Gene expression atlas at the European bioinformatics institute
Kapushesky, Misha, Emam, Ibrahim, Holloway, Ele, Kurnosov, Pavel, Zorin, Andrey, Malone, James, Rustici, Gabriella, Williams, Eleanor, Parkinson, Helen, Brazma, Alvis
Published in Nucleic acids research (01.01.2010)
Published in Nucleic acids research (01.01.2010)
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Journal Article
Mitochondrial Complex I Is a Global Regulator of Secondary Metabolism, Virulence and Azole Sensitivity in Fungi
Bromley, Mike, Johns, Anna, Davies, Emma, Fraczek, Marcin, Mabey Gilsenan, Jane, Kurbatova, Natalya, Keays, Maria, Kapushesky, Misha, Gut, Marta, Gut, Ivo, Denning, David W, Bowyer, Paul
Published in PloS one (20.07.2016)
Published in PloS one (20.07.2016)
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Journal Article
Reversion of a fungal genetic code alteration links proteome instability with genomic and phenotypic diversification
Bezerra, Ana R., Simões, João, Lee, Wanseon, Rung, Johan, Weil, Tobias, Gut, Ivo G., Gut, Marta, Bayés, Mónica, Rizzetto, Lisa, Cavalieri, Duccio, Giovannini, Gloria, Bozza, Silvia, Romani, Luigina, Kapushesky, Misha, Moura, Gabriela R., Santos, Manuel A. S.
Published in Proceedings of the National Academy of Sciences - PNAS (02.07.2013)
Published in Proceedings of the National Academy of Sciences - PNAS (02.07.2013)
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Journal Article
Genomic and Phenotypic Variation in Morphogenetic Networks of Two Candida albicans Isolates Subtends Their Different Pathogenic Potential
Cavalieri, Duccio, Di Paola, Monica, Rizzetto, Lisa, Tocci, Noemi, De Filippo, Carlotta, Lionetti, Paolo, Ardizzoni, Andrea, Colombari, Bruna, Paulone, Simona, Gut, Ivo G, Berná, Luisa, Gut, Marta, Blanc, Julie, Kapushesky, Misha, Pericolini, Eva, Blasi, Elisabetta, Peppoloni, Samuele
Published in Frontiers in immunology (19.01.2018)
Published in Frontiers in immunology (19.01.2018)
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Journal Article
Correction: Mitochondrial Complex I Is a Global Regulator of Secondary Metabolism, Virulence and Azole Sensitivity in Fungi
Bromley, Mike, Johns, Anna, Davies, Emma, Fraczek, Marcin, Gilsenan, Jane Mabey, Kurbatova, Natalya, Keays, Maria, Kapushesky, Misha, Gut, Marta, Gut, Ivo, Denning, David W, Bowyer, Paul
Published in PloS one (02.02.2017)
Published in PloS one (02.02.2017)
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Journal Article
OntoCAT--simple ontology search and integration in Java, R and REST/JavaScript
Adamusiak, Tomasz, Burdett, Tony, Kurbatova, Natalja, Joeri van der Velde, K, Abeygunawardena, Niran, Antonakaki, Despoina, Kapushesky, Misha, Parkinson, Helen, Swertz, Morris A
Published in BMC bioinformatics (29.05.2011)
Published in BMC bioinformatics (29.05.2011)
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Journal Article
ontoCAT: an R package for ontology traversal and search
Kurbatova, Natalja, Adamusiak, Tomasz, Kurnosov, Pavel, Swertz, Morris A, Kapushesky, Misha
Published in Bioinformatics (Oxford, England) (01.09.2011)
Published in Bioinformatics (Oxford, England) (01.09.2011)
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Journal Article
Low level genome mistranslations deregulate the transcriptome and translatome and generate proteotoxic stress in yeast
Paredes, João A, Carreto, Laura, Simões, João, Bezerra, Ana R, Gomes, Ana C, Santamaria, Rodrigo, Kapushesky, Misha, Moura, Gabriela R, Santos, Manuel A S
Published in BMC biology (20.06.2012)
Published in BMC biology (20.06.2012)
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Journal Article
Data storage and analysis in ArrayExpress
Brazma, Alvis, Kapushesky, Misha, Parkinson, Helen, Sarkans, Ugis, Shojatalab, Mohammad
Published in Methods in enzymology (2006)
Published in Methods in enzymology (2006)
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Journal Article
Modeling sample variables with an Experimental Factor Ontology
Malone, James, Holloway, Ele, Adamusiak, Tomasz, Kapushesky, Misha, Zheng, Jie, Kolesnikov, Nikolay, Zhukova, Anna, Brazma, Alvis, Parkinson, Helen
Published in Bioinformatics (15.04.2010)
Published in Bioinformatics (15.04.2010)
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Journal Article
A global map of human gene expression
Brazma, Alvis, Lukk, Margus, Kapushesky, Misha, Nikkilä, Janne, Parkinson, Helen, Goncalves, Angela, Huber, Wolfgang, Ukkonen, Esko
Published in Nature biotechnology (01.04.2010)
Published in Nature biotechnology (01.04.2010)
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Journal Article
A pipeline for RNA-seq data processing and quality assessment
GONCALVES, Angela, TIKHONOV, Andrew, BRAZMA, Alvis, KAPUSHESKY, Misha
Published in Bioinformatics (15.03.2011)
Published in Bioinformatics (15.03.2011)
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Journal Article
Importing ArrayExpress datasets into R/Bioconductor
Kauffmann, Audrey, Rayner, Tim F., Parkinson, Helen, Kapushesky, Misha, Lukk, Margus, Brazma, Alvis, Huber, Wolfgang
Published in Bioinformatics (15.08.2009)
Published in Bioinformatics (15.08.2009)
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Journal Article
Gene Expression Atlas update-a value-added database of microarray and sequencing-based functional genomics experiments
Kapushesky, Misha, Adamusiak, Tomasz, Burdett, Tony, Culhane, Aedin, Farne, Anna, Filippov, Alexey, Holloway, Ele, Klebanov, Andrey, Kryvych, Nataliya, Kurbatova, Natalja, Kurnosov, Pavel, Malone, James, Melnichuk, Olga, Petryszak, Robert, Pultsin, Nikolay, Rustici, Gabriella, Tikhonov, Andrew, Travillian, Ravensara S., Williams, Eleanor, Zorin, Andrey, Parkinson, Helen, Brazma, Alvis
Published in Nucleic acids research (01.01.2012)
Published in Nucleic acids research (01.01.2012)
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Journal Article
ArrayExpress update--from an archive of functional genomics experiments to the atlas of gene expression
Parkinson, Helen, Kapushesky, Misha, Kolesnikov, Nikolay, Rustici, Gabriella, Shojatalab, Mohammad, Abeygunawardena, Niran, Berube, Hugo, Dylag, Miroslaw, Emam, Ibrahim, Farne, Anna, Holloway, Ele, Lukk, Margus, Malone, James, Mani, Roby, Pilicheva, Ekaterina, Rayner, Tim F, Rezwan, Faisal, Sharma, Anjan, Williams, Eleanor, Bradley, Xiangqun Zheng, Adamusiak, Tomasz, Brandizi, Marco, Burdett, Tony, Coulson, Richard, Krestyaninova, Maria, Kurnosov, Pavel, Maguire, Eamonn, Neogi, Sudeshna Guha, Rocca-Serra, Philippe, Sansone, Susanna-Assunta, Sklyar, Nataliya, Zhao, Mengyao, Sarkans, Ugis, Brazma, Alvis
Published in Nucleic acids research (01.01.2009)
Published in Nucleic acids research (01.01.2009)
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Journal Article
ArrayExpress—a public repository for microarray gene expression data at the EBI
Brazma, Alvis, Parkinson, Helen, Sarkans, Ugis, Shojatalab, Mohammadreza, Vilo, Jaak, Abeygunawardena, Niran, Holloway, Ele, Kapushesky, Misha, Kemmeren, Patrick, Lara, Gonzalo Garcia, Oezcimen, Ahmet, Rocca-Serra, Philippe, Sansone, Susanna-Assunta
Published in Nucleic acids research (01.01.2003)
Published in Nucleic acids research (01.01.2003)
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Journal Article
Deciphering the mechanism of action of 089, a compound impairing the fungal cell cycle
Stefanini, Irene, Rizzetto, Lisa, Rivero, Damariz, Carbonell, Silvia, Gut, Marta, Heath, Simon, Gut, Ivo G., Trabocchi, Andrea, Guarna, Antonio, Ben Ghazzi, Nagwa, Bowyer, Paul, Kapushesky, Misha, Cavalieri, Duccio
Published in Scientific reports (13.04.2018)
Published in Scientific reports (13.04.2018)
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Journal Article
GeneSigDB: a manually curated database and resource for analysis of gene expression signatures
Culhane, Aedín C., Schröder, Markus S., Sultana, Razvan, Picard, Shaita C., Martinelli, Enzo N., Kelly, Caroline, Haibe-Kains, Benjamin, Kapushesky, Misha, St Pierre, Anne-Alyssa, Flahive, William, Picard, Kermshlise C., Gusenleitner, Daniel, Papenhausen, Gerald, O'Connor, Niall, Correll, Mick, Quackenbush, John
Published in Nucleic acids research (01.01.2012)
Published in Nucleic acids research (01.01.2012)
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Journal Article
Systems biology of infectious diseases: a focus on fungal infections
Santamaría, Rodrigo, Rizzetto, Lisa, Bromley, Michael, Zelante, Teresa, Lee, Wanseon, Cavalieri, Duccio, Romani, Luigina, Miller, Brian, Gut, Ivo, Santos, Manuel, Pierre, Philippe, Bowyer, Paul, Kapushesky, Misha
Published in Immunobiology (1979) (01.11.2011)
Published in Immunobiology (1979) (01.11.2011)
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Journal Article
Expression Profiler: next generation—an online platform for analysis of microarray data
Kapushesky, Misha, Kemmeren, Patrick, Culhane, Aedín C., Durinck, Steffen, Ihmels, Jan, Körner, Christine, Kull, Meelis, Torrente, Aurora, Sarkans, Ugis, Vilo, Jaak, Brazma, Alvis
Published in Nucleic acids research (01.07.2004)
Published in Nucleic acids research (01.07.2004)
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Journal Article