AcknowledgementsStemCore Laboratories undergoes annual evaluation based in part upon its ability to provide access to research enabling technology platforms that are critical to the success of our scientific community. One tangible demonstration of StemCore's utility is the generation of data that is subsequently utilized in peer-reviewed publication. Although not a requirement for the use of our facilities, a statement to acknowledge the contribution of individual StemCore platforms in the accepted publication would be greatly appreciated. We would also be very pleased to receive notification when manuscripts which acknowledge the contribution of StemCore are accepted for publication. Thank you.
Selected Publications by StemCore Members or Users of StemCore Laboratories 2012 Liu QC, Z. X., Faralli H, Yin H, Louis-Jeune C, Perdiguero E, Pranckeviciene E, Muñoz-Cànoves P, Rudnicki MA, Brand M, Perez-Iratxeta C, Dilworth FJ (2012). "Comparative expression profiling identifies differential roles for Myogenin and p38α MAPK signaling in myogenesis." J Mol Cell Biol. Jul 30. [Epub ahead of print] 2011 Dankar SK, Wang S., Ping J, Forbes NE, Keleta L, Li Y, Brown EG. 2011. "Influenza A virus NS1 gene mutations F103L and M106I increase replication and virulence." Virol J 8(1) [PubMed] Duarte-Guterman P, Ryan MJ, Hogan NS, Trudeau VL. 2012. Developmental Profiles and Thyroid Hormone Regulation of Brain Transcripts in Frogs: A Species Comparison with Emphasis on Physalaemus pustulosus. Brain Behav Evol 79:98-112. Epub 2011. [PubMed] • Chen Q, Swist E, Beckstead J, Green J, Matias F, Roberts J, Qiao C, Raju J, Brooks SP, Scoggan KA. 2011. "Dietary Fructooligosaccharides and Wheat Bran Elicit Specific and Dose-Dependent Gene Expression Profiles in the Proximal Colon Epithelia of Healthy Fischer 344 Rats." J. Nutr. 141(5): 790-797. [PubMed] Melanson BD, Bose R, Hamill JD, Marcellus KA, Pan EF, McKay BC. 2011. "The role of mRNA decay in p53-induced gene expression." RNA 17(12): 2222-2234. [PubMed] Palii CG, Perez-Iratxeta C, Yao Z, Cao Y, Dai F, Davison J, Atkins H, Allan D, Dilworth FJ, Gentleman R, Tapscott SJ, Brand M. 2011. "Differential genomic targeting of the transcription factor TAL1 in alternate haematopoietic lineages. " EMBO J. 30(3): 494-509. [PubMed] Ho Sui SJ, Begley K, Reilly D, Chapman B, McGovern R, Rocca-Sera P, Maguire E, Altschuler GM, Hansen TA, Sompallae R, Krivtsov A, Shivdasani RA, Armstrong SA, Culhane AC, Correll M, Sansone SA, Hofmann O, Hide W. 2011. "The Stem Cell Discovery Engine: an integrated repository and analysis system for cancer stem cell comparisons." Nucleic Acids Research 40(D1): D984-D991. [PubMed] Swist E, Chen Q, Qiao C, Caldwell D, Gruber H, Scoggan KA. 2011. "Excess dietary iodine differentially affects thyroid gene expression in diabetes, thyroiditis-prone versus -resistant BioBreeding (BB) rats." Mol Nutr Food Res. 55(12): 1875-1886 [PubMed] 2010 Tomlinson JJ, Boudreau A, Wu D, Abdou Salem H, Carrigan A, Gagnon A, Mears AJ, Sorisky A, Atlas E, Haché RJ. 2010. "Insulin Sensitization of Human Preadipocytes through Glucocorticoid Hormone Induction of Forkhead Transcription Factors." Molecular Endocrinology 24(1): 104-113. [PubMed] Benveniste P, Frelin C, Janmohamed S, Barbara M, Herrington R, Hyam D, Iscove NN. 2010. "Intermediate-Term Hematopoietic Stem Cells with Extended but Time-Limited Reconstitution Potential." Cell Stem Cell 6(1): 48-58. [PubMed] Schnerch A, Cerdan C, Bhatia M. 2010. "Distinguishing Between Mouse and Human Pluripotent Stem Cell Regulation: The Best Laid Plans of Mice and Men." Stem Cells and Development. [PubMed] Scimè A, Desrosiers J, Trensz F, Palidwor GA, Caron AZ, Andrade-Navarro MA, Grenier G. 2010. "Transcriptional profiling of skeletal muscle reveals factors that are necessary to maintain satellite cell integrity during ageing." Mech Ageing Dev. 131(1): 9-20. [PubMed] Lim SJ, Tan TW, Tong JC. 2010. "Computational Epigenetics: the new scientific paradigm." Bioinformation 4(7): 331-337. [PubMed] Hayashi M, Nakashima T, Kodama T, Makrigiannis AP, Toyama-Sorimachi N, Takayanagi H. 2010. "Ly49Q, an ITIM-bearing NK receptor, positively regulates osteoclast differentiation." Biochem. Biophys. Res. Comm 393. [PubMed] Ping J, Dankar SK, Forbes NE, Keleta L, Zhou Y, Tyler S, Brown EG. 2010. "PB2 and HA Mutations are Major Determinants of Host Range and Virulence in Mouse-Adapted Influenza A Virus." Journal of Virology 84(20). [PubMed] Li L, Wang BH, Wang S, Moalim-Nour L, Mohib K, Lohnes D, Wang L. 2010. "Individual cell movement, asymmetric colony expansion, rho-associated kinase, and E-cadherin impact the clonogenicity of human embryonic stem cells." Biophys J. 98(11). [PubMed] Li L, Wang S, Jezierski A, Moalim-Nour L, Mohib K, Parks RJ, Retta SF, Wang L. 2010. "A unique interplay between Rap1 and E-cadherin in the endocytic pathway regulates self-renewal of human embryonic stem cells." Stem Cells 28(2). [PubMed] Miura P, Coriati A, Bélanger G, De Repentigny Y, Lee J, Kothary R, Holcik M, Jasmin BJ. 2010. "The utrophin A 50-UTR drives cap-independent translation exclusively in skeletal muscles of transgenic mice and interacts with eEF1A2." Human Molecular Genetics 19(7). [PubMed] Pardo M, Lang B, Yu L, Prosser H, Bradley A, Babu MM, Choudhary J. 2010. "An Expanded Oct4 Interaction Network: Implications for Stem Cell Biology, Development, and Disease." Cell Stem Cell 6(4): 382–395. [PubMed] Patel R, Bélanger S, Tai LH, Troke AD, Makrigiannis AP. 2010. "Effect of Ly49 haplotype variance on natural killer cell function and education." J. Immunol. 185. [PubMed] • Sasawatari S, Yoshizaki M, Taya C, Tazawa A, Furuyama-Tanaka K, Yonekawa H, Dohi T, Makrigiannis AP, Sasazuki T, Inaba K, Toyama-Sorimachi N. 2010. "The Ly49Q receptor plays a crucial role in neutrophil polarization and migration by regulating raft trafficking." Immunity 32. [PubMed] Xie X, Stadnisky MD, Coats ER, Ahmed Rahim MM, Lundgren A, Xu W, Makrigiannis AP, Brown MG. 2010. "MHC class I Dk expression in hematopoietic and nonhematopoietic cells confers natural killer cell resistance to murine cytomegalovirus." PNAS 107. [PubMed] 2009 Werbowetski-Ogilvie TE, Bossé M, Stewart M, Schnerch A, Ramos-Mejia V, Rouleau A, Wynder T, Smith MJ, Dingwall S, Carter T, Williams C, Harris C, Dolling J, Wynder C, Boreham D, Bhatia M. 2009. "Characterization of human embryonic stem cells with features of neoplastic progression." Nat Biotechnol 27(1): 91-97. [PubMed] Muro EM, M. J., Rudnicki MA, Andrade-Navarro MA. 2009. "Use of SNP-arrays for ChIP assays: computational aspects." Methods Mol Biol.(567): 145-154. [PubMed] Natale DR, Hemberger M, Hughes M, Cross JC. 2009. "Activin promotes differentiation of cultured mouse trophoblast stem cells towards a labyrinth cell fate." Developmental Biology 335(1): 120-131. [PubMed] Pratt MA, Tibbo E, Robertson SJ, Jansson D, Hurst K, Perez-Iratxeta C, Lau R, Niu MY. 2009. "The canonical NF-kappaB pathway is required for formation of luminal mammary neoplasias and is activated in the mammary progenitor population." Oncogene 28(30): 2710-2008. [PubMed] Le Grand F, Jones AE, Seale V, Scimè A, Rudnicki MA. 2009. "Wnt7a activates the planar cell polarity pathway to drive the symmetric expansion of satellite stem cells." Cell Stem Cell 4: 535-547. [PubMed] Savage J, Conley AJ, Blais A, Skerjanc IS. 2009. "SOX15 and SOX7 differentially regulate the myogenic program in P19 cells." Stem Cells 27(6): 1231-1234. [PubMed] Sandie R, Palidwor GA, Huska MR, Porter CJ, Krzyzanowski PM, Muro EM, Perez-Iratxeta C, Andrade-Navarro MA. 2009. "Recent developments in StemBase: a tool to study gene expression in human and murine stem cells." BMC Research Notes 2(39). [PubMed] Haddon DJ, Hughes MR, Antignano F, Westaway D, Cashman NR, McNagny KM. 2009. "Prion Protein Expression and Release by Mast Cells After Activation." The Journal of Infectious Diseases 200(5): 827-831. [PubMed] 2008 Wang S, Liu Q, Pu J, Li Y, Keleta L, Hu YW, Liu J, Brown EG. 2008. "Simplified recombinational approach for influenza A virus reverse genetics." Journal of Virological Methods 151(1): 74-78. [PubMed] Baldwin RM, Parolin DA, Lorimer IA. 2008. "Regulation of glioblastoma cell invasion by PKCι and RhoB." Oncogene 27: 3587-3595. [PubMed] • Pineault N, Boucher JF, Cayer MP, Palmqvist L, Boyer L, Lemieux R, Proulx C. 2008. "Characterization of the Effects and Potential Mechanisms Leading to Increased Megakaryocytic Differentiation Under Mild Hyperthermia." Stem Cells and Development 17(3). [PubMed] McKinnell IW, Ishibashi J, Le Grand F, Punch VG, Addicks GC, Greenblatt JF, Dilworth FJ, Raouf A, Zhao Y, To K, Stingl J, Delaney A, Barbara M, Iscove N, Jones S, McKinney S, Emerman J, Aparicio S, Marra M, Eaves C. 2008. "Transcriptome Analysis of the Normal Human Mammary Cell Commitment and Differentiation Process." Cell Stem Cell 3(1): 109-118. [PubMed] Archer SL, Gomberg-Maitland M, Maitland ML, Rich S, Garcia JG, Weir EK. 2008. "Mitochondrial metabolism, redox signaling, and fusion: a mitochondria-ROS-HIF-1alpha-Kv1.5 O2-sensing pathway at the intersection of pulmonary hypertension and cancer." Am J Physiol Heart Circ Physiol 294(2): H570-H578. [PubMed] Bakkar N, Wang J, Ladner KJ, Wang H, Dahlman JM, Carathers M, Acharyya S, Rudnicki MA, Hollenbach AD, Guttridge DC. 2008. "IKK/NF-kappaB regulates skeletal myogenesis via a signaling switch to inhibit differentiation and promote mitochondrial biogenesis." J Cell Biol 180(4): 787-802. [PubMed] Lee RE, Puente LG, Kaern M, Megeney LA. 2008. "A non-death role of the yeast metacaspase: Yca1p alters cell cycle dynamics." PLoS One 3(8): e2956. [PubMed] Goulet I, Boisvenue S, Mokas S, Mazroui R, Côté J. 2008. "TDRD3, a novel Tudor domain-containing protein, localizes to cytoplasmic stress granules." Human Molecular Genetics 17(19): 3055-3074. [PubMed] Calixte S, Bonen L. 2008. "Developmentally-specific transcripts from the ccmFN-rps1 locus 2007 McCann JA, Muro EM, Palmer C, Palidwor G, Porter CJ, Andrade-Navarro MA, Rudnicki MA. 2007. "ChIP on SNP-chip for genome-wide analysis of human histone H4 hyperacetylation." BMC Genomics 2007,8:322doi:10.1186/1471-2164-8-32. Published 14 September 2007 (PDF) Campbell PA, Perez-Iratxeta C, Andrade-Navarro MA, Rudnicki MA. 2007. "Oct4 targets regulatory nodes to modulate stem cell function." PLoS ONE 2. e553. [PubMed] Porter CJ, Palidwor GA, Sandie R, Krzyzanowski PM, Muro EM, Perez-Iratxeta C, Andrade-Navarro MA. 2007. "StemBase: a resource for the analysis of stem cell gene expression data." Methods in Molecular Biology 407: 137-148. [PubMed] zur Nieden NI, Price FD, Davis LA, Everitt RE, Rancourt DE. 2007. "Gene profiling on mixed ES cell populations reveals a biphasic role for b-catenin in osteogenic differentiation." Molecular Endocrinology 21: 674-685. [PubMed] Smith JM, Stubbert LJ, Hamill JD, McKay BC. 2007. "The contribution of transactivation subdomains 1 and 2 to p53-induced gene expression is heterogenous but not subdomain specific." Neoplasia 9(12): 1057-1065. [PubMed] Power AT, Wang J, Falls TJ, Paterson JM, Parato KA, Lichty BD, Stojdl DF, Forsyth PA, Atkins H, Bell JC. 2007. "Carrier cell-based delivery of an oncolytic virus circumvents antiviral immunity." Mol Ther 15(1): 123-130. [PubMed] Kuang S, Kuroda K, Le Grand F, Rudnicki MA. 2007. "Asymmetric self-renewal and commitment of satellite stem cells in muscle." Cell 129(5): 999-1010. [PubMed] Holterman, CE, Le Grand F, Kuang S, Seale, P, Rudnicki MA. 2007. "Megf10 regulates the progression of the satellite cell myogenic program." J Cell Biol 179(5): 911-922. [PubMed] Hailesellasse SK, Porter CJ, Palidwor G, Perez-Iratxeta C, Muro EM, Campbell PA, Rudnicki MA, Andrade-Navarro MA. 2007. "Gene function in early mouse embryonic stem cell differentiation." BMC Genomics 29(8): 85. [PubMed] Grenier G, Scimè A, Le Grand F, Asakura A, Perez-Iratxeta C, Andrade-Navarro MA, Labosky PA, Rudnicki MA. 2007. "Resident Endothelial Precursors in Muscle, Adipose, and Dermis Contribute to Postnatal Vasculogenesis." Stem Cells 25(12): 3101-3110. [PubMed] Goulet I, Gauvin G, Boisvenue S, Cote J. 2007. "Alternative splicing yields protein arginine methyltransferase 1 isoforms with distinct activity, substrate specificity, and subcellular localization." Journal of Bioligical Chemistry 282(45): 33009-33021. [PubMed] 2006 Puente LG, Voisin S, Lee RE, Megeney LA. 2006. "Reconstructing the regulatory kinase pathways of myogenesis from phosphopeptide data." Mol Cell Proteomics. 2006 Sep 13 [ PubMed] Puente LG, Borris DJ, Carriere JF, Kelly JF, Megeney LA. 2006 "Identification of canidate regulators of embryonic stem cell differentiation by comparative phosphoprotein affinity profiling." Mol Cell Proteomics. 2006 Jan;5(1) 57-67 Epub 2005 Sep 26. [PubMed] onnet S, Michelakis ED, Porter CJ, Andrande-Navarro MA, Thebaud B, Bonnet S, Haromy A, Harry G, Moudgil R, McMurtry MS, Weir EK, Archer SL. 2006. "An abnormal mitochondrial-HIF-1alpha-Kv channel pathway disrupts oxygen-sensing and triggers pulmonary arterial hypertension (PAH) in fawn-hooded rats: similarities to human PAH." Circulation. In press. [PubMed] Muro EM, Perex-Iratxeta C, Andrande-Navarro MA. 2006. "Amplification of the Gene Ontology annotation of Affymetrix probe sets." BMC Bioinformatics. 7, 159. [PubMed] Palidwor G, Reynaud EG, Andrade-Navarro MA. 2006. "Taxanomic colouring of phylogenetic trees of protein sequences." BMC Bioinformatics. 7, 79. [PubMed] Baldwin RM, Lalond MG, Parolin DAE, Krzyzanowski PM, Andrade MA, Lorimer IAJ. 2006. "Protection of glioblastoma cells from cisplain cytotoxicity via protein kinase Cι - mediated attenuation of p38 MAP kinase signaling." Oncogene 25(20): 2909-2919. [PubMed] 2005 Fernando PS, Deng W, De Repentigny Y, Kothary R, Kelly JF, Megeney LA. 2005. “Active kinase proteome screening reveals novel signal complexity in cardiomyopathy.” Mol. Cell. Proteomics4, 673-682 [PubMed] Kendal WS, Suomela BP. 2005. "Large-scale genomic correlations in Arabidopsis thaliana relate to chromosomal structure." BMC Genomics. 2005 Jun 2;6(1):82 [PubMed] Korbel JO, Doerks T, Jensen LJ, Perez-Iratxeta C, Kaczanowski S, Hooper SD, Andrade MA, Bork P. 2005. "Systematic association of genes to phenotypes by genome and literature mining." PLoS Biology 3(5):e134. [PubMed] Perez-Iratxeta C, Andrade MA. 2005. "Inconsistencies over time in 5% of NetAffx probe-to-gene annotations." BMC Bioinformatics. 6, 183 [PubMed] Perez-Iratxeta C, Wjst M, Bork P, Andrade MA. 2005. " G2D: A Tool for Mining Genes Associated to Disease." BMC Genetics. 6, 45 [PubMed] Perez-Iratxeta C, Palidwor G, Porter CJ, Sanche NA, Huska MR, Suomela BP, Muro EM, Krzyzanowski PM, Hughes E, Campbell PA, Rudnicki MA, Andrade MA. 2005. "Study of stem cell function using microarray experiments." FEBS Letters. 579, 1795-180 [PubMed] Reynaud EG, Andrade MA, Bonneau F, Ly TB, Knop, Scheffzek K, Pepperkok R. 2005. "The human Lsg1 defines a family of essential GTPases that correlates with the evolution of compartmentalisation." BMC Biology. 21, 3. [PubMed] Savchenko A, Krogan N, Cort JR, Evdokimova E, Lew JM, Yee AA, Sánchez-Pulido L, Andrade MA, Bochkarev A, Watson JD, Kennedy MA, Greenblatt J, Hughes T, Arrowsmith CH, Rommens JM, Edwards AM. 2005. "The Shwachman-Bodian-Diamond syndrome protein family is involved in RNA metabolism." Journal of Biological Chemistry. 280:19213-19220 [PubMed] Suomela BP, Andrade MA. 2005. "Ranking the whole MEDLINE database according to a large training set using text indexing." BMC Bioinformatics. 6, 75 [PubMed] Xia X, Palidwor G. 2005. "Genomic Adaptation to Acidic Environment: Evidence from Helicobacter pylori." American Naturalist 166(6) [PubMed] Scime A, Grenier G, Huh MS, Gillespie MA, Bevilacqua L, Harper ME, Rudnicki MA. 2005. "Rb and p107 regulate preadipocyte differentiation into white versus brown fat through repression of PGC-1alpha." Cell Metab 2(5): 283-295. [PubMed] 2004 Puente LG, Carriere JF, Kelly JF, Megeney LA. 2004. "Comparatice analysis of phosphoprotein-enriched myocyte proteomes reveals widespread alternations during differentiation." FEBS 574:138-44 [PubMed] Seale P, Holtreman C, Rudnicki MA. 2004. "Muscle satellite cell-specific genes identified by genetic profiling of MyoD-deficient myogeic cell." Dev Biol. Nov 15; 275(2):287-300. [PubMed] Yauk CL, Berndt ML, Williams A, Douglas GR. 2004. "Comprehensive comparison of six microarray technologies." Nucleic Acids Research 32(15): e124 [PubMed] 2003 Polesskaya A, Seale P, Rudnicki MA. 2003. "Wnt signaling induces the myogenic specification of resident CD45+ adult stem cells during muscle regeneration." Cell 113:841-852. [PubMed] 2002 Hierlihy AM, Seale P, Lobe CG, Rudnicki MA, Megeney LA. 2002. "The post-natal heart contains a myocardial stem cell population." FEBS 530:239-243. [PubMed] |
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