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Carolina Perez-Iratxeta - Publications

Affiliations: 
Ontario Genomics Innovation Centre, Toronto, Ontario, Canada 
Website:
http://www.ottawagenomecenter.ca/research/bioinformatics/carol
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37/56 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2015 Andrade-Navarro M, Perez-Iratxeta C. Text mining of biomedical literature: doing well, but we could be doing better. Methods (San Diego, Calif.). 74: 1-2. PMID 25703199 DOI: 10.1016/j.ymeth.2015.01.014  0.482
2015 Fontaine JF, Priller J, Spruth E, Perez-Iratxeta C, Andrade-Navarro MA. Assessment of curated phenotype mining in neuropsychiatric disorder literature. Methods (San Diego, Calif.). 74: 90-6. PMID 25484337 DOI: 10.1016/j.ymeth.2014.11.022  0.508
2013 Fournier D, Palidwor GA, Shcherbinin S, Szengel A, Schaefer MH, Perez-Iratxeta C, Andrade-Navarro MA. Functional and genomic analyses of alpha-solenoid proteins. Plos One. 8: e79894. PMID 24278209 DOI: 10.1371/journal.pone.0079894  0.462
2013 Andrade-Navarro MA, Kanji F, Palii CG, Brand M, Atkins H, Perez-Iratxeta C. A method for cell type marker discovery by high-throughput gene expression analysis of mixed cell populations. Bmc Biotechnology. 13: 80. PMID 24090206 DOI: 10.1186/1472-6750-13-80  0.532
2013 Schaefer MH, Lopes TJ, Mah N, Shoemaker JE, Matsuoka Y, Fontaine JF, Louis-Jeune C, Eisfeld AJ, Neumann G, Perez-Iratxeta C, Kawaoka Y, Kitano H, Andrade-Navarro MA. Adding protein context to the human protein-protein interaction network to reveal meaningful interactions. Plos Computational Biology. 9: e1002860. PMID 23300433 DOI: 10.1371/Journal.Pcbi.1002860  0.525
2012 Andrade-Navarro MA, Palidwor GA, Perez-Iratxeta C. Peer2ref: a peer-reviewer finding web tool that uses author disambiguation. Biodata Mining. 5: 14. PMID 22958760 DOI: 10.1186/1756-0381-5-14  0.504
2012 McNeill B, Perez-Iratxeta C, Mazerolle C, Furimsky M, Mishina Y, Andrade-Navarro MA, Wallace VA. Comparative genomics identification of a novel set of temporally regulated hedgehog target genes in the retina. Molecular and Cellular Neurosciences. 49: 333-40. PMID 22281533 DOI: 10.1016/J.Mcn.2011.12.008  0.544
2012 Louis-Jeune C, Andrade-Navarro MA, Perez-Iratxeta C. Prediction of protein secondary structure from circular dichroism using theoretically derived spectra. Proteins. 80: 374-81. PMID 22095872 DOI: 10.1002/prot.23188  0.471
2010 Mah N, Perez-Iratxeta C, Andrade-Navarro MA. Outer membrane pore protein prediction in mycobacteria using genomic comparison. Microbiology (Reading, England). 156: 2506-15. PMID 20466765 DOI: 10.1099/mic.0.040089-0  0.508
2009 Tiffin N, Andrade-Navarro MA, Perez-Iratxeta C. Linking genes to diseases: it's all in the data. Genome Medicine. 1: 77. PMID 19678910 DOI: 10.1186/gm77  0.614
2009 Sandie R, Palidwor GA, Huska MR, Porter CJ, Krzyzanowski PM, Muro EM, Perez-Iratxeta C, Andrade-Navarro MA. Recent developments in StemBase: a tool to study gene expression in human and murine stem cells. Bmc Research Notes. 2: 39. PMID 19284540 DOI: 10.1186/1756-0500-2-39  0.609
2008 Tremblay K, Lemire M, Potvin C, Tremblay A, Hunninghake GM, Raby BA, Hudson TJ, Perez-Iratxeta C, Andrade-Navarro MA, Laprise C. Genes to diseases (G2D) computational method to identify asthma candidate genes. Plos One. 3: e2907. PMID 18682798 DOI: 10.1371/Journal.Pone.0002907  0.595
2008 Tiffin N, Okpechi I, Perez-Iratxeta C, Andrade-Navarro MA, Ramesar R. Prioritization of candidate disease genes for metabolic syndrome by computational analysis of its defining phenotypes. Physiological Genomics. 35: 55-64. PMID 18612082 DOI: 10.1152/physiolgenomics.90247.2008  0.566
2008 Perez-Iratxeta C, Andrade-Navarro MA. K2D2: estimation of protein secondary structure from circular dichroism spectra. Bmc Structural Biology. 8: 25. PMID 18477405 DOI: 10.1186/1472-6807-8-25  0.513
2007 Porter CJ, Palidwor GA, Sandie R, Krzyzanowski PM, Muro EM, Perez-Iratxeta C, Andrade-Navarro MA. StemBase: a resource for the analysis of stem cell gene expression data. Methods in Molecular Biology (Clifton, N.J.). 407: 137-48. PMID 18453254 DOI: 10.1007/978-1-59745-536-7_11  0.596
2007 Perez-Iratxeta C, Palidwor G, Andrade-Navarro MA. Towards completion of the Earth's proteome. Embo Reports. 8: 1135-41. PMID 18059312 DOI: 10.1038/Sj.Embor.7401117  0.501
2007 Grenier G, Scimè A, Le Grand F, Asakura A, Perez-Iratxeta C, Andrade-Navarro MA, Labosky PA, Rudnicki MA. Resident endothelial precursors in muscle, adipose, and dermis contribute to postnatal vasculogenesis. Stem Cells (Dayton, Ohio). 25: 3101-10. PMID 17823241 DOI: 10.1634/Stemcells.2006-0795  0.443
2007 Campbell PA, Perez-Iratxeta C, Andrade-Navarro MA, Rudnicki MA. Oct4 targets regulatory nodes to modulate stem cell function. Plos One. 2: e553. PMID 17579724 DOI: 10.1371/Journal.Pone.0000553  0.576
2007 Perez-Iratxeta C, Bork P, Andrade-Navarro MA. Update of the G2D tool for prioritization of gene candidates to inherited diseases. Nucleic Acids Research. 35: W212-6. PMID 17478516 DOI: 10.1093/nar/gkm223  0.671
2007 Hailesellasse Sene K, Porter CJ, Palidwor G, Perez-Iratxeta C, Muro EM, Campbell PA, Rudnicki MA, Andrade-Navarro MA. Gene function in early mouse embryonic stem cell differentiation. Bmc Genomics. 8: 85. PMID 17394647 DOI: 10.1186/1471-2164-8-85  0.625
2007 Perez-Iratxeta C, Andrade-Navarro MA, Wren JD. Evolving research trends in bioinformatics. Briefings in Bioinformatics. 8: 88-95. PMID 17077138 DOI: 10.1093/Bib/Bbl035  0.556
2006 Tiffin N, Adie E, Turner F, Brunner HG, van Driel MA, Oti M, Lopez-Bigas N, Ouzounis C, Perez-Iratxeta C, Andrade-Navarro MA, Adeyemo A, Patti ME, Semple CA, Hide W. Computational disease gene identification: a concert of methods prioritizes type 2 diabetes and obesity candidate genes. Nucleic Acids Research. 34: 3067-81. PMID 16757574 DOI: 10.1093/Nar/Gkl381  0.628
2006 Muro EM, Perez-Iratxeta C, Andrade-Navarro MA. Amplification of the Gene Ontology annotation of Affymetrix probe sets. Bmc Bioinformatics. 7: 159. PMID 16549014 DOI: 10.1186/1471-2105-7-159  0.621
2005 Perez-Iratxeta C, Wjst M, Bork P, Andrade MA. G2D: a tool for mining genes associated with disease. Bmc Genetics. 6: 45. PMID 16115313 DOI: 10.1186/1471-2156-6-45  0.595
2005 Perez-Iratxeta C, Andrade MA. Inconsistencies over time in 5% of NetAffx probe-to-gene annotations. Bmc Bioinformatics. 6: 183. PMID 16033654 DOI: 10.1186/1471-2105-6-183  0.431
2005 Korbel JO, Doerks T, Jensen LJ, Perez-Iratxeta C, Kaczanowski S, Hooper SD, Andrade MA, Bork P. Systematic association of genes to phenotypes by genome and literature mining. Plos Biology. 3: e134. PMID 15799710 DOI: 10.1371/Journal.Pbio.0030134  0.702
2005 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. Study of stem cell function using microarray experiments. Febs Letters. 579: 1795-801. PMID 15763554 DOI: 10.1016/J.Febslet.2005.02.020  0.31
2004 Pérez AJ, Perez-Iratxeta C, Bork P, Thode G, Andrade MA. Gene annotation from scientific literature using mappings between keyword systems. Bioinformatics (Oxford, England). 20: 2084-91. PMID 15059832 DOI: 10.1093/Bioinformatics/Bth207  0.605
2003 Perez-Iratxeta C, Astola N, Ciccarelli FD, Sha PK, Bork P, Andrade MA. A protocol for the update of references to scientific literature in biological databases. Applied Bioinformatics. 2: 189-91. PMID 15130808  0.655
2003 Perez-Iratxeta C, Pérez AJ, Bork P, Andrade MA. Update on XplorMed: A web server for exploring scientific literature. Nucleic Acids Research. 31: 3866-8. PMID 12824439 DOI: 10.1093/Nar/Gkg538  0.468
2003 Shah PK, Perez-Iratxeta C, Bork P, Andrade MA. Information extraction from full text scientific articles: where are the keywords? Bmc Bioinformatics. 4: 20. PMID 12775220 DOI: 10.1186/1471-2105-4-20  0.573
2003 Netzel R, Perez-Iratxeta C, Bork P, Andrade MA. The way we write. Embo Reports. 4: 446-51. PMID 12728240 DOI: 10.1038/Sj.Embor.Embor833  0.346
2002 Perez-Iratxeta C, Bork P, Andrade MA. Exploring MEDLINE abstracts with XplorMed. Drugs of Today (Barcelona, Spain : 1998). 38: 381-9. PMID 12532176 DOI: 10.1358/Dot.2002.38.6.678344  0.465
2002 Andrade MA, Ciccarelli FD, Perez-Iratxeta C, Bork P. NEAT: a domain duplicated in genes near the components of a putative Fe3+ siderophore transporter from Gram-positive pathogenic bacteria. Genome Biology. 3: RESEARCH0047. PMID 12225586 DOI: 10.1186/Gb-2002-3-9-Research0047  0.65
2002 Perez-Iratxeta C, Keer HS, Bork P, Andrade MA. Computing fuzzy associations for the analysis of biological literature. Biotechniques. 32: 1380-2, 1384-5. PMID 12074170 DOI: 10.2144/02326Bc03  0.49
2002 Perez-Iratxeta C, Bork P, Andrade MA. Association of genes to genetically inherited diseases using data mining. Nature Genetics. 31: 316-9. PMID 12006977 DOI: 10.1038/Ng895  0.588
2001 Perez-Iratxeta C, Bork P, Andrade MA. XplorMed: a tool for exploring MEDLINE abstracts. Trends in Biochemical Sciences. 26: 573-5. PMID 11551795 DOI: 10.1016/S0968-0004(01)01926-0  0.46
Low-probability matches (unlikely to be authored by this person)
2001 Andrade MA, Perez-Iratxeta C, Ponting CP. Protein repeats: structures, functions, and evolution. Journal of Structural Biology. 134: 117-31. PMID 11551174 DOI: 10.1006/Jsbi.2001.4392  0.298
2012 Ha A, Perez-Iratxeta C, Liu H, Mears AJ, Wallace VA. Identification of Wnt/β-catenin modulated genes in the developing retina. Molecular Vision. 18: 645-56. PMID 22509096  0.278
2002 Perez-Iratxeta C, Andrade MA. Worldwide scientific publishing activity. Science (New York, N.Y.). 297: 519. PMID 12143877 DOI: 10.1126/Science.297.5581.519B  0.233
2014 Palii CG, Vulesevic B, Fraineau S, Pranckeviciene E, Griffith AJ, Chu A, Faralli H, Li Y, McNeill B, Sun J, Perkins TJ, Dilworth FJ, Perez-Iratxeta C, Suuronen EJ, Allan DS, et al. Trichostatin A enhances vascular repair by injected human endothelial progenitors through increasing the expression of TAL1-dependent genes. Cell Stem Cell. 14: 644-57. PMID 24792117 DOI: 10.1016/J.Stem.2014.03.003  0.197
2012 Liu QC, Zha XH, Faralli H, Yin H, Louis-Jeune C, Perdiguero E, Pranckeviciene E, Muñoz-Cànoves P, Rudnicki MA, Brand M, Perez-Iratxeta C, Dilworth FJ. Comparative expression profiling identifies differential roles for Myogenin and p38α MAPK signaling in myogenesis. Journal of Molecular Cell Biology. 4: 386-97. PMID 22847234 DOI: 10.1093/Jmcb/Mjs045  0.193
2011 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. Differential genomic targeting of the transcription factor TAL1 in alternate haematopoietic lineages. The Embo Journal. 30: 494-509. PMID 21179004 DOI: 10.1038/emboj.2010.342  0.191
2011 Guevel L, Lavoie JR, Perez-Iratxeta C, Rouger K, Dubreil L, Feron M, Talon S, Brand M, Megeney LA. Quantitative proteomic analysis of dystrophic dog muscle. Journal of Proteome Research. 10: 2465-78. PMID 21410286 DOI: 10.1021/pr2001385  0.177
2012 Sandie R, Porter CJ, Palidwor GA, Price F, Krzyzanowski PM, Muro EM, Hoersch S, Smith M, Campbell PA, Perez-Iratxeta C, Rudnicki MA, Andrade-Navarro MA. Paired sage-microarray expression data sets reveal antisense transcripts differentially expressed in embryonic stem cell differentiation Computational Biology of Embryonic Stem Cells. 193-215. DOI: 10.2174/978160805025311201010193  0.169
2013 Pépin D, Paradis F, Perez-Iratxeta C, Picketts DJ, Vanderhyden BC. The imitation switch ATPase Snf2l is required for superovulation and regulates Fgl2 in differentiating mouse granulosa cells. Biology of Reproduction. 88: 142. PMID 23616592 DOI: 10.1095/biolreprod.112.105742  0.139
2009 Pratt MA, Tibbo E, Robertson SJ, Jansson D, Hurst K, Perez-Iratxeta C, Lau R, Niu MY. The canonical NF-kappaB pathway is required for formation of luminal mammary neoplasias and is activated in the mammary progenitor population. Oncogene. 28: 2710-22. PMID 19483731 DOI: 10.1038/Onc.2009.131  0.131
2011 Fussner E, Djuric U, Strauss M, Hotta A, Perez-Iratxeta C, Lanner F, Dilworth FJ, Ellis J, Bazett-Jones DP. Constitutive heterochromatin reorganization during somatic cell reprogramming. The Embo Journal. 30: 1778-89. PMID 21468033 DOI: 10.1038/Emboj.2011.96  0.13
2014 Laviolette LA, Hodgkinson KM, Minhas N, Perez-Iratxeta C, Vanderhyden BC. 17β-estradiol upregulates GREB1 and accelerates ovarian tumor progression in vivo. International Journal of Cancer. Journal International Du Cancer. 135: 1072-84. PMID 24469735 DOI: 10.1002/Ijc.28741  0.126
2009 Chaturvedi CP, Hosey AM, Palii C, Perez-Iratxeta C, Nakatani Y, Ranish JA, Dilworth FJ, Brand M. Dual role for the methyltransferase G9a in the maintenance of beta-globin gene transcription in adult erythroid cells. Proceedings of the National Academy of Sciences of the United States of America. 106: 18303-8. PMID 19822740 DOI: 10.1073/pnas.0906769106  0.126
2014 Lavoie JR, Ormiston ML, Perez-Iratxeta C, Courtman DW, Jiang B, Ferrer E, Caruso P, Southwood M, Foster WS, Morrell NW, Stewart DJ. Proteomic analysis implicates translationally controlled tumor protein as a novel mediator of occlusive vascular remodeling in pulmonary arterial hypertension. Circulation. 129: 2125-35. PMID 24657995 DOI: 10.1161/Circulationaha.114.008777  0.116
2011 Alvarez-Saavedra M, Antoun G, Yanagiya A, Oliva-Hernandez R, Cornejo-Palma D, Perez-Iratxeta C, Sonenberg N, Cheng HY. miRNA-132 orchestrates chromatin remodeling and translational control of the circadian clock. Human Molecular Genetics. 20: 731-51. PMID 21118894 DOI: 10.1093/Hmg/Ddq519  0.115
2014 Guo H, Chitiprolu M, Gagnon D, Meng L, Perez-Iratxeta C, Lagace D, Gibbings D. Autophagy supports genomic stability by degrading retrotransposon RNA. Nature Communications. 5: 5276. PMID 25366815 DOI: 10.1038/ncomms6276  0.11
1997 Nuño JC, Sánchez-Valdenebro I, Pérez-Iratxeta C, Meléndez-Hevia E, Montero F. Network organization of cell metabolism: monosaccharide interconversion. The Biochemical Journal. 324: 103-11. PMID 9190785  0.06
1998 Pérez-Iratxeta C, Halloy J, Morán F, Martiel JL, Goldbeter A. Coexistence of multiple propagating wave-fronts in a regulated enzyme reaction model: link with birhythmicity and multi-threshold excitability. Biophysical Chemistry. 74: 197-207. PMID 17029746 DOI: 10.1016/S0301-4622(98)00179-3  0.047
1997 Montero F, Nuño J, Sánchez Valdenebro I, Pérez-Iratxeta C, Meléndez-Hevia E. Stoichiometric properties of the non oxidative phase of the pentose phosphate cycle Nonlinear Analysis: Theory, Methods & Applications. 30: 1865-1874. DOI: 10.1016/S0362-546X(97)00146-6  0.01
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