Prem Raj Adhikari

Prem Raj Adhikari

I successfully defended my doctoral dissertation at the Department of Information and Computer Science (ICS) in Aalto University School of Science on November 21, 2014.
After graduation, I moved out of Aalto University and hence these pages are not updated. Meanwhile, you can hop onto my personal webpage at www.premraj.me where I will try
to update my recent avenues and endeavours. You can contact me in my alumni email address: prem.raj.adhikari [at] alumni.aalto.fi. Other contact points are: Twitter or Linkedin.

While at ICS, I was a member of the Parsimonious Modelling Research Group in HIIT and ALGODAN Center of Excellence. D.Sc. (Tech.) Jaakko Hollmén took the burden of advising and Professor Samuel Kaski of supervising my research. My research focused on probablistic modelling in cancer genomics, especially on multiresolution modelling of chromosomal aberrations patterns in cancer. My research was funded by Hecse graduate school, HIIT, and Finnish Center of Excellence ALGODAN.

Before the doctoral degree, I also completed my International Master's Degree Programme in Machine Learning and Data Mining (Macadamia) from Aalto University in December 2010.

Research and other interests

I'm interested in probabilistic modelling and multiresolution 0-1 data especially the multiresolution mixture models. Generically speaking, I am interested in the Machine Learning and Data Mining Algorithms and their use in the analysis of large data sets. My interests also includes the application of Machine Learning algorithms for solving problems in bio-informatics and computational biology.

Some of the more specific fields of interest are: machine learning, data mining, probabilistic graphical models, bio-informatics, and scale space methods. Hobbies include listening music, reading, sports and photographing nature & its wonderful people.

Contact information

E-mail: prem dot adhikari at aalto.fi
Phone: +358 (0) 50 430 2532
Fax: +358 9 4702 3277

Street address:
Room A342, 3rd floor
Computer Science building
Konemiehentie 2, Otaniemi
02150 Espoo, Finland

Postal address:
Department of Information and Computer Science
Aalto University School of Science
P.O. Box 15400
FI-00076 Aalto, Finland

Research Visits

I visited Department of Knowledge Technologies in Jožef Stefan Institute (JSI) for a week from 16th to 20th of September 2013. I worked under the supervision of Professor Nada Lavrač on semantic data mining methods and their application to biological datasets. While in Ljubljana (JSI), I presented my current work and future plans for collaboration to the research group.
I visited The Delft Bioinformatics Lab in Delft University of Technology for two weeks from 5th to 17th of December 2011. I worked under the supervision of Assistant Professor Jeroen de Ridder on scale space theory and their application to genes. A longer visit is also planned for again sometime in the future. While in Delft, I gave a talk on my current work and future plans to the research group.

Publications

Full list of publications including BibTeX references and links to on-line versions of the papers of the whole ICS department are available here. Small subset of this includes my publications as well. Also, here is a link to my google scholar profile.

Journal publication

Prem Raj Adhikari, Jaakko Hollmén, 2015. Fast Progressive Training of Mixture Models for Model Selection. Journal of Intelligent Information Systems, 44(2):223-241, Springer.

Conference publications

Prem Raj Adhikari, Anže Vavpetič, Jan Kralj, Nada Lavrač and Jaakko Hollmén, 2014. Explaining mixture models through semantic pattern mining and banded matrix visualization. In S. Džeroski, P. Panov, D. Kocev, L. Todorovski, Editors, Proceedings of Seventeenth International Conference on Discovery Science (DS 2014), Volume 8777 of Lecture Notes in Computer Science, Springer-Verlag, Berlin Heidelberg, October 8-10, 2014, Bled, Slovenia.
Prem Raj Adhikari, Jaakko Hollmén, 2013. Mixture Models from Multiresolution 0-1 Data. In J. Fürnkranz, E. Hüllermeier, and T. Higuchi, Editors, Proceedings of Sixteenth International Conference on Discovery Science (DS 2013), Volume 8140 of Lecture Notes in Computer Science, Springer-Verlag, Berlin Heidelberg, pages 1-16, October 6-9, 2013, Singapore.
Prem Raj Adhikari, Jaakko Hollmén, 2012. Multiresolution Mixture Modeling using Merging of Mixture Components. In Steven C.H. Hoi and Wray Buntine Editors, Proceedings of Fourth Asian Conference on Machine Learning (ACML 2012), Volume 25 of Journal of Machine Learning Research - Proceedings Track, pages 17-32, November 4-6, 2012, Singapore.
Prem Raj Adhikari, Jaakko Hollmén, 2012. Fast Progressive Training of Mixture Models for Model Selection. In J.-G. Ganascia, P. Lenca, and J.-M. Petit Editors, Proceedings of Fifteenth International Conference on Discovery Science (DS 2012), Volume 7569 of Lecture Notes in Computer Science, Springer-Verlag, Berlin Heidelberg, pages 194-208, October 29-31, 2012, Lyon, France.
Prem Raj Adhikari, Jaakko Hollmén, 2012. Mixture Modelling in Cancer Genomics. BREW 2012 Bioinformatics Research and Education Workshop, May 3-6, 2012, Bergen, Norway. Not Peer Reviewed
Prem Raj Adhikari, Bimal Babu Upadhyaya, Chen Meng, Jaakko Hollmén, 2011. Gene Selection in Time-series Gene Expression Data. In M. Loog, L. Wessels, M.J.T. Reinders, and D. de Ridder, editors, Proceedings of the 6th IAPR Conference on Pattern Recognition in Bioinformatics, volume 7036 of Lecture Notes in Bioinformatics, pages 145-156. Springer-Verlag, November 2011, Delft, The Netherlands.
Prem Raj Adhikari, Jaakko Hollmén, 2010. Preservation of Statistically Significant patterns in Multiresolution 0-1 data. In Tjeerd Dijkstra, Evgeni Tsivtsivadze, Elena Marchiori, and Tom Heskes, editors, Proceedings of the 5th IAPR International Conference on Pattern Recgnition in Bioinformatics , Volume 6282 of Lecture Notes in Computer Science, pages 86-97 Springer-Verlag, September 2010, Nijmegen, The Netherlands.
Prem Raj Adhikari, Jaakko Hollmén, 2010. Patterns from Multiresolution 0-1 data. In Proceedings of the ACM SIGKDD Workshop on Useful Patterns (Washington, DC, July 25 - 25, 2010). UP '10. ACM, New York, NY, 8-16.

Technical Report

Prem Raj Adhikari, 2009. Machine VS. Human Speech Recognition. In Kalle J. Palomäki, Ulpu Remes and Mikko Kurimo, editors, Studies On Noise Robust Automatic Speech Recognition, TKK Reports in Information and Computer Science TKK-ICS-R19, Pages 67-79, Helsinki University of Technology, November 2009, Espoo, Finland.

Conference presentations and posters

Prem Raj Adhikari, Jaakko Hollmén, 2010. Multiresolution Mixture Models using Bayesian Networks. In Reija Autio, Ilya Shmulevich, Korbinian Strimmer, Carsten Wiuf, Septimia Sarbu and Olli Yli-Harja, Editors, Proceedings of the 10 th International Workshop on Computational Systems Biology, WCSB 2013, Tampere International Center for Signal Processing. TICSP series # 63, June 10-12, Tampere, Finland Download the poster in A4 here.
Prem Raj Adhikari, Jaakko Hollmén, 2010. Mixture Modelling of Binary Data. Statistical Mechanics of Learning and Inference, Mariehamn, Åland, Finland, May 26-29, 2010. Download the poster in A4 here.
Prem Raj Adhikari, Jaakko Hollmén, 2010. Preservation of Statistically Significant patterns in Multiresolution 0-1 data. 5th IAPR International Conference on Pattern Recgnition in Bioinformatics, Nijmegen, The Netherlands. September 22-24, 2010. Download the poster in A4 here.
Prem Raj Adhikari, Jaakko Hollmén, 2011. Probabilistic Transformation and Modelling of Multiresolution 0-1 Data. The 11th SocBiN Conference (Bioinformatics 2011), Pages 1-1 of the Abstracts Book, Helsinki, Finland. May 10-12, 2011. Abstract only Download the poster in A4 here.
Prem Raj Adhikari, Jaakko Hollmén, 2011. Unsupervised Stratified Cross-Validation. EIT ICT Labs Health Retreat, Helsinki, Finland, June 6-10, 2011.
Prem Raj Adhikari, Jaakko Hollmén, 2012. Multiresolution Mixture Modeling using Merging of Mixture Components. The Eleventh International Symposium on Intelligent Data Analysis (IDA 2012), PhD Poster, October 25-27, Helsinki, 2012. Here is a two-minute screencast of the poster presentation. Download the poster in A4 here.

Assistant to Prof. Erik Aurell in T-61.6080 Special Course in Bioinformatics II: Quantitative Systems Biology, Autumn 2011.

Academic Activities

Local organizing team of The Eleventh International Symposium on Intelligent Data Analysis (IDA 2012) held between 25th and 27th October, 2012 in Helsinki, Finland.
Academic Tutor of the students (Admitted Fall 2012) of Master's Programme in Machine Learning and Data Mining (Macadamia)

Follow @prem_adh