15 |
0.507 |
|
| 2007 |
Lisi V, Major F. A comparative analysis of the triloops in all high-resolution RNA structures reveals sequence structure relationships. Rna (New York, N.Y.). 13: 1537-45. PMID 17652406 DOI: 10.1261/Rna.597507 |
0.616 |
|
| 2007 |
Kim YK, Furic L, Parisien M, Major F, DesGroseillers L, Maquat LE. Staufen1 regulates diverse classes of mammalian transcripts Embo Journal. 26: 2670-2681. PMID 17510634 DOI: 10.1038/Sj.Emboj.7601712 |
0.373 |
|
| 2007 |
St-Onge K, Thibault P, Hamel S, Major F. Modeling RNA tertiary structure motifs by graph-grammars Nucleic Acids Research. 35: 1726-1736. PMID 17317683 DOI: 10.1093/Nar/Gkm069 |
0.696 |
|
| 2007 |
Tremblay M, Herblot S, Todorova M, Lisi V, Major F, Lemieux S, Hoang T. Identification of SCL and LMO Oncogenes as Transcriptional Repressors of HEB/E2A in the Thymus through Functional Genomic/Genetic Approaches. Blood. 110: 2649-2649. DOI: 10.1182/Blood.V110.11.2649.2649 |
0.51 |
|
| 2006 |
Lemieux S, Major F. Automated extraction and classification of RNA tertiary structure cyclic motifs. Nucleic Acids Research. 34: 2340-6. PMID 16679452 DOI: 10.1093/Nar/Gkl120 |
0.701 |
|
| 2006 |
Leontis NB, Altman RB, Berman HM, Brenner SE, Brown JW, Engelke DR, Harvey SC, Holbrook SR, Jossinet F, Lewis SE, Major F, Mathews DH, Richardson JS, Williamson JR, Westhof E. The RNA Ontology Consortium: an open invitation to the RNA community. Rna (New York, N.Y.). 12: 533-41. PMID 16484377 DOI: 10.1261/Rna.2343206 |
0.602 |
|
| 2006 |
Caron E, Côté C, Parisien M, Major F, Perreault C. Identification of two distinct intracellular localization signals in STT3-B. Archives of Biochemistry and Biophysics. 445: 108-14. PMID 16297371 DOI: 10.1016/J.Abb.2005.10.007 |
0.324 |
|
| 2006 |
Major F, Thibault P. RNA Three-Dimensional Structures, Computer Modeling of Reviews in Cell Biology and Molecular Medicine. DOI: 10.1002/3527600906.Mcb.200500067 |
0.629 |
|
| 2005 |
Olivier C, Poirier G, Gendron P, Boisgontier A, Major F, Chartrand P. Identification of a conserved RNA motif essential for She2p recognition and mRNA localization to the yeast bud. Molecular and Cellular Biology. 25: 4752-66. PMID 15899876 DOI: 10.1128/Mcb.25.11.4752-4766.2005 |
0.517 |
|
| 2004 |
Lambert A, Fontaine JF, Legendre M, Leclerc F, Permal E, Major F, Putzer H, Delfour O, Michot B, Gautheret D. The ERPIN server: an interface to profile-based RNA motif identification. Nucleic Acids Research. 32: W160-5. PMID 15215371 DOI: 10.1093/Nar/Gkh418 |
0.53 |
|
| 2004 |
Pinard R, Lambert D, Pothiawala G, Major F, Burke JM. Modifications and deletions of helices within the hairpin ribozyme-substrate complex: an active ribozyme lacking helix 1. Rna (New York, N.Y.). 10: 395-402. PMID 14970385 DOI: 10.1261/Rna.5650904 |
0.501 |
|
| 2003 |
Hoffmann B, Mitchell GT, Gendron P, Major F, Andersen AA, Collins RA, Legault P. NMR structure of the active conformation of the Varkud satellite ribozyme cleavage site. Proceedings of the National Academy of Sciences of the United States of America. 100: 7003-8. PMID 12782785 DOI: 10.1073/Pnas.0832440100 |
0.565 |
|
| 2003 |
Major F. Building three-dimensional ribonucleic acid structures Computing in Science and Engineering. 5: 44-53. DOI: 10.1109/Mcise.2003.1225860 |
0.483 |
|
| 2002 |
Bourassa N, Major F. Implication of the prohead RNA in phage phi29 DNA packaging. Biochimie. 84: 945-51. PMID 12458086 DOI: 10.1016/S0300-9084(02)01444-X |
0.51 |
|
| 2002 |
Lemieux S, Major F. RNA canonical and non-canonical base pairing types: a recognition method and complete repertoire. Nucleic Acids Research. 30: 4250-63. PMID 12364604 DOI: 10.1093/Nar/Gkf540 |
0.635 |
|
| 2002 |
Waugh A, Gendron P, Altman R, Brown JW, Case D, Gautheret D, Harvey SC, Leontis N, Westbrook J, Westhof E, Zuker M, Major F. RNAML: a standard syntax for exchanging RNA information. Rna (New York, N.Y.). 8: 707-17. PMID 12088144 DOI: 10.1017/S1355838202028017 |
0.555 |
|
| 2001 |
Pinard R, Hampel KJ, Heckman JE, Lambert D, Chan PA, Major F, Burke JM. Functional involvement of G8 in the hairpin ribozyme cleavage mechanism. The Embo Journal. 20: 6434-42. PMID 11707414 DOI: 10.1093/Emboj/20.22.6434 |
0.304 |
|
| 2001 |
Major F, Griffey R. Computational methods for RNA structure determination Current Opinion in Structural Biology. 11: 282-286. PMID 11406375 DOI: 10.1016/S0959-440X(00)00203-7 |
0.611 |
|
| 2001 |
Gendron P, Lemieux S, Major F. Quantitative analysis of nucleic acid three-dimensional structures. Journal of Molecular Biology. 308: 919-36. PMID 11352582 DOI: 10.1006/Jmbi.2001.4626 |
0.687 |
|
| 2001 |
Pinard R, Lambert D, Heckman JE, Esteban JA, Gundlach CW, Hampel KJ, Glick GD, Walter NG, Major F, Burke JM. The hairpin ribozyme substrate binding-domain: a highly constrained D-shaped conformation. Journal of Molecular Biology. 307: 51-65. PMID 11243803 DOI: 10.1006/Jmbi.2000.4472 |
0.392 |
|
| 2001 |
Barrette I, Poisson G, Gendron P, Major F. Pseudoknots in prion protein mRNAs confirmed by comparative sequence analysis and pattern searching Nucleic Acids Research. 29: 753-758. PMID 11160898 DOI: 10.1093/Nar/29.3.753 |
0.438 |
|
| 1999 |
Pinard R, Lambert D, Walter NG, Heckman JE, Major F, Burke JM. Structural basis for the guanosine requirement of the hairpin ribozyme. Biochemistry. 38: 16035-9. PMID 10587425 DOI: 10.1021/Bi992024S |
0.457 |
|
| 1998 |
Zhang F, Lemieux S, Wu X, St-Arnaud D, McMurray CT, Major F, Anderson D. Function of hexameric RNA in packaging of bacteriophage phi 29 DNA in vitro. Molecular Cell. 2: 141-7. PMID 9702201 DOI: 10.1016/S1097-2765(00)80123-9 |
0.694 |
|
| 1998 |
Parisien M, Major F, Peitsch M. A protein conformational search space defined by secondary structure contacts Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 425-436. PMID 9697201 |
0.31 |
|
| 1998 |
Lemieux S, Chartrand P, Cedergren R, Major F. Modeling active RNA structures using the intersection of conformational space: application to the lead-activated ribozyme. Rna (New York, N.Y.). 4: 739-49. PMID 9671048 DOI: 10.1017/S1355838298971266 |
0.686 |
|
| 1998 |
Cedergren R, Major F. Modeling the Tertiary Structure of RNA Cold Spring Harbor Monograph Archive. 35: 37-75. DOI: 10.1101/087969509.35.37 |
0.599 |
|
| 1998 |
Major F, Lemieux S, Ftouhi A. Computer RNA Three-Dimensional Modeling from Low-Resolution Data and Multiple-Sequence Information Acs Symposium Series. 682: 394-404. |
0.598 |
|
| 1998 |
Zhang F, Lemieux S, Wu X, McMurray CT, Major F, Anderson D. Function of hexameric RNA in packaging of bacteriophage φ29 DNA in vitro Chemtracts. 11: 994-999. |
0.353 |
|
| 1996 |
Brown JW, Nolan JM, Haas ES, Rubio MA, Major F, Pace NR. Comparative analysis of ribonuclease P RNA using gene sequences from natural microbial populations reveals tertiary structural elements. Proceedings of the National Academy of Sciences of the United States of America. 93: 3001-6. PMID 8610158 DOI: 10.1073/Pnas.93.7.3001 |
0.552 |
|
| 1995 |
Foucrault M, Major F. Symbolic generation and clustering of RNA 3-D motifs Proceedings / . International Conference On Intelligent Systems For Molecular Biology ; Ismb. International Conference On Intelligent Systems For Molecular Biology. 3: 121-126. PMID 7584428 |
0.432 |
|
| 1993 |
Major F, Gautheret D, Cedergren R. Reproducing the three-dimensional structure of a tRNA molecule from structural constraints Proceedings of the National Academy of Sciences of the United States of America. 90: 9408-9412. PMID 8415714 DOI: 10.1073/Pnas.90.20.9408 |
0.465 |
|
| 1993 |
Gautheret D, Major F, Cedergren R. Modeling the Three-dimensional Structure of RNA Using Discrete Nucleotide Conformational Sets Journal of Molecular Biology. 229: 1049-1064. PMID 7680379 DOI: 10.1006/Jmbi.1993.1104 |
0.533 |
|
| 1991 |
Major F, Turcotte M, Gautheret D, Lapalme G, Fillion E, Cedergren R. The combination of symbolic and numerical computation for three-dimensional modeling of RNA Science. 253: 1255-1260. PMID 1716375 DOI: 10.1126/Science.1716375 |
0.612 |
|
| 1990 |
Gautheret D, Major F, Cedergren R. Pattern searching/alignment with RNA primary and secondary structures: An effective descriptor for tRNA Bioinformatics. 6: 325-331. PMID 1701686 DOI: 10.1093/Bioinformatics/6.4.325 |
0.468 |
|
| 1990 |
Gautheret D, Major F, Cedergren R. Computer modeling and display of RNA secondary and tertiary structures Methods in Enzymology. 183: 318-330. PMID 1690337 DOI: 10.1016/0076-6879(90)83021-Z |
0.569 |
|
| 1990 |
Major F, Lapalme G, Gautheret D, Cedergren R. RNA structure prediction using experimental data in constraint-satisfaction problem solving algorithms Journal of Molecular Graphics. 8: 239. DOI: 10.1016/0263-7855(90)80038-H |
0.465 |
|
| 1989 |
Major F, Lapalme G, Gautheret D, Cedergren R. Using functional languages to study the relationships between nucleic acid primary, secondary and tertiary structure elements Journal of Molecular Graphics. 7: 182. DOI: 10.1016/0263-7855(89)80046-3 |
0.326 |
|
| 1988 |
Cedergren R, Gautheret D, Lapalme G, Major F. A secondary and tertiary structure editor for nucleic acids Bioinformatics. 4: 143-146. PMID 3382988 DOI: 10.1093/Bioinformatics/4.1.143 |
0.404 |
|
| 1988 |
Major F, Feldmann R, Lapalme G, Cedergren R. FUS: A system to simulate conformational changes in biological macromolecules Bioinformatics. 4: 445-451. PMID 3208178 DOI: 10.1093/Bioinformatics/4.4.445 |
0.359 |
|
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