Sara C. Madeira
Sara C. Madeira
Associate Professor,LASIGE,Departamento de Informática,Faculdade de Ciências,Universidade de Lisboa
Verified email at fc.ul.pt - Homepage
TitleCited byYear
Biclustering algorithms for biological data analysis: a survey
SC Madeira, AL Oliveira
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB) 1 …, 2004
22612004
Babelomics: an integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling
I Medina, J Carbonell, L Pulido, SC Madeira, S Goetz, A Conesa, ...
Nucleic acids research 38 (suppl_2), W210-W213, 2010
3302010
The YEASTRACT database: an upgraded information system for the analysis of gene and genomic transcription regulation in Saccharomyces cerevisiae
MC Teixeira, PT Monteiro, JF Guerreiro, JP Gonçalves, NP Mira, ...
Nucleic acids research 42 (D1), D161-D166, 2013
2352013
YEASTRACT: providing a programmatic access to curated transcriptional regulatory associations in Saccharomyces cerevisiae through a web services interface
D Abdulrehman, PT Monteiro, MC Teixeira, NP Mira, AB Lourenco, ...
Nucleic acids research 39 (suppl_1), D136-D140, 2010
2042010
Identification of regulatory modules in time series gene expression data using a linear time biclustering algorithm
SC Madeira, MC Teixeira, I Sa-Correia, AL Oliveira
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB) 7 …, 2010
1072010
A linear time biclustering algorithm for time series gene expression data
SC Madeira, AL Oliveira
Algorithms in Bioinformatics, 39-52, 2005
652005
A polynomial time biclustering algorithm for finding approximate expression patterns in gene expression time series
SC Madeira, AL Oliveira
Algorithms for Molecular Biology 4 (1), 8, 2009
632009
BiGGEsTS: integrated environment for biclustering analysis of time series gene expression data
JP Gonçalves, SC Madeira, AL Oliveira
BMC research notes 2 (1), 124, 2009
622009
PINTA: a web server for network-based gene prioritization from expression data
D Nitsch, LC Tranchevent, JP Goncalves, JK Vogt, SC Madeira, Y Moreau
Nucleic acids research 39 (suppl_2), W334-W338, 2011
592011
BicPAM: Pattern-based biclustering for biomedical data analysis
R Henriques, SC Madeira
Algorithms for Molecular Biology 9 (1), 27, 2014
462014
A structured view on pattern mining-based biclustering
R Henriques, C Antunes, SC Madeira
Pattern Recognition 48 (12), 3941-3958, 2015
332015
BicSPAM: Flexible biclustering using sequential patterns
R Henriques, SC Madeira
BMC bioinformatics 15 (1), 130, 2014
322014
Interactogeneous: disease gene prioritization using heterogeneous networks and full topology scores
JP Gonçalves, AP Francisco, Y Moreau, SC Madeira
PloS one 7 (11), e49634, 2012
302012
An efficient biclustering algorithm for finding genes with similar patterns in time-series expression data
SC Madeira, AL Oliveira
Proceedings Of The 5th Asia-Pacific Bioinformatics Conference, 67-80, 2007
242007
Biclustering with Flexible Plaid Models to Unravel Interactions between Biological Processes
R Henriques, SC Madeira
IEEE/ACM Transactions on Computational Biology and Bioinformatics 12 (4), 2015
212015
BicNET: Flexible module discovery in large-scale biological networks using biclustering
R Henriques, SC Madeira
Algorithms for Molecular Biology 11 (1), 14, 2016
172016
BicPAMS: Software for biological data analysis with pattern-based biclustering
R Henriques, FL Ferreira, SC Madeira
BMC Bioinformatics 18 (1), 82, 2017
152017
TFRank: network-based prioritization of regulatory associations underlying transcriptional responses
JP Gonçalves, AP Francisco, NP Mira, MC Teixeira, I Sá-Correia, ...
Bioinformatics 27 (22), 3149-3157, 2011
142011
Prognostic prediction through biclustering-based classification of clinical gene expression time series
AV Carreiro, O Anunciação, JA Carriço, SC Madeira
Journal of integrative bioinformatics 8 (3), 73-89, 2011
122011
LateBiclustering: Efficient heuristic algorithm for time-lagged bicluster identification
JP Gonçalves, SC Madeira
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB) 11 …, 2014
112014
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