Sara Pinto Garcia

Group
Status	Former member
Country	Portugal
Students
Former PhD students
Former masters students
Projects
Past projects	COMODIE, DNA-Profiles
Events	RECOMB 2010
Proposals
Personal page	http://www.ieeta.pt/~spgarcia/

Publications

Articles in international journals listed in the ISI

• Armando J. Pinho, Sara Pinto Garcia, Diogo Pratas, Paulo J S G Ferreira. DNA sequences at a glance. PLoS ONE, vol. 8, no. 11, p. e79922, November 2013 [IF 2013: 3.534 (Q1, 8/55)] [IF 2016: 2.806 (Q1, 15/64)]
• Vera Afreixo, Carlos A C Bastos, Sara Pinto Garcia, João M. O. S. Rodrigues, Armando J. Pinho, Paulo J S G Ferreira. The breakdown of word symmetry in the human genome. Journal of Theoretical Biology, vol. 335, p. 153-159, October 2013 [IF 2013: 2.303 (Q1, 10/52)]
• Sara Pinto Garcia, João M. O. S. Rodrigues, Sérgio Santos, Diogo Pratas, Vera Afreixo, Carlos A C Bastos, Paulo J S G Ferreira, Armando J. Pinho. A genomic distance for assembly comparison based on compressed maximal exact matches. IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 10, no. 3, p. 793-798, May 2013 [IF 2013: 1.536 (Q1, 24/119)]
• Armando J. Pinho, Diogo Pratas, Sara Pinto Garcia. GReEn: a tool for efficient compression of genome resequencing data. Nucleic Acids Research, vol. 40, no. 4, p. e27, February 2012 [IF 2012: 8.278 (Q1, 27/290)]
• Sara Pinto Garcia, Armando J. Pinho. Minimal absent words in four human genome assemblies. PLoS ONE, vol. 6, no. 12, p. e29344, December 2011 [IF 2011: 4.092 (Q1, 12/85)] [IF 2016: 2.806 (Q1, 15/64)]
• Vera Afreixo, Carlos A C Bastos, Armando J. Pinho, Sara Pinto Garcia, Paulo J S G Ferreira. Genome analysis with distance to the nearest dissimilar nucleotide. Journal of Theoretical Biology, vol. 275, no. 1, p. 52-58, April 2011 [IF 2011: 2.208 (Q1, 11/47)]
• Sara Pinto Garcia, Armando J. Pinho, João M. O. S. Rodrigues, Carlos A C Bastos, Paulo J S G Ferreira. Minimal absent words in prokaryotic and eukaryotic genomes. PLoS ONE, vol. 6, no. 1, p. e16065, January 2011 [IF 2011: 4.092 (Q1, 12/85)] [IF 2016: 2.806 (Q1, 15/64)]
• Vera Afreixo, Carlos A C Bastos, Armando J. Pinho, Sara Pinto Garcia, Paulo J S G Ferreira. Genome analysis with inter-nucleotide distances. Bioinformatics, vol. 25, no. 23, p. 3064-3070, December 2009 [IF 2009: 4.926 (Q1, 2/29)]
• Armando J. Pinho, Paulo J S G Ferreira, Sara Pinto Garcia, João M. O. S. Rodrigues. On finding minimal absent words. BMC Bioinformatics, vol. 10, no. 1, p. 137, May 2009 [IF 2009: 3.428 (Q1, 4/29)] [IF 2016: 2.448 (Q1, 10/57)]

Other articles in journals

• Carlos A C Bastos, Vera Afreixo, Sara Pinto Garcia, Armando J. Pinho. Inter-STOP symbol distances for the identification of coding regions. Journal of Integrative Bioinformatics, vol. 10, no. 3, p. 230, November 2013
• Vera Afreixo, Sara Pinto Garcia, João M. O. S. Rodrigues. The breakdown of symmetry in word pairs in 1,092 human genomes. Jurnal Teknologi, vol. 63, no. 3, p. 1-8, August 2013
• Carlos A C Bastos, Vera Afreixo, Armando J. Pinho, Sara Pinto Garcia, João M. O. S. Rodrigues, Paulo J S G Ferreira. Inter-dinucleotide distances in the human genome: an analysis of the whole-genome and protein-coding distributions. Journal of Integrative Bioinformatics, vol. 8, no. 3, September 2011

Chapters in books

• Armando J. Pinho, Diogo Pratas, Sara Pinto Garcia. Compressing resequencing data with GReEn. Deep Sequencing Data Analysis, Noam Shomron (Ed.), Humana Press, vol. 1038 (Methods in Molecular Biology), p. 27-37, July 2013

Articles in conference proceedings

• Vera Afreixo, João M. O. S. Rodrigues, Sara Pinto Garcia. Analysis of word symmetries in human genomes using next-generation sequencing data. 7th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB), Salamanca, Spain, vol. Advances in Intelligent Systems and Computing, 222, p. 7-13, May 2013
• Carlos A C Bastos, Vera Afreixo, Sara Pinto Garcia, Armando J. Pinho. Segmentation of DNA into coding and Noncoding region based on inter-STOP symbols distances. Advances in Intelligent Systems and Computing, Proc. of the 7th Int. Conf. on Practical Applications of Computational Biology & Bioinformatics, PACBB 2013, Salamanca, Spain, vol. 222, p. 23-28, May 2013
• Sérgio Santos, João M. O. S. Rodrigues, Vera Afreixo, Sara Pinto Garcia. Word count variation in 1,092 human genomes. (Poster). Proceedings of the 18th Portuguese Conference on Pattern Recognition (RECPAD), Coimbra, Portugal, October 2012
• Sara Pinto Garcia, João M. O. S. Rodrigues, Diogo Pratas, Armando J. Pinho. Comparing maximal exact repeats in human genome assemblies using a normalized compression distance. 20th Annual International Conference on Intelligent Systems for Molecular Biology, Long Beach, California, USA, July 2012
• Diogo Pratas, Armando J. Pinho, Sara Pinto Garcia. Exon: A Web-Based Software Toolkit for DNA Sequence Analysis. Advances in Intelligent and Soft Computing, Proc. of the 6th Int. Conf. on Practical Applications of Computational Biology & Bioinformatics, PACBB 2012, Salamanca, Spain, vol. 154, p. 217-224, March 2012
• Diogo Pratas, Armando J. Pinho, Sara Pinto Garcia. Computation of the normalized compression distance of DNA sequences using a mixture of finite-context models. Bioinformatics 2012: International Conference on Bioinformatics Models, Methods and Algorithms, Vilamoura, Portugal, February 2012
• Armando J. Pinho, Diogo Pratas, Sara Pinto Garcia. Complexity Profiles of DNA Sequences Using Finite-Context Models. Information Quality in e-Health: 7th Conference of the Workgroup Human-Computer Interaction and Usability Engineering of the Austrian Computer Society, USAB 2011, Graz, Austria, vol. LNCS 7058, p. 75-82, November 2011
• Diogo Pratas, Sara Pinto Garcia, Armando J. Pinho. Analysis of patterns in S. pombe genome through compression-based complexity profiles. Proc. of the 17th Portuguese Conf. on Pattern Recognition, RecPad 2011, Porto, Portugal, October 2011
• Armando J. Pinho, Diogo Pratas, Paulo J S G Ferreira, Sara Pinto Garcia. Symbolic to numerical conversion of DNA sequences using finite-context models. Proc. of the European Signal Processing Conference, EUSIPCO 2011, Barcelona, Spain, p. 2024-2028, August 2011
• Carlos A C Bastos, Vera Afreixo, Armando J. Pinho, Sara Pinto Garcia, João M. O. S. Rodrigues, Paulo J S G Ferreira. Distances between dinucleotides in the human genome. Advances in Intelligent and Soft Computing, Proc. of the 5th Int. Conf. on Practical Applications of Computational Biology & Bioinformatics, PACBB 2011, Salamanca, Spain, vol. 93, p. 205-211, April 2011
• Armando J. Pinho, Sara Pinto Garcia, Paulo J S G Ferreira, Vera Afreixo, Carlos A C Bastos, António J. R. Neves, João M. O. S. Rodrigues. Exploring homology using the concept of three-state entropy vector. Pattern Recognition in Bioinformatics, 5th IAPR International Conference, PRIB 2010, Nijmegen, The Netherlands, vol. LNBI 6282, p. 161-170, September 2010
• Vera Afreixo, Carlos A C Bastos, Armando J. Pinho, Sara Pinto Garcia, Paulo J S G Ferreira. DNA inter-nucleotide distances. Challenges in Bioinformatics, JB-2009, Lisbon, Portugal, p. 1, November 2009
• Armando J. Pinho, Paulo J S G Ferreira, Sara Pinto Garcia, João M. O. S. Rodrigues. The definition of minimal absent words and the algorithmic problem of finding them. Challenges in Bioinformatics, JB-2009, Lisbon, Portugal, p. 137-140, November 2009