| Year |
Citation |
Score |
| 2020 |
Vinga S. Structured sparsity regularization for analyzing high-dimensional omics data. Briefings in Bioinformatics. PMID 32597465 DOI: 10.1093/Bib/Bbaa122 |
0.391 |
|
| 2020 |
Andrade R, Doostmohammadi M, Santos JL, Sagot MF, Mira NP, Vinga S. MOMO - multi-objective metabolic mixed integer optimization: application to yeast strain engineering. Bmc Bioinformatics. 21: 69. PMID 32093622 DOI: 10.1186/S12859-020-3377-1 |
0.301 |
|
| 2020 |
Lopes MB, Vinga S. Tracking intratumoral heterogeneity in glioblastoma via regularized classification of single-cell RNA-Seq data. Bmc Bioinformatics. 21: 59. PMID 32070274 DOI: 10.1186/S12859-020-3390-4 |
0.31 |
|
| 2019 |
Zielezinski A, Girgis HZ, Bernard G, Leimeister CA, Tang K, Dencker T, Lau AK, Röhling S, Choi JJ, Waterman MS, Comin M, Kim SH, Vinga S, Almeida JS, Chan CX, et al. Benchmarking of alignment-free sequence comparison methods. Genome Biology. 20: 144. PMID 31345254 DOI: 10.1186/S13059-019-1755-7 |
0.333 |
|
| 2019 |
Loureiro H, Carrasquinha E, Alho I, Ferreira AR, Costa L, Carvalho AM, Vinga S. Modelling cancer outcomes of bone metastatic patients: combining survival data with N-Telopeptide of type I collagen (NTX) dynamics through joint models. Bmc Medical Informatics and Decision Making. 19: 13. PMID 30654776 DOI: 10.1186/S12911-018-0728-1 |
0.337 |
|
| 2019 |
Vinga S. Bridging computer science and bioengineering for the multiscale modeling of biological systems Annals of Medicine. 51: 28-28. DOI: 10.1080/07853890.2018.1560067 |
0.301 |
|
| 2018 |
Costa RS, Vinga S. Assessing Escherichia coli metabolism models and simulation approaches in phenotype predictions: Validation against experimental data. Biotechnology Progress. 34: 1344-1354. PMID 30294889 DOI: 10.1002/Btpr.2700 |
0.345 |
|
| 2018 |
Lopes MB, Veríssimo A, Carrasquinha E, Casimiro S, Beerenwinkel N, Vinga S. Ensemble outlier detection and gene selection in triple-negative breast cancer data. Bmc Bioinformatics. 19: 168. PMID 29728051 DOI: 10.1186/S12859-018-2149-7 |
0.344 |
|
| 2018 |
Carrasquinha E, Veríssimo A, Lopes MB, Vinga S. Identification of influential observations in high-dimensional cancer survival data through the rank product test. Biodata Mining. 11: 1-14. PMID 29456628 DOI: 10.1186/S13040-018-0162-Z |
0.371 |
|
| 2018 |
Neto JP, Coelho RM, Valério D, Vinga S, Sierociuk D, Malesza W, Macias M, Dzieliński A. Simplifying biochemical tumorous bone remodeling models through variable order derivatives Computers & Mathematics With Applications. 75: 3147-3157. DOI: 10.1016/J.Camwa.2018.01.037 |
0.314 |
|
| 2017 |
Hartmann A, Vila-Santa A, Kallscheuer N, Vogt M, Julien-Laferrière A, Sagot M, Marienhagen J, Vinga S. OptPipe - a pipeline for optimizing metabolic engineering targets Bmc Systems Biology. 11: 143-143. PMID 29268790 DOI: 10.1186/S12918-017-0515-0 |
0.341 |
|
| 2017 |
Zielezinski A, Vinga S, Almeida J, Karlowski WM. Alignment-free Sequence Comparison: Benefits, Applications, and Tools Genome Biology. 18: 186-186. PMID 28974235 DOI: 10.1186/S13059-017-1319-7 |
0.357 |
|
| 2017 |
Neto JP, Coelho RM, Valério D, Vinga S, Sierociuk D, Malesza W, Macias M, Dzieliński A. Variable Order Differential Models of Bone Remodelling Ifac-Papersonline. 50: 8066-8071. DOI: 10.1016/J.Ifacol.2017.08.1233 |
0.32 |
|
| 2016 |
Veríssimo A, Oliveira AL, Sagot M, Vinga S. DegreeCox – a network-based regularization method for survival analysis Bmc Bioinformatics. 17: 449. PMID 28105908 DOI: 10.1186/S12859-016-1310-4 |
0.342 |
|
| 2016 |
Hartmann A, Neves AR, Lemos JM, Vinga S. Identification and automatic segmentation of multiphasic cell growth using a linear hybrid model Bellman Prize in Mathematical Biosciences. 279: 83-89. PMID 27424949 DOI: 10.1016/J.Mbs.2016.06.013 |
0.309 |
|
| 2016 |
Julien-Laferrière A, Bulteau L, Parrot D, Marchetti-Spaccamela A, Stougie L, Vinga S, Mary A, Sagot MF. A Combinatorial Algorithm for Microbial Consortia Synthetic Design. Scientific Reports. 6: 29182. PMID 27373593 DOI: 10.1038/Srep29182 |
0.305 |
|
| 2016 |
Fernandes A, Vinga S. Improving Protein Expression Prediction Using Extra Features and Ensemble Averaging. Plos One. 11. PMID 26934190 DOI: 10.1371/Journal.Pone.0150369 |
0.307 |
|
| 2016 |
Costa RS, Vinga S. Control analysis of the impact of allosteric regulation mechanism in a Escherichia coli kinetic model: Application to serine production Biochemical Engineering Journal. 110: 59-70. DOI: 10.1016/J.Bej.2016.01.013 |
0.337 |
|
| 2015 |
Costa RS, Hartmann A, Vinga S. Kinetic modeling of cell metabolism for microbial production. Journal of Biotechnology. PMID 26724578 DOI: 10.1016/J.Jbiotec.2015.12.023 |
0.342 |
|
| 2015 |
Hartmann A, Lemos JM, Vinga S. Modeling multiple experiments using regularized optimization: A case study on bacterial glucose utilization dynamics. Computers in Biology and Medicine. 63: 301-9. PMID 25248561 DOI: 10.1016/J.Compbiomed.2014.08.027 |
0.354 |
|
| 2015 |
Hartmann A, Lemos JM, Costa RS, Xavier J, Vinga S. Identification of switched ARX models via convex optimization and expectation maximization Journal of Process Control. 28: 9-16. DOI: 10.1016/J.Jprocont.2015.02.003 |
0.322 |
|
| 2014 |
Costa RS, Veríssimo A, Vinga S. KiMoSys: a web-based repository of experimental data for KInetic MOdels of biological SYStems. Bmc Systems Biology. 8: 85. PMID 25115331 DOI: 10.1186/S12918-014-0085-3 |
0.353 |
|
| 2014 |
Caldas J, Vinga S. Global meta-analysis of transcriptomics studies. Plos One. 9: e89318. PMID 24586684 DOI: 10.1371/Journal.Pone.0089318 |
0.363 |
|
| 2014 |
Costa RS, Hartmann A, Gaspar P, Neves AR, Vinga S. An extended dynamic model of Lactococcus lactis metabolism for mannitol and 2,3-butanediol production. Molecular Biosystems. 10: 628-39. PMID 24413179 DOI: 10.1039/C3Mb70265K |
0.327 |
|
| 2014 |
Vinga S. Information theory applications for biological sequence analysis. Briefings in Bioinformatics. 15: 376-89. PMID 24058049 DOI: 10.1093/Bib/Bbt068 |
0.366 |
|
| 2013 |
Veríssimo A, Paixão L, Neves AR, Vinga S. BGFit: management and automated fitting of biological growth curves. Bmc Bioinformatics. 14: 283. PMID 24067087 DOI: 10.1186/1471-2105-14-283 |
0.35 |
|
| 2012 |
Almeida JS, Grüneberg A, Maass W, Vinga S. Fractal MapReduce decomposition of sequence alignment. Algorithms For Molecular Biology : Amb. 7: 12. PMID 22551205 DOI: 10.1186/1748-7188-7-12 |
0.357 |
|
| 2012 |
Vinga S, Carvalho AM, Francisco AP, Russo LM, Almeida JS. Pattern matching through Chaos Game Representation: bridging numerical and discrete data structures for biological sequence analysis. Algorithms For Molecular Biology : Amb. 7: 10. PMID 22551152 DOI: 10.1186/1748-7188-7-10 |
0.366 |
|
| 2011 |
Calçada D, Vinga S, Freitas AT, Oliveira AL. Quantitative modeling of the Saccharomyces cerevisiae FLR1 regulatory network using an S-system formalism. Journal of Bioinformatics and Computational Biology. 9: 613-30. PMID 21976379 DOI: 10.1142/S0219720011005690 |
0.32 |
|
| 2011 |
Tenazinha N, Vinga S. A survey on methods for modeling and analyzing integrated biological networks. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 8: 943-58. PMID 21116043 DOI: 10.1109/Tcbb.2010.117 |
0.36 |
|
| 2010 |
Vinga S, Neves AR, Santos H, Brandt BW, Kooijman SA. Subcellular metabolic organization in the context of dynamic energy budget and biochemical systems theories. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 365: 3429-42. PMID 20921043 DOI: 10.1098/Rstb.2010.0156 |
0.344 |
|
| 2009 |
Fernandes F, Freitas AT, Almeida JS, Vinga S. Entropic Profiler - detection of conservation in genomes using information theory. Bmc Research Notes. 2: 72. PMID 19416538 DOI: 10.1186/1756-0500-2-72 |
0.314 |
|
| 2009 |
Vilela M, Vinga S, Maia MA, Voit EO, Almeida JS. Identification of neutral biochemical network models from time series data. Bmc Systems Biology. 3: 47. PMID 19416537 DOI: 10.1186/1752-0509-3-47 |
0.338 |
|
| 2009 |
Almeida JS, Vinga S. Biological sequences as pictures: a generic two dimensional solution for iterated maps. Bmc Bioinformatics. 10: 100. PMID 19335894 DOI: 10.1186/1471-2105-10-100 |
0.33 |
|
| 2008 |
Vilela M, Chou IC, Vinga S, Vasconcelos AT, Voit EO, Almeida JS. Parameter optimization in S-system models. Bmc Systems Biology. 2: 35. PMID 18416837 DOI: 10.1186/1752-0509-2-35 |
0.366 |
|
| 2008 |
Casimiro AC, Vinga S, Freitas AT, Oliveira AL. An analysis of the positional distribution of DNA motifs in promoter regions and its biological relevance. Bmc Bioinformatics. 9: 89. PMID 18257925 DOI: 10.1186/1471-2105-9-89 |
0.329 |
|
| 2008 |
Oliveira DC, Santos M, Milheiriço C, Carriço JA, Vinga S, Oliveira AL, de Lencastre H. CcrB typing tool: an online resource for staphylococci ccrB sequence typing. The Journal of Antimicrobial Chemotherapy. 61: 959-60. PMID 18227085 DOI: 10.1093/Jac/Dkn021 |
0.333 |
|
| 2007 |
Vinga S, Almeida JS. Local Renyi entropic profiles of DNA sequences. Bmc Bioinformatics. 8: 393. PMID 17939871 DOI: 10.1186/1471-2105-8-393 |
0.358 |
|
| 2007 |
Vilela M, Borges CC, Vinga S, Vasconcelos AT, Santos H, Voit EO, Almeida JS. Automated smoother for the numerical decoupling of dynamics models. Bmc Bioinformatics. 8: 305. PMID 17711581 DOI: 10.1186/1471-2105-8-305 |
0.34 |
|
| 2006 |
Almeida JS, Vinga S. Computing distribution of scale independent motifs in biological sequences. Algorithms For Molecular Biology : Amb. 1: 18. PMID 17049089 DOI: 10.1186/1748-7188-1-18 |
0.339 |
|
| 2005 |
Gomes AR, Vinga S, Zavolan M, de Lencastre H. Analysis of the genetic variability of virulence-related loci in epidemic clones of methicillin-resistant Staphylococcus aureus. Antimicrobial Agents and Chemotherapy. 49: 366-79. PMID 15616317 DOI: 10.1128/Aac.49.1.366-379.2005 |
0.304 |
|
| 2004 |
Vinga S, Almeida JS. Rényi continuous entropy of DNA sequences. Journal of Theoretical Biology. 231: 377-88. PMID 15501469 DOI: 10.1016/J.Jtbi.2004.06.030 |
0.349 |
|
| 2004 |
Vinga S, Gouveia-Oliveira R, Almeida JS. Comparative evaluation of word composition distances for the recognition of SCOP relationships. Bioinformatics (Oxford, England). 20: 206-15. PMID 14734312 DOI: 10.1093/Bioinformatics/Btg392 |
0.336 |
|
| 2003 |
Vinga S, Almeida J. Alignment-free sequence comparison-a review. Bioinformatics (Oxford, England). 19: 513-23. PMID 12611807 DOI: 10.1093/Bioinformatics/Btg005 |
0.344 |
|
| 2002 |
Almeida JS, Vinga S. Universal sequence map (USM) of arbitrary discrete sequences. Bmc Bioinformatics. 3: 6. PMID 11895567 DOI: 10.1186/1471-2105-3-6 |
0.325 |
|
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