Misha Kapushesky

20 papers B 1C 1Journal 17Unranked 1
YearRankTypeTitle / Venue / Authors
2012 J jnl
Gene Expression Atlas update - a value-added database of microarray and sequencing-based functional genomics experiments.
Nucleic Acids Res.
Misha Kapushesky, Tomasz Adamusiak, Tony Burdett, Aedín C. Culhane, Anna Farne, Alexey Filippov, Ele Holloway, Andrey Klebanov, Nataliya Kryvych, Natalja Kurbatova, Pavel Kurnosov, James Malone, Olga Melnichuk, Robert Petryszak, Nikolay Pultsin, Gabriella Rustici, Andrew Tikhonov, Ravensara S. Travillian, Eleanor Williams, Andrey Zorin, Helen E. Parkinson, Alvis Brazma
2012 J jnl
GeneSigDB: a manually curated database and resource for analysis of gene expression signatures.
Nucleic Acids Res.
Aedín C. Culhane, Markus S. Schröder, Razvan Sultana, Shaita C. Picard, Enzo N. Martinelli, Caroline Kelly, Benjamin Haibe-Kains, Misha Kapushesky, Anne-Alyssa St Pierre, William Flahive, Kermshlise C. Picard, Daniel Gusenleitner, Gerald Papenhausen, Niall O'Connor, Mick Correll, John Quackenbush
2011 J jnl
A pipeline for RNA-seq data processing and quality assessment.
Bioinform.
Ângela Gonçalves, Andrew Tikhonov, Alvis Brazma, Misha Kapushesky
2011 J jnl
OntoCAT - simple ontology search and integration in Java, R and REST/JavaScript.
BMC Bioinform.
Tomasz Adamusiak, Tony Burdett, Natalja Kurbatova, K. Joeri van der Velde, Niran Abeygunawardena, Despoina Antonakaki, Misha Kapushesky, Helen E. Parkinson, Morris A. Swertz
2011 J jnl
ontoCAT: an R package for ontology traversal and search.
Bioinform.
Natalja Kurbatova, Tomasz Adamusiak, Pavel Kurnosov, Morris A. Swertz, Misha Kapushesky
2010 J jnl
Gene Expression Atlas at the European Bioinformatics Institute.
Nucleic Acids Res.
Misha Kapushesky, Ibrahim Emam, Ele Holloway, Pavel Kurnosov, Andrey Zorin, James Malone, Gabriella Rustici, Eleanor Williams, Helen E. Parkinson, Alvis Brazma
2010 J jnl
Modeling sample variables with an Experimental Factor Ontology.
Bioinform.
James Malone, Ele Holloway, Tomasz Adamusiak, Misha Kapushesky, Jie Zheng, Nikolay Kolesnikov, Anna Zhukova, Alvis Brazma, Helen E. Parkinson
2009 J jnl
ArrayExpress update - from an archive of functional genomics experiments to the atlas of gene expression.
Nucleic Acids Res.
Helen E. Parkinson, Misha Kapushesky, Nikolay Kolesnikov, Gabriella Rustici, Mohammadreza Shojatalab, Niran Abeygunawardena, Hugo Bérubé, Miroslaw Dylag, Ibrahim Emam, Anna Farne, Ele Holloway, Margus Lukk, James Malone, Roby Mani, Ekaterina Pilicheva, Tim F. Rayner, Faisal Ibne Rezwan, Anjan Sharma, Eleanor Williams, Xiangqun Zheng Bradley, Tomasz Adamusiak, Marco Brandizi, Tony Burdett, Richard Coulson, Maria Krestyaninova, Pavel Kurnosov, Eamonn Maguire, Sudeshna Guha Neogi, Philippe Rocca-Serra, Susanna-Assunta Sansone, Nataliya Sklyar, Mengyao Zhao, Ugis Sarkans, Alvis Brazma
2009 — conf
Developing an Ontology from the Application Up.
OWLED
James Malone, Tomasz Adamusiak, Ele Holloway, Misha Kapushesky, Helen E. Parkinson
2009 J jnl
Importing ArrayExpress datasets into R/Bioconductor.
Bioinform.
Audrey Kauffmann, Tim F. Rayner, Helen E. Parkinson, Misha Kapushesky, Margus Lukk, Alvis Brazma, Wolfgang Huber
2008 J jnl
4D
Nucleic Acids Res.
Yannick Haudry, Hugo Bérubé, Ivica Letunic, Paul-Daniel Weeber, Julien Gagneur, Charles Girardot, Misha Kapushesky, Detlev Arendt, Peer Bork, Alvis Brazma, Eileen E. M. Furlong, Joachim Wittbrodt, Thorsten Henrich
2008 B conf
Comparing and Analysing Gene Expression Patterns Across Animal Species Using 4DXpress.
APBC
Yannick Haudry, Chuang Kee Ong, Laurence Ettwiller, Hugo Bérubé, Ivica Letunic, Misha Kapushesky, Paul-Daniel Weeber, Xi Wang, Julien Gagneur, Charles Girardot, Detlev Arendt, Peer Bork, Alvis Brazma, Eileen E. M. Furlong, Joachim Wittbrodt, Thorsten Henrich
2007 J jnl
ArrayExpress - a public database of microarray experiments and gene expression profiles.
Nucleic Acids Res.
Helen E. Parkinson, Misha Kapushesky, Mohammadreza Shojatalab, Niran Abeygunawardena, Richard Coulson, Anna Farne, Ele Holloway, Nikolay Kolesnykov, P. Lilja, Margus Lukk, Roby Mani, Tim F. Rayner, Anjan Sharma, E. William, Ugis Sarkans, Alvis Brazma
2006 J jnl
ChroCoLoc: an application for calculating the probability of co-localization of microarray gene expression.
Bioinform.
Jonathon Blake, Christian Schwager, Misha Kapushesky, Alvis Brazma
2005 J jnl
A new algorithm for comparing and visualizing relationships between hierarchical and flat gene expression data clusterings.
Bioinform.
Aurora Torrente, Misha Kapushesky, Alvis Brazma
2005 J jnl
ArrayExpress - a public repository for microarray gene expression data at the EBI.
Nucleic Acids Res.
Helen E. Parkinson, Ugis Sarkans, Mohammadreza Shojatalab, Niran Abeygunawardena, Sergio Contrino, Richard Coulson, Anna Farne, Gonzalo Garcia Lara, Ele Holloway, Misha Kapushesky, P. Lilja, Gaurab Mukherjee, Ahmet Oezcimen, Tim F. Rayner, Philippe Rocca-Serra, Anjan Sharma, Susanna-Assunta Sansone, Alvis Brazma
2005 J jnl
The ArrayExpress gene expression database: a software engineering and implementation perspective.
Bioinform.
Ugis Sarkans, Helen E. Parkinson, Gonzalo Garcia Lara, Ahmet Oezcimen, Anjan Sharma, Niran Abeygunawardena, Sergio Contrino, Ele Holloway, Philippe Rocca-Serra, Gaurab Mukherjee, Mohammadreza Shojatalab, Misha Kapushesky, Susanna-Assunta Sansone, Anna Farne, Tim F. Rayner, Alvis Brazma
2004 J jnl
Expression Profiler: next generation - an online platform for analysis of microarray data.
Nucleic Acids Res.
Misha Kapushesky, Patrick Kemmeren, Aedín C. Culhane, Steffen Durinck, Jan Ihmels, Christine Körner, Meelis Kull, Aurora Torrente, Ugis Sarkans, Jaak Vilo, Alvis Brazma
2004 C conf
Supervised Learning-Aided Optimization of Expert-Driven Functional Protein Sequence Annotation.
WABI
Lev Soinov, Alexander Kanapin, Misha Kapushesky
2003 J jnl
ArrayExpress - a public repository for microarray gene expression data at the EBI.
Nucleic Acids Res.
Alvis Brazma, Helen E. Parkinson, Ugis Sarkans, Mohammadreza Shojatalab, Jaak Vilo, Niran Abeygunawardena, Ele Holloway, Misha Kapushesky, Patrick Kemmeren, Gonzalo Garcia Lara, Ahmet Oezcimen, Philippe Rocca-Serra, Susanna-Assunta Sansone