Qualifications

  • 2016: Programa Doutoral em Informática, Universidade do Minho
  • 2011: Master Program on Bioinformatics, Universidade do Minho
  • 2008: Licenciatura em Ciência Computadores - Ramo ensino, Universidade do Porto
  • 2001: Licenciatura em Matemática e Ciências da Computação, Universidade do Minho
  • 2017 - 2018: Bioinformatics Services for Data-Driven Design of Cell Factories and Communities
  • 2016 - 2016: Bioinformatics Services for Data-Driven Design of Cell Factories and Communities
  • 2012 - 2016: A framework for the reconstruction and analysis of tissue specific genome-scale metabolic models
  • 2010 - 2011: Desenvolvimento de ferramentas computacionais para otimização de estirpes por adição de reações ao modelo metabólico

Projects


Recent Publications

1
Analysing algorithms and data sources for the tissue-specific reconstruction of liver healthy and cancer cells
  • Interdisciplinary Sciences-Computational Life Sciences, 9(1), 36-45, 2017
2
  • Seyednasrollah, Fatemeh; Koestler, Devin C.; Wang, Tao; Stephen R. Piccolo; Roberto Vega; Russell Greiner; Christiane Fuchs; Eyal Gofer; Luke Kumar; Russell D. Wolfinger; Kimberly Kanigel Winner; Chris Bare; Elias Chaibub Neto; Thomas Yu; Liji Shen; Kald Abdallah; Thea Norman; Gustavo Stolovitzky; Howard R. Soule; Christopher J. Sweeney; Charles J. Ryan; Howard I. Scher; Oliver Sartor; Laura L. Elo; Fang Liz Zhou; Justin Guinney; James C. Costello; Prostate Cancer DREAM Challenge Community; Correia, Sara; Freitas, Ana Alão; Rocha, Miguel; Vieira, Vítor
A DREAM challenge to build prediction models for short-term discontinuation of docetaxel in metastatic castration-resistant prostate cancer
  • JCO Clinical Cancer Informatics, 2017
3
  • Guinney, Justin; Wang, Tao; Laajala, Teemu D.; Winner, Kimberly Kanigel; Bare, J. Christopher; Neto, Elias Chaibub; Khan, Suleiman A.; Peddinti, Gopal; Airola, Antti; Pahikkala, Tapio; Mirtti, Tuomas; Yu, Thomas; Bot, Brian M.; Shen, Liji; Abdallah, Kald; Norman, Thea; Friend, Stephen; Stolovitzky, Gustavo; Soule, Howard; Ryan, Charles J.; Scher, Howard I.; Sartor, Oliver; Xie, Yang; Tero Aittokallio; Fang Liz Zhou; James C Costello; Catalina Anghel; Helia Azima; Robert Baertsch; Pedro J Ballester; Chris Bare; Vinayak Bhandari; Cuong C Dang; Maria Bekker-Nielsen Dunbar; Ann-Sophie Buchardt; Ljubomir Buturovic; Da Cao; Prabhakar Chalise; Junwoo Cho; Tzu-Ming Chu; R Yates Coley; Sailesh Conjeti; Correia, Sara; Ziwei Dai; Junqiang Dai; Philip Dargatz; Sam Delavarkhan; Detian Deng; Ankur Dhanik; Yu Du; Aparna Elangovan; Shellie Ellis; Laura L Elo; Shadrielle M Espiritu; Fan Fan; Ashkan B Farshi; Freitas, Ana Alão; Brooke Fridley; Christiane Fuchs; Eyal Gofer; Gopalacharyulu Peddinti; Stefan Graw; Russ Greiner; Yuanfang Guan; Jing Guo; Pankaj Gupta; Anna I Guyer; Jiawei Han; Niels R Hansen; Billy HW Chang; Outi Hirvonen; Barbara Huang; Chao Huang; Jinseub Hwang; Joseph G Ibrahim; Vivek Jayaswal; Jouhyun Jeon; Zhicheng Ji; Deekshith Juvvadi; Sirkku Jyrkkiö; Amin Katouzian; Marat D Kazanov; Shahin Khayyer; Dalho Kim; Agnieszka K Golinska; Devin Koestler; Kokowicz, Fernanda; Ivan Kondofersky; Norbert Krautenbacher; Damjan Krstajic; Luke Kumar; Christoph Kurz; Matthew Kyan; Michael Laimighofer; Eunjee Lee; Wojciech Lesinski; Miaozhu Li; Ye Li; Qiuyu Lian; Xiaotao Liang; Minseong Lim; Henry Lin; Xihui Lin; Jing Lu; Mehrad Mahmoudian; Roozbeh Manshaei; Richard Meier; Dejan Miljkovic; Krzysztof Mnich; Nassir Navab; Elias C Neto; Yulia Newton; Subhabrata Pal; Byeongju Park; Jaykumar Patel; Swetabh Pathak; Pattin, Alexandrina; Donna P Ankerst; Jian Peng; Anne H Petersen; Robin Philip; Stephen R Piccolo; Sebastian Pölsterl; Aneta Polewko-Klim; Karthik Rao; Xiang Ren; Rocha, Miguel; Rudnicki, Witold R.; Hyunnam Ryu; Hagen Scherb; Raghav Sehgal; Fatemeh Seyednasrollah; Jingbo Shang; Bin Shao; Howard Sher; Motoki Shiga; Artem Sokolov; Julia F Söllner; Lei Song; Josh Stuart; Ren Sun; Christopher J Sweeney; Nazanin Tahmasebi; Kar-Tong Tan; Lisbeth Tomaziu; Joseph Usset; Yeeleng S Vang; Roberto Vega; Vieira, Vítor; David Wang; Difei Wang; Junmei Wang; Lichao Wang; Sheng Wang; Yue Wang; Russ Wolfinger; Chris Wong; Zhenke Wu; Jinfeng Xiao; Xiaohui Xie; Doris Xin; Hojin Yang; Nancy Yu; Xiang Yu; Sulmaz Zahedi; Massimiliano Zanin; Chihao Zhang; Jingwen Zhang; Shihua Zhang; Yanchun Zhang; Zhu, Hongtu; Zhu, Shanfeng; Zhu, Yuxin
Prediction of overall survival for patients with metastatic castration-resistant prostate cancer: development of a prognostic model through a crowdsourced challenge with open clinical trial data
  • LANCET ONCOLOGY, 18(1), 132-142, 2017
4
Metabolic profiling and classification of propolis samples from Southern Brazil: An NMR-based platform coupled with machine learning
  • Journal of Natural Products, 79(1), 13-23, 2016
5
  • Pojo, Marta; Gonçalves, Céline; Xavier-Magalhães, Ana; Oliveira, Ana Isabel; Gonçalves, Tiago; Correia, Sara; Rodrigues, Ana J.; Costa, Sandra; Pinto, Luísa; Pinto, Afonso A.; Lopes, José M.; Reis, Rui M.; Rocha, Miguel; Sousa, Nuno; Costa, Bruno M.
A transcriptomic signature mediated by HOXA9 promotes human glioblastoma initiation, aggressiveness and resistance to temozolomide
  • Oncotarget, 6(10), 7657-7674, 2015
6
A critical evaluation of methods for the reconstruction of tissue-specific models
  • Lecture Notes in Computer Science, 9273, 340-352, 2015
7
  • Gonçalves, Céline S.; Xavier-Magalhães, Ana; Pojo, Marta; Oliveira, Ana Isabel; Correia, Sara; Reis, Rui M.; Sousa, Nuno; Rocha, Miguel; Costa, Bruno M.
Transcriptional profiling of HOXA9-regulated genes in human glioblastoma cell models
  • Genomics Data, 5, 54-58, 2015
8
In silico strain optimization by adding reactions to metabolic models
  • Journal of Integrative Bioinformatics, 9(3), 44-56, 2012
9
Computational tools for strain optimization by adding reactions
  • Advances in Intelligent and Soft Computing, 154, 241-250, 2012
Full List