Mushthofa

Contact


Ghent University
Dept. of Applied Mathematics & Computer Science
Krijgslaan 281 (Building S9, Room 40.09.120.028)
B-9000 Gent
Belgium


Short biography


Mushthofa holds a Master's degree from Universidade Nova de Lisboa, Portugal and Technische Universität Wien, Austria (2009) in the framework of Erasmus Mundus program European Master's in Computational Logic. He is currently a PhD student under the joint supervision of Prof. Martine de Cock and Prof. Kathleen Marchal funded by the Nucleotides2Networks project, working on the implementation of Artificial Intelligence techniques (e.g. Fuzzy Answer Set Programming, machine learning) and their application to Bioinformatics.

I am conducting research at the intersection of knowledge representation & reasoning, machine learning and bioinformatics, comprising of two main parts:
(1) the use of logic-based frameworks to model and reason about biological networks and their behaviour,
(2) network-based machine learning approaches for feature selection/biomarker prediction and modelling of cancer drug response using genomic & transcriptomic data.
See also my:

Publications

Papers in International Journals

  1. ASP-G: An ASP-based method for finding attractors in Genetic Regulatory Networks.
    M Mushthofa, G Torres, Y Van de Peer, K Marchal, M De Cock.
    Bioinformatics (2014)   [Preprint]
  2. Modeling Multi-Valued Biological Interaction Networks using Fuzzy Answer Set Programming.
    Mushthofa, M., Schockaert S, Ling-Hong Hung, Marchal, K, De Cock M.
    Under review in Fuzzy Sets and Systems.

Papers in Conferences

  1. A finite-valued solver for disjunctive fuzzy answer set programs.
    M Mushthofa, S Schockaert, M De Cock
    Proceedings of the 21st European Conference in Artificial Intelligence (2014), Prague, Czech Republic   [Preprint]
  2. Solving Disjunctive Fuzzy Answer Set Programs
    M Mushthofa, S Schockaert, M De Cock
    Proceedings of the 13th International Conference, LPNMR 2015, Lexington, KY, USA   [Preprint]
  3. Computing Attractors of Multi-Valued Gene Regulatory Networks using Fuzzy Answer Set Programming
    M Mushthofa, S Schockaert, M De Cock
    Proceedings of the 2016 IEEE International Conference on Fuzzy Systems (FUZZ-IEEE), Vancouver, BC, Canada   [Paper]

Abstracts & Posters

  1. Network-based prediction of cancer drug response, European Conference on Computational Logic (ECCB) 2016, The Hague, Netherlands
  2. Network-based method for feature selection and prediction of cancer drug response. Accepted at the 2017 Intelligent Systems for Molecular Biology, July 2017, Prague, Czech Republic.

Implementations

  1. FFASP : A finite-valued solver for fuzzy answer set programming (FASP)
  2. ASP-G : ASP-based system to compute attractors of Boolean Gene Regulatory Networks
See also my GitHub repository: https://github.com/mushthofa

Theses



Conferences attended

  1. 21st European Conference in Artificial Intelligence (ECAI 2014), Prague, Czech Republic, 18-22 August 2014 [Link]
  2. 23rd Annual International Conference on Inteligent Systems for Molecular Biology (ISMB/ECCB 2015), Dublin, Ireland, 10-14 July 2015 [Link]
  3. 13th International Conference on Logic Programming and Nonmonotonic Reasoning, LPNMR 2015, Lexington, KY, USA, 27-30 September 2015 [Link]
  4. 2016 IEEE International Conference on Fuzzy Systems (FUZZ-IEEE), Vancouver, BC, Canada, 24-29 July 2016 [Link]
  5. 22nd European Conference on Artificial Intelligence (ECAI 2016), The Hague, The Netherlands, 29 Aug - 02 Sep 2016 [Link]
  6. 15th European Conference on Computational Biology (ECCB 2016), The Hague, The Netherlands, 03 Sep - 07 Sep 2016 [Link]
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