Computational Biology and Data Mining

The titles of the publications are linked to Google Scholar. The [>] symbols link to more information about this and related publications.

2010

• Muro, E.M., N. Mah, G. Moreno-Hagelsieb, M.A. Andrade-Navarro. 2010. The pseudogenes of Mycobacterium leprae reveal the functional relevance of gene order within operons. Nucleic Acids Research. In press. [>]

• Mah, N., C. Perez-Iratxeta, M.A. Andrade-Navarro. 2010. Outer membrane pore protein prediction in mycobacteria using genomic comparison. Microbiology. 156, 2506-2515. [>]

• Christ, A., S. Terryn, E.I. Christensen, M.R. Huska, M.A. Andrade-Navarro, N. Hübner, O. Devuyst, A. Hammes, and T.E. Willnow. 2010. The soluble intracellular domain of megalin does not affect renal proximal tubular function in vivo. Kidney International. 78, 473-477. [>]

• Zhang, J., P. Wagh, D. Guay, L. Sanchez-Pulido, B.K. Padhi, V. Korzh, M.A. Andrade-Navarro and M. Akimenko. 2010. Loss of actinodins, fish actinotrichia proteins: a step in the fin to limb transition. Nature. 466, 234-237. [>]

• Wang, Y., N. Mah, A. Prigione, K. Wolfrum, M.A. Andrade-Navarro and J. Adjaye. 2010. A transcriptional roadmap to the induction of pluripotency in somatic cells. Stem Cell Reviews and Reports. 6, 282-296. [>]

• Barbosa-Silva, A., T.G Soldatos, I.L.F. Magalhães, G.A. Pavlopoulos, J.F. Fontaine, M.A. Andrade-Navarro, R. Schneider, J.M. Ortega. 2010. LAITOR – literature assistant for identification of terms co-occurrences and relationships. BMC Bioinformatics. 11, 70. [>]

• Striegl, H., M.A. Andrade-Navarro, U. Heinemann. 2010. Armadillo motifs involved in vesicular transport. PLoS ONE. 5, e8991. [>]

• Hoersch, S. and M.A. Andrade-Navarro. 2010. Periostin shows increased evolutionary plasticity in its alternatively spliced region. BMC Evolutionary Biology. 10, 30. [>]

• Palidwor, G., M.A. Andrade-Navarro. 2009. MLTrends: Graphing MEDLINE term usage over time. Journal of Biomedical Discovery and Collaboration. 5, 1-6. [MLTrends]. [>]

• Scimè, A., J. Desrosiers, F. Trensz, G.A. Palidwor, A.Z. Caron, M.A. Andrade-Navarro, G. Grenier. 2010. Transcriptional profiling of skeletal muscle reveals factors that are necessary to maintain satellite cell integrity during ageing. Mechanisms of Ageing and Development. 131, 9-20. [>]

2009

• Andrade-Navarro, M.A. 2009. Book review: the dictionary of genomics, transcriptomics and proteomics. Bioessays. 31, 1367–1369. [>]

• Andrade-Navarro, M.A., L. Sanchez-Pulido and H.M. McBride. 2009. Mitochondrial vesicles: an ancient process providing new links to peroxisomes. Current Opinion in Cell Biology. 21, 560-567. [>]

• Bröske, A., L. Vockentanz, S. Kharazi, M.R. Huska, E. Mancini, M. Scheller, A. Enns, M. Prinz, R. Jaenisch, C. Nerlov, A. Leutz, M.A. Andrade-Navarro, S.E.W. Jacobsen, F. Rosenbauer. 2009. DNA methylation protects hematopoietic stem cell multipotency from myeloerythroid restriction. Nature Genetics. 41, 207-215. [>]

• Fontaine, J., A. Barbosa-Silva, M. Schaefer, M.R. Huska, E.M. Muro and M.A. Andrade-Navarro. 2009. MedlineRanker: flexible ranking of biomedical literature. Nucleic Acids Research. 37, W141-W146. [MedlineRanker] [>]

• Muro, E.M., J.A. McCann, M.A. Rudnicki and M.A. Andrade-Navarro. Use of SNP-Arrays for ChIP assays: computational aspects. Methods Mol Biol. 567, 145-154. [>]

• Palidwor, G.A., S. Shcherbinin, M.R. Huska, T. Rasko, U. Stelzl, A. Arumughan, R. Foulle, P. Porras, L. Sanchez-Pulido, E.E. Wanker, M.A. Andrade-Navarro. 2009. Detection of alpha-rod repeats using a neural network and application to huntingtin. PLoS Comp. Biol. 5, e1000304. [ARD] [>]

• Sandie, R., G.A. Palidwor, M.R. Huska, C.J. Porter, P.M. Krzyzanowski, E.M. Muro, C. Perez-Iratxeta, M.A. Andrade-Navarro. 2009. Recent developments in StemBase: a tool to study gene expression in human and murine stem cells. BMC Research Notes. 2, 39. [StemBase] [>]

• Tiffin, N., M.A. Andrade-Navarro and C. Perez-Iratxeta. 2009. Linking genes to diseases: it's all in the data. Genome Medicine. 1, 77. [>]

2008

• Muro, E.M., R. Herrington, S. Janmohamed, C. Frelin, M.A. Andrade-Navarro, and N.N. Iscove. 2008. Targeting probes to gene 3’-ends by automated EST cluster analysis. Proc. Natl. Acad. Sci. 150, 20286-20290. [Transcriptome Sailor] [>]

• Neuspiel, M., A.C. Schauss, E. Braschi, R. Zunino, P. Rippstein, R.A. Rachubinski, M.A. Andrade-Navarro and H.M. McBride. 2008. Cargo-selected transport from the mitochondria to peroxisomes is mediated by vesicular carriers. Current Biology. 18, 102-108. [>]

• Perez-Iratxeta, C. and M.A. Andrade-Navarro. 2008. K2D2: Estimation of protein secondary structure from CD spectra. BMC Structural Biology. 8, 25. [>]

• Song, H., Sandie, R., Y. Wang, S. Sukumaran, M.A. Andrade-Navarro and M. Niederweis. 2008. Identification of outer membrane proteins of Mycobacterium tuberculosis. Tuberculosis. 88, 526-544. [>]

• Tiffin, N., I. Okpechi, C. Perez-Iratxeta, M.A. Andrade-Navarro, R. Ramesar. 2008. Prioritisation of candidate disease genes for metabolic syndrome by computational analysis of its defining phenotypes. Physiological Genomics. 35, 55-64. [>]

• Tremblay, K., M. Lemire, C. Potvin, A. Tremblay, G.M., Hunninghake, B.A. Raby, T.J. Hudson, C. Perez-Iratxeta, M.A. Andrade-Navarro and C. Laprise. 2008. Genes to Diseases (G2D) computational method to identify asthma candidate genes. PLoS ONE. 3, e2907. [>]

2007

• Bonnet, S., S.L. Archer, J. Allalunis-Turner, A. Haromy, C. Beaulieu, R. Thompson, C.T. Lee, G.D. Lopaschuck, L. Puttagunta, S. Bonnet, G. Harry, K. Hashimoto, C.J. Porter, M.A. Andrade, B. Thebaud, E.D. Michelakis. 2007. A mitochondria-K+ channel axis is suppressed in cancer and its normalization promotes apoptosis and inhibits cancer growth. Cancer Cell. 11, 37-51. [>]

• Buschmann, H., L. Sanchez-Pulido, M.A. Andrade-Navarro and C.W. Lloyd. 2007. Homologues of Arabidopsis microtubule-associated AIR9 in trypanosomatid parasites: hints on evolution and function. Plant Signaling & Behavior. 2, 296-299. [>]
  

• Campbell, P.A., C. Perez-Iratxeta, M.A. Andrade-Navarro, and M.A. Rudnicki. 2007. Oct4 targets regulatory nodes to modulate stem cell function. PLoS ONE. 2, e553. [>]

• Grenier, G., A. Scimè, A. Asakura, C. Perez-Iratxeta, M.A. Andrade-Navarro, P.A. Labosky and M.A. Rudnicki. 2007. Resident endothelial precursors in muscle, adipose and dermis contribute to post-natal vasculogenesis. Stem Cells. 25, 3101-3110. [>]
  

• Hailesellasse Sene, K., C.J. Porter, G. Palidwor, C. Perez-Iratxeta, E.M. Muro, P.A. Campbell, M.A. Rudnicki, M.A. Andrade-Navarro. 2007. Gene function in early mouse embryonic stem cell differentiation. BMC Genomics. 8, 85. [>]

• Huska, M.R., H. Buschmann and M.A. Andrade-Navarro. 2007. BiasViz: Visualization of amino acid biased regions in protein alignments. Bioinformatics. 23, 3093-3094. [BiasViz] [>]

• Krzyzanowski, P.M. and M.A. Andrade-Navarro. 2007. Identification of novel stem cell markers using gap analysis of gene expression data. Genome Biology. 8, R193. [Marker Server] [>]
  

• Kulkarni, G., D.A. Turbin, A. Amiri, S. Jeganathan, M.A. Andrade-Navarro, T.D. Wu, D.G. Huntsman and J.M. Lee. 2007. Expression of protein elongation factor eEF1A2 predicts favorable outcome in breast cancer. Breast Cancer Research and Treatment. 102, 31-41. [>]

• McCann, J.A., E.M. Muro, C. Palmer, G. Palidwor, C.J. Porter, M.A. Andrade-Navarro and M.A. Rudnicki. 2007. ChIP on SNP-chip for genome-wide analysis of human histone H4 hyperacetylation. BMC Genomics. 8, 322. [>]
  

• Perez-Iratxeta, C., G. Palidwor and M.A. Andrade-Navarro. 2007. Towards completion of the Earth's proteome. EMBO Reports. 8, 1135–1141. [Supplementary data] [>]

• Perez-Iratxeta, C., P. Bork and M.A. Andrade-Navarro. 2007. Update of the G2D tool for prioritization of gene candidates to inherited diseases. Nucleic Acids Research. 35, W212-W216. [>]
  

• Porter C.J., G.A. Palidwor, R. Sandie, P.M. Krzyzanowski, E.M. Muro, C. Perez-Iratxeta, M.A. Andrade-Navarro. 2007. StemBase: a resource for the analysis of stem cell gene expression data. Methods Mol. Biol. 407, 137-148. [StemBase] [>]

• Sanchez-Pulido, L. and M.A. Andrade-Navarro. 2007. The FTO (fat mass and obesity associated) gene codes for a novel member of the non-heme dioxygenase superfamily. BMC Biochemistry. 8, 23. [>]
  

• Schwarz, M., M.A. Andrade-Navarro and A. Gross. 2007. Mitochondrial carriers and pores: Key regulators of the mitochondrial apoptotic program? Apoptosis. 12, 869-876. [>]

• Zunino, R., P. Rippstein, M. Andrade-Navarro and H.M. McBride. 2007. The SUMO protease SENP5 is required to maintain mitochondrial morphology and function. J. Cell. Sci. 120, 1178-1188. [>]

2006

• Baldwin, R.M., M. Garratt-Lalonde, D.A.E. Parolin, P.M. Krzyzanowski, M.A. Andrade, and I.A.J. Lorimer. 2006. Protection of glioblastoma cells from cisplatin cytotoxicity via protein kinase C-iota-mediated attenuation of P38 MAP Kinase signaling. Oncogene. 25, 2909-2919. [>]

• Bonnet, S., E.D. Michelakis, C.J. Porter, M.A. Andrade-Navarro, B. Thébaud, S. Bonnet, A. Haromy, G. Harry, R. Moudgil, M.S. McMurtry, E.K. Weir, and S.L. Archer. 2006. An abnormal mitochondrial-hypoxia inducible factor-1alpha-Kv channel pathway disrupts oxygen sensing and triggers pulmonary arterial hypertension in fawn hooded rats: similarities to human pulmonary arterial hypertension. Circulation. 113, 2630-2641. [>]

• Buschmann, H., J. Chan, L. Sanchez-Pulido, M.A. Andrade-Navarro, J.H. Doonan and C.W. Lloyd. 2006. Microtubule-associated AIR9 recognizes the cortical division site at preprophase and cell-plate insertion. Current Biology. 16, 1938-1943. [>]

• Muro, E.M., C. Perez-Iratxeta, and M.A. Andrade-Navarro. 2006. Amplification of the Gene Ontology annotation of Affymetrix probe sets. BMC Bioinformatics. 7, 159. [Probe2GO] [>]

• Palidwor, G., E.G. Reynaud, and M.A. Andrade-Navarro. 2006. Taxonomic colouring of phylogenetic trees of protein sequences. BMC Bioinformatics. 7, 79. [PhyloView] [>]

• Tiffin, N., E. Adie, F. Turner, H.G. Brunner, M.A. van Driel, M. Oti, N. Lopez-Bigas, C. Ouzonis, C. Perez-Iratxeta, M.A. Andrade-Navarro, A. Adeyemo, M.E. Patti, C. Semple and W. Hide. 2006. Computational disease gene identification: a concert of methods prioritizes type 2 diabetes and obesity candidate genes. Nucleic Acids Research. 113, 2630-2641. [>]

• Perez-Iratxeta, C., M.A. Andrade-Navarro and J.D. Wren. 2006. Evolving research trends in bioinformatics. Briefings in Bioinformatics. 8, 88-95. [>]

2005

 

• Korbel, J.O., T. Doerks, L.J. Jensen, C. Perez-Iratxeta, S. Kaczanowski, S.D. Hooper, M.A. Andrade and P. Bork. 2005. Systematic association of genes to phenotypes by genome and literature mining. PLoS Biology. 3, e134. [>]

• Perez-Iratxeta, C. and M.A. Andrade. 2005. Inconsistencies over time in 5% of NetAffx probe-to-gene annotations. BMC Bioinformatics. 6, 183. [>]

• Perez-Iratxeta, C., G. Palidwor, C.J. Porter, N.A. Sanche, M.R. Huska, B.P. Suomela, E.M. Muro, P. Krzyzanowski, E. Hughes, P.A. Campbell, M.A. Rudnicki and M.A. Andrade. 2005. Study of stem cell function using microarray experiments. FEBS Letters. 579, 1795-1801. [StemBase] [>]

• Perez-Iratxeta, C., M. Wjst, P. Bork and M.A. Andrade. 2005. G2D: a tool for mining genes associated with disease. BMC Genetics. 6, 45. [G2D server] [>]

• Reynaud, E.G., M.A. Andrade, F. Bonneau, T.B. Ly, M. Knop, K. Scheffzek and R. Pepperkok. 2005. Human Lsg1 defines a family of essential GTPases that correlates with the evolution of compartmentalization. BMC Biology. 21, 3. [>]

• Savchenko, A., N. Krogan, J.R. Cort, E. Evdokimova, J.M. Lew, A.A. Yee, L. Sánchez-Pulido, M.A. Andrade, A. Bochkarev, J.D. Watson, M.A. Kennedy, J. Greenblatt, T. Hughes, C.H. Arrowsmith, J.M. Rommens and A.M. Edwards. 2005. The Shwachman-Bodian-Diamond syndrome protein family is involved in RNA metabolism. Journal of Biological Chemistry. 280, 19213-19220. [>]

• Suomela, B.P. and M.A. Andrade. 2005. Ranking the whole MEDLINE database according to a large training set using text indexing. BMC Bioinformatics. 6, 75. [>]

2004

 

• Doerks, T., M.A. Andrade, W. Lathe 3rd, C. von Mering and P. Bork. 2004. Global analysis of bacterial transcription factors to predict cellular target processes. Trends in Genetics. 20, 126-131. [>]

• Pérez, A.J., C. Perez-Iratxeta, P. Bork, G. Thode and M.A. Andrade. 2004. Gene annotation from scientific literature using mappings between keyword systems. Bioinformatics. 20, 2084-2091. [>]

• Sánchez-Pulido, L., A.M. Rojas, A. Valencia, C. Martinez-A and M.A. Andrade. ACRATA: A novel electron transfer domain associated to apoptosis and cancer. BMC Cancer. 4, 98. [>]

2003

 

• Andrade, M.A. (Ed.). 2003. Bioinformatics and Genomes: Current Perspectives. Horizon Scientific Press, UK. quot;>[About the book - Horizon Press] [Buy it from Amazon UK]

• Iliopoulos, I., S. Tsoka, M.A. Andrade, A.J. Enright, M. Carroll, P. Poullet, V. Promponas, T. Liakopoulos, G. Palaios, C. Pasquier, S. Hamodrakas, J. Tamames, A.T. Yagnik, A. Tramontano, D. Devos, C. Blaschke, A. Valencia, D. Brett, D. Martin, C. Leroy, I. Rigoutsos, C. Sander and C.A. Ouzounis. 2003. Evaluation of annotation strategies using an entire genome sequence. Bioinformatics. 19, 717-726 [>]

• Netzel, R., C. Perez-Iratxeta, P. Bork and M.A. Andrade. 2003. The way we write. Country-specific variations of English in the scientific literature. EMBO Reports. 4, 446-451. [>]

• Perez-Iratxeta, C., N. Astola, F.D. Ciccarelli, P.K. Sha, P. Bork and M.A. Andrade. A protocol for the update of references to scientific literature in biological databases. Applied Bioinformatics. 2, 189-191. [>]

• Perez-Iratxeta, C., A.J. Pérez, P. Bork and M.A. Andrade. 2003. Update on XplorMed: a web server for exploring scientific literature. Nucleic Acids Research. 31, 3866-3868. [XplorMed server] [>]

• Shah, P.K., C. Perez-Iratxeta, P. Bork and M.A. Andrade. 2003. Information extraction from full text scientific articles: where are the keywords? BMC Bioinformatics. 4, 20. [e-version@BMC Bioinformatics] [>]

2002

 

• Andrade, M.A., F.D. Ciccarelli, C. Perez-Iratxeta and P. Bork. 2002. NEAT: A domain duplicated in genes near the components of a putative Fe3+ siderophore transporter from Gram-positive pathogenic bacteria. Genome Biology. 3, research0047.1-0047.5. [e-version@Genome Biology] [>]

• Muro, E.M., M.A. Andrade and F. Morán. 2002. A self-organizing model for the development of orientation selectivity and ocular dominance patterns in the visual nervous system. Neural Network World. 12, 319-332. [>]

• Perez-Iratxeta, C. and M.A. Andrade. 2002. Worldwide scientific publishing activity. Science. 297, 519. [>]

• Perez-Iratxeta, C., P. Bork and M.A. Andrade. 2002. Association of genes to genetically inherited diseases using data mining. Nature Genetics. 31, 316-319. [G2D server] [>]

• Perez-Iratxeta, C., P. Bork and M.A. Andrade. 2002. Exploring MEDLINE abstracts with XplorMed. Drugs of Today. 38, 381-389. [XplorMed server] ">[>]

• Perez-Iratxeta, C., H.S. Keer, P. Bork and M.A. Andrade. 2002. Computing fuzzy associations for the analysis of biological literature. Biotechniques. 32, 1380-1385. [XplorMed server] [>]

2001

 

• Andrade, M.A. 2001. Tools for automated protein annotation. In Protein Sequence Analysis in the Post-Genomic Era. R. Casadio and L. Masotti (Eds.) Clueb, Bologna, Italy. [web appendix] [HTML version] [>]

• Andrade, M.A., M. González-Guzmán, R. Serrano and P.L. Rodríguez. 2001. A combination of the F-box motif and kelch repeats defines a large Arabidopsis family of F-box proteins. Plant Mol. Biol. 46, 603-614. [>]

• Andrade, M.A., E.M. Muro and F. Morán. 2001. Simulation of plasticity in the adult visual cortex. Biological Cybernetics. 84, 445-451. [>]

• Andrade, M.A., C. Perez-Iratxeta, and C.P. Ponting. 2001. Protein repeats: structures, functions and evolution. Journal of Structural Biology. 134, 117-131. [>]

• Andrade, M.A., C. Petosa, S.I. O'Donoghue, C.W. Müller and P. Bork. 2001. Comparison of ARM and HEAT protein repeats. J. Mol. Biol. 309, 1-18. [REP server]. [>]

• Iliopoulos, I., S. Tsoka, M.A. Andrade, P. Janssen, B. Audit, A. Tramontano, A. Valencia, C. Leroy, C. Sander and C.A. Ouzounis. 2001. Genome sequences and great expectations. Genome Biology. 2, INTERACTIONS0001. [>]

• Perez-Iratxeta, C., P. Bork and M.A. Andrade. 2001. XplorMed: A tool for exploring MEDLINE abstracts. Trends Biochem Sci. 26, 573-575. [XplorMed server] [>]

2000

 

• Andrade, M.A. and P. Bork. 2000. Automated extraction of information in molecular biology. FEBS Letters. 476, 12-17. [web appendix] [>]

• Andrade, M.A., C.P. Ponting, T.J. Gibson and P. Bork. 2000. Homology-based method for identification of protein repeats using statistical significance estimates. J. Mol. Biol. 298, 521-537. [web appendix] [REP server] [>]

• Dandekar, T., M. Huynen, J.T. Regula, C.U. Zimmermann, B. Ueberle, M.A. Andrade, T. Doerks, L. Sánchez-Pulido, B. Snel, M. Suyama, Y.P. Yuan, R. Herrmann and P. Bork. 2000. Re-annotating the Mycoplasma pneumoniae genome sequence: adding value, function and reading frames. Nucleic Acids Research. 28, 3278-3288 [web appendix] [>]

• Hoersch, S., C. Leroy, N.P. Brown, M.A. Andrade and C. Sander. 2000. The GeneQuiz Web server: protein functional analysis through the Web. Trends in Biochemical Sciences. 25, 33-35. [>]

• Ponting, C.P., J. Schultz, R.R. Copley, M.A. Andrade and P. Bork. 2000. Evolution of domain families. In "Analysis of amino acid sequences". Advances in Protein Chemistry. 54, 185-244. [>]

• Sánchez-Pulido, L., Y.P. Yuan, M.A. Andrade and P. Bork. 2000. NAIL-Network analysis interface for linking HMMER results. Bioinformatics. 16, 656-657. [NAIL server] [>]

1999

 

• Andrade, M.A. 1999. Position-specific annotation of protein function based on multiple homologs. ISMB 99. 7, 28-33. [PostScript version] [>]

• Andrade, M.A., N.P. Brown, C. Leroy, S. Hoersch, A. de Daruvar, C .Reich, A. Franchini, J. Tamames, A. Valencia, C. Ouzounis and C. Sander. 1999. Automated genome sequence analysis and annotation. Bioinformatics. 15, 391-412 [>]

• Andrade, M.A., C. Ouzounis, C. Sander, J. Tamames and A. Valencia. 1999. Functional classes in the three domains of life. J. Mol. Evol. 49, 551-557 [web appendix] [>]

• Blaschke, C., M.A. Andrade, C. Ouzounis and A. Valencia. 1999. Automatic extraction of biological information from Scientific text: protein-protein interactions. ISMB 99. 7, 60-67. [web appendix (C. Blaschke)] [>]

1998

 

• Andrade, M.A., S.I. O'Donoghue and B. Rost. 1998. Adaptation of protein surfaces to subcellular location. J. Mol. Biol. 276, 517-525 [html version + web appendix (B. Rost)] [>]

• Andrade, M.A., C. Sander and A. Valencia. 1998. Updated catalogue of homologues to human-disease related proteins in the yeast genome. FEBS Letters. 426, 7-16 [web appendix] [>]

• Andrade, M.A. and A. Valencia. 1998. Automatic extraction of keywords from scientific text: Application to the knowledge domain of protein families. Bioinformatics. 14, 600-607 [html version @Bioinformatics] [web appendix] and [>]

• Trelles, O., M.A. Andrade, A. Valencia, E.L. Zapata and J.M. Carazo. 1998. Computational space reduction and parallelization of a new clustering approach for large groups of sequences. Bioinformatics. 14, 439-451 [>]

1997

 

• Andrade, M.A., G. Casari, A. Daruvar, C. Sander, R. Schneider, J. Tamames, A. Valencia and C. Ouzounis. 1997. Sequence analysis of the Methanococcus jannaschii genome and the prediction of protein function. CABIOS. 13, 481-483 [>]

• Andrade, M.A., G. Casari, C. Sander and A. Valencia. 1997. Classification of protein families and detection of the determinant residues with an improved self-organising map. Biol. Cybern. 76, 441-450 [>]

• Andrade, M.A., A. Daruvar, G. Casari, R. Schneider, M. Termier and C. Sander. 1997. Characterization of new proteins found by analysis of short open reading frames from the full yeast genome. Yeast, 13, 1363-1374 [html version]. [>]

• Andrade, M.A. and F. Morán. 1997. Receptive field map development by anti-Hebbian learning. Neural Networks. 10, 1037-1052 [>]

• Andrade, M.A. and C. Sander. 1997. Bioinformatics: from genome data to biological knowledge. Current Opinion in Biotechnology. 8, 675-683 [>]

• Andrade, M.A. and A. Valencia. 1997. Automatic annotation for biological sequences by extraction of keywords from MEDLINE abstracts. Development of a prototype system. ISMB 97. 5, 25-32 [PostScript version] [>]

• Voss, H., V. Benes, M.A. Andrade, A. Valencia, S. Rechmann, C. Teodoru, C. Schwager, V. Paces, C. Sander and W. Ansorge. 1997. DNA sequencing and analysis of 130 kb from yeast chromosome XV. Yeast. 13, 655-672 [>]

1996

 

• Andrade, M.A. and F. Morán. 1996. Structural study of the development of ocularity domains using a neural network model. Biol. Cybern., 74, 243-254 [>]

1995

 

• Andrade, M.A. and P. Bork. 1995. HEAT repeats in the Huntington's disease protein. Nature Genetics, 11, 115-116 [web appendix] [>]

• Casari, G., M.A. Andrade, P. Bork, J. Boyle, A. Daruvar, C. Ouzounis, R. Schneider, R. Tamames, A. Valencia and C. Sander, 1995. Challenging times for bioinformatics. Nature, 376, 647-648 [>]

1994

 

• Andrade, M.A. Doctoral thesis. March, 1994. Modelizacíon del desarrollo ontogenético del sistema nervioso visual mediante redes neuronales. Universidad Complutense de Madrid. [PDF at UCM] [>]

• Merelo, J.J., M.A. Andrade, A. Prieto and F. Morán. 1994. Proteinotopic Feature Maps. Neurocomputing. 6, 443-454 [>]

1993

• Andrade, M.A., P. Chacón, J.J. Merelo and F. Morán. 1993. Evaluation of secondary structure of proteins from UV circular dichroism using an unsupervised learning neural network. Prot. Eng. 6, 383-390 [>]

• Andrade, M.A., J.C. Nuño, F. Morán, F. Montero and G.J. Mpitsos. 1993. Complex dynamics of a catalytic network having faulty replication into error-species. Physica D. 63, 21-40 [>]

• Montero, F., J.C. Nuño and M.A. Andrade. 1993. Evolución Prebiótica: el camino hacia la vida. Colección Eudema Biología. Eudema. [>]

• Nuño, J.C., M.A. Andrade, F. Morán and F. Montero. 1993. A model of an autocatalytic network formed by error-prone self-replicative species. Bull. Math. Biol. 55, 385-415 [>]

• Nuño, J.C., M.A. Andrade and F. Montero. 1993. Non-uniformities and superimposed competition in a model of autocatalytic network formed by error-prone self-replicative species. Bull. Math. Biol. 55, 417-449 [>]

1992

• Montero, F., J.C. Nuño and M.A. Andrade. 1992. Evolución y selección en sistemas biológicos reales. Revista de la Real Academia de Ciencias Exactas, Físicas y Naturales, de Madrid. 86, 315-368 [>]

1991

• Andrade, M.A., A.J. García-Tejedor and F. Montero. 1991. Study of an error-prone hypercycle formed from two kinetically distinguishable species. Biophys. Chem. 40, 43-57 [>]