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PHYLOViZ Online: web-based tool for visualization, phylogenetic inference, analysis and sharing of minimum spanning trees.

Ribeiro-Gonçalves B, Francisco AP, Vaz C, Ramirez M, Carriço JA.

Nucleic Acids Res. 2016 Apr 29. pii: gkw359. [Epub ahead of print]


Targeting KRAS Oncogene in Colon Cancer Cells with 7-Carboxylate Indolo[3,2-b]quinoline Tri-Alkylamine Derivatives.

Brito H, Martins AC, Lavrado J, Mendes E, Francisco AP, Santos SA, Ohnmacht SA, Kim NS, Rodrigues CM, Moreira R, Neidle S, Borralho PM, Paulo A.

PLoS One. 2015 May 29;10(5):e0126891. doi: 10.1371/journal.pone.0126891. eCollection 2015.


Not seeing the forest for the trees: size of the minimum spanning trees (MSTs) forest and branch significance in MST-based phylogenetic analysis.

Teixeira AS, Monteiro PT, Carriço JA, Ramirez M, Francisco AP.

PLoS One. 2015 Mar 23;10(3):e0119315. doi: 10.1371/journal.pone.0119315. eCollection 2015.


TypOn: the microbial typing ontology.

Vaz C, Francisco AP, Silva M, Jolley KA, Bray JE, Pouseele H, Rothganger J, Ramirez M, Carriço JA.

J Biomed Semantics. 2014 Oct 18;5(1):43. doi: 10.1186/2041-1480-5-43. eCollection 2014.


Design and discovery of mushroom tyrosinase inhibitors and their therapeutic applications.

Mendes E, Perry Mde J, Francisco AP.

Expert Opin Drug Discov. 2014 May;9(5):533-54. doi: 10.1517/17460441.2014.907789. Epub 2014 Apr 7. Review.


The YEASTRACT database: an upgraded information system for the analysis of gene and genomic transcription regulation in Saccharomyces cerevisiae.

Teixeira MC, Monteiro PT, Guerreiro JF, Gonçalves JP, Mira NP, dos Santos SC, Cabrito TR, Palma M, Costa C, Francisco AP, Madeira SC, Oliveira AL, Freitas AT, Sá-Correia I.

Nucleic Acids Res. 2014 Jan;42(Database issue):D161-6. doi: 10.1093/nar/gkt1015. Epub 2013 Oct 28.


Synthesis and evaluation of N-acylamino acids derivatives of triazenes. Activation by tyrosinase in human melanoma cell lines.

Monteiro AS, Almeida J, Cabral G, Severino P, Videira PA, Sousa A, Nunes R, Pereira JD, Francisco AP, Perry MJ, Mendes E.

Eur J Med Chem. 2013;70:1-9. doi: 10.1016/j.ejmech.2013.09.040. Epub 2013 Oct 2.


Assessing the molecular basis of transferable quinolone resistance in Escherichia coli and Salmonella spp. from food-producing animals and food products.

Jones-Dias D, Manageiro V, Francisco AP, Martins AP, Domingues G, Louro D, Ferreira E, Caniça M.

Vet Microbiol. 2013 Dec 27;167(3-4):523-31. doi: 10.1016/j.vetmic.2013.08.010. Epub 2013 Aug 22.


Targets, structures, and recent approaches in malignant melanoma chemotherapy.

Matos AM, Francisco AP.

ChemMedChem. 2013 Nov;8(11):1751-65. doi: 10.1002/cmdc.201300248. Epub 2013 Aug 16. Review.


The multifactorial nature of Alzheimer's disease for developing potential therapeutics.

Carreiras MC, Mendes E, Perry MJ, Francisco AP, Marco-Contelles J.

Curr Top Med Chem. 2013;13(15):1745-70. Review.


In vitro antimicrobial activity of royleanone derivatives against Gram-positive bacterial pathogens.

Rijo P, Duarte A, Francisco AP, Semedo-Lemsaddek T, Simões MF.

Phytother Res. 2014 Jan;28(1):76-81. doi: 10.1002/ptr.4961. Epub 2013 Mar 11.


Interactogeneous: disease gene prioritization using heterogeneous networks and full topology scores.

Gonçalves JP, Francisco AP, Moreau Y, Madeira SC.

PLoS One. 2012;7(11):e49634. doi: 10.1371/journal.pone.0049634. Epub 2012 Nov 19.


Development of triazene prodrugs for ADEPT strategy: new insights into drug delivery system based on carboxypeptidase G2 activation.

Capucha V, Mendes E, Francisco AP, Perry MJ.

Bioorg Med Chem Lett. 2012 Nov 15;22(22):6903-8. doi: 10.1016/j.bmcl.2012.09.029. Epub 2012 Sep 18.


PHYLOViZ: phylogenetic inference and data visualization for sequence based typing methods.

Francisco AP, Vaz C, Monteiro PT, Melo-Cristino J, Ramirez M, Carriço JA.

BMC Bioinformatics. 2012 May 8;13:87. doi: 10.1186/1471-2105-13-87.


Regulatory Snapshots: integrative mining of regulatory modules from expression time series and regulatory networks.

Gonçalves JP, Aires RS, Francisco AP, Madeira SC.

PLoS One. 2012;7(5):e35977. doi: 10.1371/journal.pone.0035977. Epub 2012 May 1.


Pattern matching through Chaos Game Representation: bridging numerical and discrete data structures for biological sequence analysis.

Vinga S, Carvalho AM, Francisco AP, Russo LM, Almeida JS.

Algorithms Mol Biol. 2012 May 2;7(1):10. doi: 10.1186/1748-7188-7-10.


TFRank: network-based prioritization of regulatory associations underlying transcriptional responses.

Gonçalves JP, Francisco AP, Mira NP, Teixeira MC, Sá-Correia I, Oliveira AL, Madeira SC.

Bioinformatics. 2011 Nov 15;27(22):3149-57. doi: 10.1093/bioinformatics/btr546. Epub 2011 Sep 29.


YEASTRACT: providing a programmatic access to curated transcriptional regulatory associations in Saccharomyces cerevisiae through a web services interface.

Abdulrehman D, Monteiro PT, Teixeira MC, Mira NP, Lourenço AB, dos Santos SC, Cabrito TR, Francisco AP, Madeira SC, Aires RS, Oliveira AL, Sá-Correia I, Freitas AT.

Nucleic Acids Res. 2011 Jan;39(Database issue):D136-40. doi: 10.1093/nar/gkq964. Epub 2010 Oct 23.


Antimycobacterial metabolites from Plectranthus: royleanone derivatives against Mycobacterium tuberculosis strains.

Rijo P, Simões MF, Francisco AP, Rojas R, Gilman RH, Vaisberg AJ, Rodríguez B, Moiteiro C.

Chem Biodivers. 2010 Apr;7(4):922-32. doi: 10.1002/cbdv.200900099.


Global optimal eBURST analysis of multilocus typing data using a graphic matroid approach.

Francisco AP, Bugalho M, Ramirez M, Carriço JA.

BMC Bioinformatics. 2009 May 18;10:152. doi: 10.1186/1471-2105-10-152.

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