Aedín C. Culhane

Markus S. Schröder, Daniel Gusenleitner, John Quackenbush, Aedín C. Culhane, Benjamin Haibe-Kains: RamiGO: an R/Bioconductor package providing an AmiGO Visualize interface. Bioinformatics 29(5): 666-668 (2013)

Daniel Gusenleitner, Eleanor Howe, Stefan Bentink, John Quackenbush, Aedín C. Culhane: iBBiG: iterative binary bi-clustering of gene sets. Bioinformatics 28(19): 2484-2492 (2012)

Shannan J. Ho Sui, Kimberly Begley, Dorothy Reilly, Brad Chapman, Ray McGovern, Philippe Rocca-Serra, Eamonn Maguire, Gabriel M. Altschuler, Terah A. A. Hansen, Ramakrishna Sompallae, Andrei Krivtsov, Ramesh A. Shivdasani, Scott A. Armstrong, Aedín C. Culhane, Mick Correll, Susanna-Assunta Sansone, Oliver Hofmann, Winston Hide: The Stem Cell Discovery Engine: an integrated repository and analysis system for cancer stem cell comparisons. Nucleic Acids Research 40(Database-Issue): 984-991 (2012)

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: GeneSigDB: a manually curated database and resource for analysis of gene expression signatures. Nucleic Acids Research 40(Database-Issue): 1060-1066 (2012)

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: Gene Expression Atlas update - a value-added database of microarray and sequencing-based functional genomics experiments. Nucleic Acids Research 40(Database-Issue): 1077-1081 (2012)

Markus S. Schröder, Aedín C. Culhane, John Quackenbush, Benjamin Haibe-Kains: survcomp: an R/Bioconductor package for performance assessment and comparison of survival models. Bioinformatics 27(22): 3206-3208 (2011)

Aedín C. Culhane, Thomas Schwarzl, Razvan Sultana, Kermshlise C. Picard, Shaita C. Picard, Tim H. Lu, Katherine R. Franklin, Simon J. French, Gerald Papenhausen, Mick Correll, John Quackenbush: GeneSigDB - a curated database of gene expression signatures. Nucleic Acids Research 38(Database-Issue): 716-725 (2010)

Amira Djebbari, Aedín C. Culhane, Alice Armstrong, John Quackenbush: AI Methods for Analyzing Microarray Data. Encyclopedia of Artificial Intelligence 2009: 65-70

Ian B. Jeffery, Stephen F. Madden, Paul A. McGettigan, Guy Perrière, Aedín C. Culhane, Desmond G. Higgins: Integrating transcription factor binding site information with gene expression datasets. Bioinformatics 23(3): 298-305 (2007)

Ian B. Jeffery, Desmond G. Higgins, Aedín C. Culhane: Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data. BMC Bioinformatics 7: 359 (2006)

Aedín C. Culhane, Jean Thioulouse, Guy Perrière, Desmond G. Higgins: MADE4: an R package for multivariate analysis of gene expression data. Bioinformatics 21(11): 2789-2790 (2005)

Florent Baty, Michel P. Bihl, Guy Perrière, Aedín C. Culhane, Martin H. Brutsche: Optimized between-group classification: a new jackknife-based gene selection procedure for genome-wide expression data. BMC Bioinformatics 6: 239 (2005)

Misha Kapushesky, Patrick Kemmeren, Aedín C. Culhane, Steffen Durinck, Jan Ihmels, Christine Körner, Meelis Kull, Aurora Torrente, Ugis Sarkans, Jaak Vilo, Alvis Brazma: Expression Profiler: next generation - an online platform for analysis of microarray data. Nucleic Acids Research 32(Web-Server-Issue): 465-470 (2004)

Aedín C. Culhane, Guy Perrière, Desmond G. Higgins: Cross-platform comparison and visualisation of gene expression data using co-inertia analysis. BMC Bioinformatics 4: 59 (2003)

Aedín C. Culhane, Guy Perrière, Elizabeth C. Considine, Thomas G. Cotter, Desmond G. Higgins: Between-group analysis of microarray data. Bioinformatics 18(12): 1600-1608 (2002)