@Article{Savia08,
 author = 	 {Eerika Savia and Kai Puolam{\"a}ki and Samuel Kaski},
 title = 	 {Latent Grouping Models for User Preference Prediction},
 journal = 	 {Machine Learning},
 year = 	 {in press},
 note =	 {Published online: 3 September 2008.},
 doi =          {10.1007/s10994-008-5081-7}, 
 url =          {http://dx.doi.org/10.1007/s10994-008-5081-7},
 abstract =     {We tackle the problem of new users or documents in
                  collaborative filtering. Generalization over users
                  by grouping them into user groups is beneficial when
                  a rating is to be predicted for a relatively new
                  document having only few observed ratings.
                  Analogously, generalization over documents improves
                  predictions in the case of new users. We show that
                  if either users and documents or both are new,
                  two-way generalization becomes necessary.  We
                  demonstrate the benefits of grouping of users,
                  grouping of documents, and two-way grouping, with
                  artificial data and in two case studies with real
                  data. We have introduced a probabilistic latent
                  grouping model for predicting the relevance of a
                  document to a user. The model assumes a latent group
                  structure for both users and items. We compare the
                  model against a state-of-the-art method, the User
                  Rating Profile model, where only the users have a
                  latent group structure. We compute the posterior of
                  both models by Gibbs sampling. The Two-Way Model
                  predicts relevance more accurately when the target
                  consists of both new documents and new users. The
                  reason is that generalization over documents becomes
                  beneficial for new documents and at the same time
                  generalization over users is needed for new users.},
 impactfactor = {A},         
 flags = {AIRC}
}

@InProceedings{Yamazaki08iconip,
  author = 	 {Keisuke Yamazaki and Samuel Kaski},
  title = 	 {An Analysis of Generalization Error in Relevant
                  Subtask Learning},
  booktitle = 	 {Proceedings of ICONIP08, the 15th International Conference on
                  Neural Information Processing},
  OPTcrossref =  {},
  OPTkey = 	 {},
  OPTpages = 	 {},
  OPTpublisher = {},
  year =	 {to appear},
  OPTeditor = 	 {},
  OPTvolume = 	 {},
  OPTnumber = 	 {},
  OPTseries = 	 {},
  OPTtype = 	 {},
  OPTchapter = 	 {},
  OPTaddress = 	 {},
  OPTedition = 	 {},
  OPTmonth = 	 {},
  flags =        {AIRC},
  impactfactor = {D3},
  OPTannote = 	 {}
}

@InProceedings{Caldas08mlsp,
  author = 	 {Jos{\'e} Caldas and Samuel Kaski},
  title = 	 {Bayesian Biclustering with the Plaid Model},
  booktitle = 	 {Proceedings of the {IEEE} International Workshop on Machine Learning for Signal Processing {XVIII}},
  pages = 	 {291--296},
  publisher = {IEEE},
  year =	 2008,
  editor = 	 {Jos{\'e} Pr{\'i}ncipe and Deniz Erdogmus and Tulay
                  Adali},
  url =          {http://www.cis.hut.fi/jcaldas/papers/plaid_mlsp08.pdf},
  impactfactor = {D3},
  flags =        {AIRC}
}

@Article{Klami08neuroc,
  author = 	 {Arto Klami and Samuel Kaski},
  title = 	 {Probabilistic approach to detecting dependencies
                  between data sets},
  journal = 	 {Neurocomputing},
  year = 	 2008,
  volume = 	 72,
  pages = 	 {39-46},
  doi =          {doi:10.1016/j.neucom.2007.12.044},
  url =          {http://dx.doi.org/10.1016/j.neucom.2007.12.044},
  impactfactor = {B},
  flags =        {AIRC}}

@InCollection{Klami08mir,
  author = 	 {Arto Klami and Craig Saunders and Te\'{o}filo {de
                  Campos} and Samuel Kaski},
  title = 	 {Can relevance of images be inferred from eye movements?},
  booktitle = 	 {MIR '08: Proceeding of the 1st ACM International
                  Conference on Multimedia Information Retrieval},
  pages = 	 {134-140},
  year =	 2008,
  publisher = {ACM},
  address = {New York, NY, USA},
  location = {Vancouver, British Columbia, Canada},
  url =          {http://doi.acm.org/10.1145/1460096.1460120},
  impactfactor = {C},
  flags =        {AIRC}}

@Article{Nikkila08,
  author = 	 {Janne Nikkil{\"a} and Marko Sysi-Aho and Andrey
                  Ermolov and Tuulikki Sepp{\"a}nen-Laakso and Olli
                  Simell and Samuel Kaski and Matej Ore{\v{s}}i{\v{c}}},
  title = 	 {Gender dependent progression of systemic metabolic
                  states in early childhood},
  journal = 	 {Molecular Systems Biology},
  year = 	 2008,
  volume = 	 4,
  pages = 	 197,
  url =          {http://www.nature.com/msb/journal/v4/n1/full/msb200834.html},
  impactfactor = {A},
  flags =        {AIRC}
}

@InProceedings{Peltonen08,
  author = 	 {Jaakko Peltonen and Yusuf Yaslan and Samuel Kaski},
  title = 	 {Variational Bayes Learning from Relevant Tasks Only},
  booktitle = {Learning from Multiple Sources Workshop, 13 December
                  2008, Whistler Canada},
  year = 	 2008,
  url =          {http://www.cis.hut.fi/projects/mi/papers/nips08_lms_rsl_abstract.pdf},
  note = 	 {Proceedings at
                  \url{http://web.mac.com/davidrh/LMSworkshop08/Schedule.html}},
  impactfactor = {D4},
  flags =        {AIRC}
}

@InProceedings{Puolamaki08icml,
  author = 	 {Kai Puolam{\"a}ki and Antti Ajanki and Samuel Kaski},
  title = 	 {Learning to learn implicit queries from gaze patterns},
  booktitle = 	 {Proceedings of ICML 2008, Twenty-Fifth International
                  Conference on Machine Learning},
  pages = 	 {760-767},
  year = 	 2008,
  editor = 	 {Andrew McCallum and Sam Roweis},
  address = 	 {Madison, WI},
  url =          {http://www.cis.hut.fi/projects/mi/papers/icml08.pdf},
  impactfactor = {D3},
  flags =        {AIRC}
}

@TechReport{Puolamaki08tr,
  author = 	 {Kai Puolam{\"a}ki and Samuel Kaski},
  title = 	 {Bayesian solutions to the label switching problem},
  institution =  {Helsinki University of Technology},
  year = 	 2008,
  type = 	 {TKK Reports in Information and Computer Science},
  number = 	 {TKK-ICS-R7},
  address = 	 {Espoo, Finland},
  flags =        {AIRC copy}
}

@InProceedings{Raiko08tml,
  author = 	 {Tapani Raiko and Kai Puolam{\"a}ki and Juha Karhunen
                  and Jaakko Hollm{\'e}n and Antti Honkela and Samuel
                  Kaski and Heikki Mannila and Erkki Oja and Olli Simula},
  title = 	 {Macadamia: Master's Programme in Machine Learning
                  and Data Mining},
  booktitle = 	 {Teaching Machine Learning Workshop 2008, May 6-7,
                  Sait-{\'E}tienne, France},
  year = 	 2008,
  note = 	 {Papers at \url{http://labh-curien.univ-st-etienne.fr/informatique/tml08/programme.php}},
  impactfactor = {D3},
  flags =        {AIRC}
}

@InProceedings{Rogers08,
  author = 	 {Simon Rogers and Janne Sinkkonen and Arto Klami and
                  Mark Girolami and Samuel Kaski},
  title = 	 {Two-level infinite mixture for multi-domain data},
  booktitle = {Learning from Multiple Sources Workshop, 13 December
                  2008, Whistler Canada},
  year = 	 2008,
  note = 	 {Proceedings at
                  \url{http://web.mac.com/davidrh/LMSworkshop08/Schedule.html}},
  url =          {http://www.cis.hut.fi/projects/mi/papers/nips08lms.pdf},
  impactfactor = {D3},
  flags =        {AIRC}
}

@InProceedings{Sinkkonen08mlg,
  author = 	 {Janne Sinkkonen and Janne Aukia and Samuel Kaski},
  title = 	 {Infinite mixtures for multi-relational categorical
                  data},
  booktitle = 	 {6th International Workshop on Mining and Learning
                  with Graphs (MLG 2008)},
  year = 	 2008,
  editor = 	 {Samuel Kaski and S. V. N. Vishwanathan and Stefan
                  Wrobel},
  note = 	 {Proceedings at \url{http://www.cis.hut.fi/MLG08}},
  url =          {http://www.cis.hut.fi/MLG08/papers/session4/paper10.pdf},
  impactfactor = {D3},
  flags =        {AIRC}
}

@InProceedings{Sinkkonen08,
  author = 	 {Janne Sinkkonen and Juuso Parkkinen and Janne Aukia
                  and Samuel Kaski},
  title = 	 {A simple infinite topic mixture for rich graphs and
                  relational data},
  booktitle = 	 {NIPS 2008 Workshop on Analyzing Graphs: Theory and
                  Applications},
  year = 	 2008,
  location =  {Whistler, BC, Canada},
  impactfactor = {D4},
  flags =        {AIRC}}

@Article{Tripathi08,
  author = 	 {Abhishek Tripathi and Arto Klami and Samuel Kaski},
  title = 	 {Simple integrative preprocessing preserves what is
                  shared in data sources},
  journal = 	 {BMC Bioinformatics},
  year = 	 2008,
  volume = 	 9,
  pages = 	 111,
  url =          {http://www.biomedcentral.com/1471-2105/9/111},
  impactfactor = {A},
  flags =        {AIRC}
}

@TechReport{Tripathi08tr,
  author = 	 {Abhishek Tripathi and Arto Klami and Samuel Kaski},
  title = 	 {Using dependencies to pair samples for multi-view learning},
  institution =  {Helsinki University of Technology},
  year = 	 2008,
  type = 	 {TKK Reports in Information and Computer Science},
  number = 	 {TKK-ICS-R8},
  address = 	 {Espoo, Finland},
  flags =        {AIRC copy}
}

@InProceedings{Yamazaki08,
  author = 	 {Keisuke Yamazaki and Samuel Kaski},
  title = 	 {On asymmetric generalization error of asymmetric
                  multitask learning},
  booktitle = {Learning from Multiple Sources Workshop, 13 December
                  2008, Whistler Canada},
  year = 	 2008,
  note = 	 {Proceedings at
                  \url{http://web.mac.com/davidrh/LMSworkshop08/Schedule.html}},
  impactfactor = {D4},
  flags =        {AIRC}
}

@InProceedings{Ajanki07,
  author = 	 {Antti Ajanki and Janne Nikkil{\"a} and Samuel Kaski},
  title = 	 {Discovering Condition-Dependent {B}ayesian Networks
                  for Gene Regulation},
  booktitle = 	 {Proceedings of GENSIPS 2007, The Fifth IEEE
                  International Workshop on Genomic Signal Processing
                  and Statistics, Tuusula, Finland, 10-12 June},
  year = 	 2007,
  flags =        {AIRC}
}

@InProceedings{Aukia07nips,
  author = 	 {Janne Aukia and Samuel Kaski and Janne Sinkkonen},
  title = 	 {Inferring vertex properties from topology in large
                  networks},
  booktitle = 	 {NIPS'07 Workshop on Statistical Models of Networks},
  year = 	 2007,
  flags =        {AIRC}
}

@InProceedings{Hardoon07,
  author = 	 {David R. Hardoon and John Shawe-Taylor and Antti
                  Ajanki and Kai Puolam{\"a}ki and Samuel Kaski},
  title = 	 {Information retrieval by inferring implicit queries
                  from eye movements},
  booktitle = 	 {Proceedings of AISTATS 2007, the 11th International
                  Conference on International Conference on Artificial
                  Intelligence and Statistics},
  publisher = {Omnipress},
  year = 	 2007,
  editor =	 {Marina Meila and Xiaotong Shen},
  note =	 {Proceedings on CD and at
                  \url{http://www.stat.umn.edu/~aistat/proceedings/start.htm}},
  flags =        {AIRC}
}

@InProceedings{Kaski07ecml,
  author = 	 {Samuel Kaski and Jaakko Peltonen},
  title = 	 {Learning from relevant tasks only},
  booktitle = 	 {Machine Learning: ECML 2007 (Proceedings of the 18th
                  European Conference on Machine Learning)},
  pages = 	 {608-615},
  publisher = {Springer-Verlag},
  year = 	 2007,
  editor = 	 {Joost N. Kok and Jacek Koronacki and Ramon {Lopez de
                  Mantaras} and Stan Matwin and Dunja Mladenic and Andrzej
                  Skowron},
  address = 	 {Berlin},
  flags =        {AIRC}
}

@Article{Kaski07,
  author = 	 {Samuel Kaski and Juho Rousu and Esko Ukkonen},
  title = 	 {Probabilistic modeling and machine learning in
                  structural and systems biology},
  journal = 	 {BMC Bioinformatics},
  year = 	 2007,
  volume = 	 8,
  number = 	 {Suppl 2},
  pages = 	 {S1},
  flags =        {AIRC}
}

@InProceedings{Klami07,
  author = 	 {Arto Klami and Samuel Kaski},
  title = 	 {Local Dependent Components},
  booktitle = 	 {Proceedings of ICML 2007, the 24th International
                  Conference on Machine Learning},
  pages = 	 {425-432},
  publisher = {Omnipress},
  year = 	 2007,
  editor = 	 {Zoubin Ghahramani},
  flags =        {AIRC}
}

@InProceedings{Nybo07,
  author = 	 {Kristian Nybo and Jarkko Venna and Samuel Kaski},
  title = 	 {The self-organizing map as a visual information
                  retrieval method},
  booktitle = 	 {Proceedings of WSOM'07, 6th International Workshop on
                  Self-Organizing Maps},
  publisher = {Bielefeld University},
  year = 	 2007,
  address = 	 {Bielefeld, Germany},
  flags =        {AIRC}
}

@Article{Nymark07,
  author = 	 {Penny Nymark and Pamela M Lindholm and Mikko V
                  Korpela and Leo Lahti and Salla Ruosaari and Samuel
                  Kaski and Jaakko Hollmen and Sisko Anttila and
                  Vuokko L Kinnula and Sakari Knuutila},
  title = 	 {Gene expression profiles in asbestos-exposed
                  epithelial and mesothelial lung cell lines},
  journal = 	 {BMC Genomics},
  year = 	 2007,
  volume = 	 8,
  pages = 	 62,
  flags =        {AIRC}
}

@Article{Oja07bmc,
  author = 	 {Merja Oja and Jaakko Peltonen and Jonas Blomberg and
                  Samuel Kaski},
  title = 	 {Methods for estimating human endogenous retrovirus
                  activities from {EST} databases},
  journal = 	 {BMC Bioinformatics},
  year = 	 2007,
  volume = 	 8,
  number = 	 {Suppl 2},
  pages = 	 {S11},
  flags =        {AIRC}
}

@InProceedings{Oja07ismbeccb,
 author =	 {Merja Oja and Jaakko Peltonen and Jonas Blomberg and
                 Samuel Kaski},
 title =	 {Estimating human endogeneous retrovirus activities
                 in various tissues with a hidden {M}arkov mixture
                 model},
 booktitle =	 {Intelligent Systems for Molecular
                 Biology \& European Conference on Computational
                 Biology 2007 (ISMB/ECCB 2007)},
 year =	 {2007},
 address =	 {Vienna, Austria},
 month =	 {July 21-25},
 note =	 {Poster},
 flags =	 {AIRC}
}

@InProceedings{Oja07eccb,
 author =	 {Merja Oja and Jaakko Peltonen and Samuel Kaski},
 title =	 {A hidden {M}arkov model for estimating retrovirus
                 activities from expressed sequence databases},
 booktitle =	 {European Conference on Computational Biology (ECCB
                 2006)},
 year =	 {2007},
 address =	 {Eilat, Israel},
 month =	 {January 21-24},
 note =	 {Poster},
 flags =	 {AIRC}
}

@InProceedings{Parkkinen07,
  author = 	 {Juuso Parkkinen and Samuel Kaski},
  title = 	 {Searching for functional gene modules with
                  interaction component models},
  booktitle = 	 {The NIPS workshop on Machine Learning in
                  Computational Biology, Whistler
                  (B.C.) December 7-8, 2007},
  year =         {2007},
  flags =        {AIRC}
}

@InProceedings{Peltonen07mlsp,
  author = 	 {Jaakko Peltonen and Jacob Goldberger and Samuel Kaski},
  title = 	 {Fast Semi-Supervised Discriminative Component Analysis},
  booktitle = 	 {Machine Learning for Signal Processing XVII},
  pages = 	 {312-317},
  publisher = {IEEE},
  year =	 2007,
  editor = 	 {Konstantinos Diamantaras and T{\"u}lay Adali and
                  Ioannis Pitas and Jan Larsen and Theophilos
                  Papadimitriou and Scott Douglas},
  flags =        {AIRC}
}

@InProceedings{Sinkkonen07,
  author = 	 {Janne Sinkkonen and Janne Aukia and Samuel Kaski},
  title = 	 {Inferring vertex properties from topology in large
                  networks},
  booktitle = 	 {MLG'07, the 5th International Workshop on Mining and
                  Learning with Graphs, Firenze, Aug 1-3, 2007},
  year =	 2007,
  flags =        {AIRC}
}

@InProceedings{Venna07aistats,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Nonlinear dimensionality reduction as information
                  retrieval},
  booktitle = 	 {Proceedings of AISTATS 2007, the 11th International
                  Conference on International Conference on Artificial
                  Intelligence and Statistics},
  publisher = {Omnipress},
  year = 	 2007,
  editor =	 {Marina Meila and Xiaotong Shen},
  note =	 {Proceedings on CD and at \url{http://www.stat.umn.edu/~aistat/proceedings/start.htm}},
  flags =        {AIRC}
}

@Article{Venna07infovis,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Comparison of visualization methods for an atlas of
                  gene expression data sets},
  journal = 	 {Information Visualization},
  year = 	 2007,
  volume = 	 6,
  pages = 	 {139-154},
  flags =        {AIRC}
}

@InProceedings{Ylipaavalniemi07,
  author = 	 {Jarkko Ylipaavalniemi and Eerika Savia and Ricardo
                  Vig{\'a}rio and Samuel Kaski},
  title = 	 {Functional elements and networks in {fMRI}},
  booktitle = 	 {Proceedings of ESANN 2007, the 15th European
                  Symposium on Artificial Neural Networks},
  pages = 	 {561-566},
  publisher = {d-side},
  year = 	 2007,
  address = 	 {Bruges, Belgium},
  flags =        {AIRC}
}

@Article{Kaski06poly,
  author = 	 {Samuel Kaski},
  title = 	 {Ydinteht{\"a}v{\"a}t kunniaan},
  journal = 	 {Polysteekki},
  year = 	 2006,
  volume =       {N/A},
  number = 	 3,
  pages = 	 19,
  note = 	 {(Commentary on the role of TKK in research in TKK's
                  magazine.)},
  flags =        {AIRC}
}

@InProceedings{Klami06mlsp,
  author = 	 {Arto Klami and Samuel Kaski},
  title = 	 {Generative models that discover dependencies between
                  data sets},
  booktitle = 	 {Proceedings of MLSP'06,  IEEE International Workshop
                  on Machine Learning for Signal Processing},
  pages = 	 {123-128},
  publisher = {IEEE},
  year = 	 2006,
  flags =        {AIRC}
}

@InProceedings{Nikkila06pmsb,
  author = 	 {Janne Nikkil{\"a} and Antti Honkela and Samuel
                  Kaski},
  title = 	 {Exploring the independence of gene regulatory
                  modules},
  editor =	 {Juho Rousu and Samuel Kaski and Esko Ukkonen},
  booktitle = 	 {Probabilistic Modeling and Machine Learning in
                  Structural and Systems Biology. Workshop
                  Proceedings; Tuusula, Finland, June 17-18},
  publisher = 	 {University of Helsinki},
  year = 	 2006,
  address =	 {Helsinki, Finland},
  pages =	 {131-136},
  flags =        {AIRC}
}

@InProceedings{Oja06pmsb,
  author = 	 {Merja Oja and Jaakko Peltonen and Samuel Kaski},
  title = 	 {Estimation of human endogeneous retrovirus
                  activities from expressed sequence databases},
  editor =	 {Juho Rousu and Samuel Kaski and Esko Ukkonen},
  booktitle = 	 {Probabilistic Modeling and Machine Learning in
                  Structural and Systems Biology. Workshop
                  Proceedings; Tuusula, Finland, June 17-18},
  publisher = 	 {University of Helsinki},
  year = 	 2006,
  address =	 {Helsinki, Finland},
  pages =	 {50-54},
  flags =        {AIRC}
}

@InProceedings{Peltonen06lce,
  author = 	 {Jaakko Peltonen and Jacob Goldberger and Samuel Kaski},
  title = 	 {Fast Discriminative Component Analysis for Comparing
                  Examples},
  booktitle = 	 {NIPS'06 Workshop on Learning to Compare Examples,
                  December 8, 2006, Whistler, BC, Canada},
  year = 	 2006,
  note = 	 {http://www.idiap.ch/lce/},
  flags =        {AIRC}
}

@InProceedings{Peltonen06covshift,
  author = 	 {Jaakko Peltonen and Samuel Kaski},
  title = 	 {Learning when only some of the training data are
                  from the same distribution as test data},
  booktitle = {NIPS 2006 Workshop on Learning when Test and
                  Training Inputs Have Different Distributions},
  year = 	 2006,
  note = 	 {Extended abstract at
                  \url{http://www.cis.hut.fi/projects/mi/papers/nips06_did_abstract.pdf}},
  flags =        {AIRC}
}

@Book{Puolamaki06inips,
  editor =	 {Kai Puolam{\"a}ki and Samuel Kaski},
  title = 	 {Proceedings of the NIPS 2005 Workshop on Machine
                  Learning for Implicit Feedback and User Modeling},
  publisher =	 {Helsinki University of Technology},
  year = 	 2006,
  address =	 {Espoo, Finland},
  flags =        {AIRC}
}

@TechReport{Puolamaki06,
  author = 	 {Kai Puolamäki and Jarkko Salojarvi and Eerika Savia
                  and Samuel Kaski},
  title = 	 {Discriminative {MCMC}},
  institution =  {Helsinki University of Technology},
  year = 	 2006,
  type =	 {Publications in Computer and Information Science},
  number =	 {E1},
  address =	 {Espoo, Finland},
  flags =        {AIRC copy}
}

@Book{Rousu06pmsb,
  editor =	 {Juho Rousu and Samuel Kaski and Esko Ukkonen},
  title = 	 {Probabilistic Modeling and Machine Learning in
                  Structural and Systems Biology. Workshop
                  Proceedings; Tuusula, Finland, June 17-18},
  publisher = 	 {University of Helsinki},
  year = 	 2006,
  address =	 {Helsinki, Finland},
  flags =        {AIRC}
}

@InProceedings{Salojarvi06inips,
  author = 	 {Jarkko Saloj{\"a}rvi and Kai Puolam{\"a}ki and Jaana
                  Simola and Lauri Kovanen and Ilpo Kojo and Samuel Kaski},
  title = 	 {Inferring relevance from eye movements: Feature Extraction},
  booktitle = 	 {Proceedings of the NIPS 2005 Workshop on Machine
                  Learning for Implicit Feedback and User Modeling},
  pages =	 {45-67},
  publisher =	 {Helsinki University of Technology},
  year =	 2006,
  editor =	 {Kai Puolam{\"a}ki and Samuel Kaski},
  address =	 {Espoo, Finland},
  flags =        {AIRC}
}

@InProceedings{Seiffert06,
  author = 	 {Udo Seiffert and Barbara Hammer and Samuel Kaski and
                  Thomas Villmann},
  title = 	 {Neural Networks and Machine Learning in
                  Bioinformatics---Theory and Applications},
  booktitle = 	 {Proceedings of ESANN'06, 14th European Symposium on
                  Artificial Neural Networks},
  pages =	 {521-532},
  publisher =	 {d-side},
  year =	 2006,
  address =	 {Evere, Belgium},
  flags =        {AIRC}
}

@Article{Venna06nn,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Local multidimensional scaling},
  journal = 	 {Neural Networks},
  year = 	 2006,
  volume = 	 19,
  pages = 	 {889-899},
  flags =        {AIRC}
}

@InProceedings{Venna06esann,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Visualizing gene interaction graphs with local
                  multidimensional scaling},
  booktitle = 	 {Proceedings of ESANN'06, 14th European Symposium on
                  Artificial Neural Networks},
  pages =	 {557-562},
  publisher =	 {d-side},
  year =	 2006,
  address =	 {Evere, Belgium},
  flags =        {AIRC}
}

@InProceedings{Venna06dimred,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Nonlinear dimensionality reduction viewed as information retrieval},
  booktitle =    {NIPS 2006 Workshop on Novel Applications of Dimensionality Reduction},
  year = 	 2006,
  note = 	 {Extended abstract at
                  \url{http://www.cis.hut.fi/projects/mi/papers/nips06_nldrws.pdf}},
  flags =        {AIRC}
}

@TechReport{Venna06tr,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Nonlinear Dimensionality Reduction as Information Retrieval},
  institution =  {Helsinki University of Technology},
  year = 	 2006,
  type = 	 {Publications in Computer and Information Science},
  number = 	 {E5},
  flags =        {AIRC copy}
}

@TechReport{Ylipaavalniemi06,
  author = 	 {Jarkko Ylipaavalniemi and Eerika Savia and Ricardo
                  Vigário and Samuel Kaski},
  title = 	 {Functional Elements and Networks in fMRI},
  institution =  {Helsinki University of Technology},
  year = 	 2006,
  type = 	 {Publications in Computer and Information Science},
  number = 	 {E7},
  flags =        {AIRC copy}
}

@Book{Bonsaythip05,
  editor =	 {Catherine Bonsaythip and Jaakko Hollm{\'e}n and
                  Samuel Kaski and Matej Ore{\v{s}}i{\v{c}}},
  title = 	 {Proceedings of KRBIO05, Symposium on Knowledge
                  Representation in Bioinformatics},
  publisher = 	 {Helsinki University of Technology},
  year = 	 2005,
  address =	 {Espoo, Finland}
}

@InProceedings{Kaski05wsom,
  author = 	 {Samuel Kaski},
  title = 	 {From learning metrics towards dependency exploration},
  booktitle = 	 {Proceedings of WSOM'05, 5th Workshop On
                  Self-Organizing Maps},
  pages =	 {307-314},
  year =	 2005,
  address =	 {Paris}
}

@InProceedings{Kaski05brainit,
  author = 	 {Samuel Kaski},
  title = 	 {Proactive information retrieval by monitoring eye
                  movements},
  booktitle = 	 {Abstracts of BrainIT, The Second International
                  Conference on Brain-Inspired Information Technology},
  pages =	 28,
  publisher =	 {Kyushu Institute of Technology},
  year =	 2005,
  address =	 {Kitakuyshu, Japan},
  note =	 {Abstract of an invited talk}
}

@InProceedings{Kaski05mlum,
  author = 	 {Samuel Kaski and Petri Myllym{\"a}ki and Ilpo Kojo},
  title = 	 {User models from implicit feedback for proactive
                  information retrieval},
  booktitle = 	 {Proceedings of Workshop 4 of the 10th International
                  Conference on User Modeling; Machine Learning for
                  User Modeling: Challenges},
  pages =	 {25-26},
  year =	 2005,
  editor =	 {Colin {de la Higuera} and Thierry Arti{\`e}res}
}

@InProceedings{Kaski05wcsb,
  author = 	 {Samuel Kaski and Janne Nikkil{\"a}},
  title = 	 {Dependency exploration in computational systems biology},
  booktitle = 	 {Proceedings of The 3rd TICSP Workshop on
                  Computational Systems Biology},
  pages =	 {49-50},
  publisher =	 {Tampere University of Technology},
  year =	 2005,
  editor =	 {Tiina Manninen and Marja-Leena Linne and Olli Yli-Harja},
  series =	 {TICSP Series \#29},
  address =	 {Tampere, Finland}
}

@Article{Kaski05csc,
  author = 	 {Samuel Kaski and Janne Nikkil{\"a}},
  title = 	 {Of mice and men and yeast, and dependency exploration},
  journal = 	 {CSCnews, Information Technology for Science in Finland},
  year = 	 2005,
  volume =       {N/A},
  number =	 4,
  pages =	 {24-26}
}

@InProceedings{Kaski05book,
  author = 	 {Samuel Kaski and Janne Nikkilä and Eerika Savia and
                  Christophe Roos},
  title = 	 {Discriminative Clustering of Yeast Stress Response},
  booktitle = 	 {Bioinformatics using Computational Intelligence Paradigms},
  pages =	 {75-92},
  publisher =	 {Springer},
  year =	 2005,
  editor =	 {Udo Seiffert and Lakhmi Jain and Patric Schweizer},
  address =	 {Berlin}
}

@Article{Kaski05tcbb,
  author = 	 {Samuel Kaski and Janne Nikkil{\"a} and Janne
                  Sinkkonen and Leo Lahti and Juha Knuuttila and
                  Christophe Roos},
  title = 	 {Associative clustering for exploring dependencies
                  between functional genomics data sets},
  journal = 	 {IEEE/ACM Transactions on Computational Biology and
                  Bioinformatics},
  year = 	 2005,
  volume =	 2,
  pages =	 {203-216}
}

@Misc{Kaski05ismb,
  author =	 {Samuel Kaski and Eerika Savia and Kai Puolam{\"a}ki},
  title =	 {Predicting binding of transcriptional regulators
                  with a two-way latent grouping model},
  howpublished = {Poster in ISMB 2005, the 13th Annual
                  International Conference on Intelligent Systems for
                  Molecular Biology, Detroit, Michigan, June 25-29},
  year =	 2005,
  note =	 {http://www.iscb.org/ismb2005/posters\_list.html}
}

@Article{Kaski05neuroc,
  author = 	 {Samuel Kaski and Janne Sinkkonen and Arto Klami},
  title = 	 {Discriminative Clustering},
  journal = 	 {Neurocomputing},
  year = 	 2005,
  volume =	 69,
  pages =	 {18-41}
}

@InProceedings{Klami05icassp,
  author = 	 {Arto Klami and Samuel Kaski},
  title = 	 {Non-parametric dependent components},
  booktitle = 	 {Proceedings of ICASSP 2005, IEEE International
                  Conference on Acoustics, Speech, and Signal
                  Processing},
  pages =	 {V-209--V-212},
  publisher =	 {IEEE},
  year =	 2005
}

@Misc{Klami05eccb,
  author = 	 {Arto Klami and Janne Nikkil\"a and Christophe Roos
                  and Samuel Kaski},
  title = 	 {Extracting yeast stress genes by dependencies
                  between stress treatments},
  booktitle = 	 {ECCB 2005, European Conference on Computational Biology},
  year =	 2005,
  note =	 {Abstract in web, http://tinyurl.com/98kcx}
}

@InProceedings{Nikkila05icsb,
  author = 	 {Janne Nikkil{\"a} and Tapio Rinnet and Antti Ajanki
                  and Samuel Kaski},
  title = 	 {Stress in yeast knockout experiments},
  booktitle = 	 {ICSB 2005, 6th International Conference on Systems
                  Biology, abstract proceedings},
  pages =	 249,
  year =	 2005,
  note =	 {Poster abstract}
}

@InProceedings{Nikkila05krbio,
  author = 	 {Janne Nikkil{\"a} and Christophe Roos and Samuel Kaski},
  title = 	 {Integration of transcription factor binding and gene
                  expression by associative clustering},
  booktitle = 	 {Proc. KRBIO05, Symposium on Knowledge Representation
                  in Bioinformatics},
  pages =	 {22-29},
  publisher =	 {Helsinki University of Technology},
  year =	 2005,
  editor =	 {Catherine Bonsaythip and Jaakko Hollm{\'e}n and
                  Samuel Kaski and Matej Ore{\v{s}}i{\v{c}}},
  address =	 {Espoo, Finland}
}

@Article{Nikkila05ijns,
  author = 	 {Janne Nikkil{\"a} and Christophe Roos and Eerika
                  Savia and Samuel Kaski},
  title = 	 {Explorative Modeling of Yeast Stress Response and
                  its Regulation with {gCCA} and Associative
                  Clustering},
  journal = 	 {International Journal of Neural Systems},
  year = 	 2005,
  volume =	 15,
  pages =	 {237-246}
}

@Article{Oja05,
  author = 	 {Merja Oja and G{\"o}ran O. Sperber and Jonas
                  Blomberg and Samuel Kaski},
  title = 	 {Self-Organizing Map-Based Discovery and
                  Visualization of Human Endogenous Retroviral
                  Sequence Groups},
  journal = 	 {International Journal of Neural Systems},
  year = 	 2005,
  volume =	 15,
  pages =	 {163-180}
}

@Article{Peltonen05trnn,
  author = 	 {Jaakko Peltonen and Samuel Kaski},
  title = 	 {Discriminative components of data},
  journal = 	 {IEEE Transactions on Neural Networks},
  year = 	 2005,
  volume =	 16,
  pages =	 {68-83}
}

@InProceedings{Puolamaki05,
  author = 	 {Kai Puolam{\"a}ki and Jarkko Saloj{\"a}rvi and
                  Eerika Savia and Jaana Simola and Samuel Kaski},
  title = 	 {Combining Eye Movements and Collaborative Filtering
                  for Proactive Information Retrieval},
  booktitle = 	 {Proceedings of SIGIR 2005, Twenty-Eighth Annual
                  International ACM SIGIR Conference on Research and
                  Development in Information Retrieval},
  pages =	 {146-153},
  publisher =	 {ACM},
  year =	 2005,
  editor =	 {Gary Marchionini and Alistair Moffat and John Tait
                  and Ricardo Baeza-Yates and Novio Ziviani},
  address =	 {New York, NY}
}

@InProceedings{Salojarvi05ecml,
  author = 	 {Jarkko Saloj{\"a}rvi and Kai Puolam{\"a}ki and
                  Samuel Kaski},
  title = 	 {On Discriminative Joint Density Modeling},
  booktitle = 	 {Proceedings of ECML 2005, 16th European Conference
                  on Machine Learning},
  pages =	 {341-352},
  publisher =	 {Springer},
  year =	 2005,
  editor =	 {João Gama and Rui Camacho and Pavel Brazdil and
                  Alípio Jorge and Luís Torgo},
  address =	 {Berlin}
}

@InProceedings{Salojarvi05icml,
  author = 	 {Jarkko Saloj{\"a}rvi and Kai Puolam{\"a}ki and
                  Samuel Kaski},
  title = 	 {Expectation Maximization Algorithms for Conditional
                  Likelihoods},
  booktitle = 	 {Proceedings of ICML 2005, the 22nd International
                  Conference on Machine Learning},
  pages =	 {753-760},
  publisher =	 {ACM Press},
  year =	 2005,
  editor =	 {Luc {De Raedt} and Stefan Wrobel},
  address =	 {New York, NY}
}

@InProceedings{Salojarvi05icann,
  author = 	 {Jarkko Saloj{\"a}rvi and Kai Puolam{\"a}ki and
                  Samuel Kaski},
  title = 	 {Implicit relevance feedback from eye movements},
  booktitle = 	 {Artificial Neural Networks: Biological Inspirations
                  --- ICANN 2005},
  pages =	 {513-518},
  publisher =	 {Springer},
  year =	 2005,
  editor =	 {W{\l}odzis{\l}aw Duch and Janusz Kacprzyk and Erkki Oja
                  and S{\l}awomir Zadro\.zny},
  volume =	 {I},
  address =	 {Berlin}
}

@TechReport{Salojarvi05tr,
  author = 	 {Jarkko Saloj{\"a}rvi and Kai Puolam{\"a}ki and Jaana
                  Simola and Lauri Kovanen and Ilpo Kojo and Samuel
                  Kaski},
  title = 	 {Inferring Relevance from Eye Movements: Feature Extraction},
  institution =  {Helsinki University of Technology},
  year = 	 2005,
  type =	 {Publications in Computer and Information Science},
  number =	 {A82},
  address =	 {Espoo, Finland},
  flags =        {copy}
}

@InProceedings{Savia05uai,
  author = 	 {Eerika Savia and Kai Puolam{\"a}ki and Janne
                  Sinkkonen and Samuel Kaski},
  title = 	 {Two-Way Latent Grouping Model for User Preference
                  Prediction},
  booktitle = 	 {Proceedings of UAI 2005, Uncertainty in Artificial
                  Intelligence},
  pages =	 {518-525},
  publisher =	 {AUAI Press},
  year =	 2005,
  editor =	 {Fahiem Bachus and Tommi Jaakkola},
  address =	 {Corvallis, OH}
}

@TechReport{Sinkkonen05tr,
  author = 	 {Janne Sinkkonen and Samuel Kaski and Janne
                  Nikkil{\"a} and Leo Lahti},
  title = 	 {Associative Clustering ({AC}): Technical Details},
  institution =  {Helsinki University of Technology},
  year = 	 2005,
  type =	 {Publications in Computer and Information Science},
  number =	 {A84},
  address =	 {Espoo, Finland},
  flags =        {copy}
}

@InProceedings{Venna05krbio,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Visualized atlas of a gene expression databank},
  booktitle = 	 {Proc. KRBIO05, Symposium on Knowledge Representation
                  in Bioinformatics},
  pages =	 {30-36},
  publisher =	 {Helsinki University of Technology},
  year =	 2005,
  editor =	 {Catherine Bonsaythip and Jaakko Hollm{\'e}n and
                  Samuel Kaski and Matej Ore{\v{s}}i{\v{c}}},
  address =	 {Espoo, Finland}
}

@InProceedings{Venna05wsom,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Local multidimensional scaling with controlled
                  tradeoff between trustworthiness and continuity},
  booktitle = 	 {Proceedings of WSOM'05, 5th Workshop On
                  Self-Organizing Maps},
  pages =	 {695-702},
  year =	 2005,
  address =	 {Paris}
}

@InProceedings{Kaski04life,
  author = 	 {Samuel Kaski},
  title = 	 {Bubbly bioinformatics},
  booktitle = 	 {From Genes to Ethics. Research for a New
                  Millennium. Final Report of the Life 2000 Research
                  Programme},
  pages = 	 {48-51},
  publisher = {Academy of Finland},
  year = 	 2004,
  series = 	 {Publications of the Academy of Finland 5/04},
  address = 	 {Helsinki, Finland}
}

@Article{Kaski04vlsi,
  author = 	 {Samuel Kaski and Janne Sinkkonen},
  title = 	 {Principle of learning metrics for exploratory data analysis},
  journal = 	 {Journal of VLSI Signal Processing, special issue
                  on Machine Learning for Signal Processing},
  year = 	 2004,
  volume =	 37,
  pages =	 {177-188}
}

@Article{Lagus04,
  author = 	 {Krista Lagus and Samuel Kaski and Teuvo Kohonen},
  title = 	 {Mining massive document collections by the {WEBSOM}
                  method},
  journal = 	 {Information Sciences},
  year = 	 2004,
  volume =	 163,
  pages =	 {135-156}
}

@InProceedings{Nikkila04ideal,
  author = 	 {Janne Nikkil{\"a} and Christophe Roos and Samuel Kaski},
  title = 	 {Exploring Dependencies between Yeast Stress Genes
                  and their Regulators},
  booktitle = 	 {Proceedings of IDEAL04, Intelligent Data Engineering
                  and Automated Learning},
  pages =	 {92-98},
  publisher =	 {Springer-Verlag},
  year =	 2004,
  editor =	 {Zheng Rong Yang and Richard Everson and Hujun Yin},
  address =	 {Berlin}
}

@InProceedings{Oja04,
  author = 	 {Merja Oja and G{\"o}ran Sperber and Jonas Blomberg
                  and Samuel Kaski},
  title = 	 {Grouping and visualizing human endogenous
                  retroviruses by bootstrapping median self-organizing
                  maps},
  booktitle = 	 {Proceedings of CIBCB'04, IEEE Symposium on
                  Computational Intelligence in Bioinformatics and
                  Computational Biology},
  pages =	 {95-101},
  publisher =	 {IEEE},
  year =	 2004,
  address =	 {Piscataway, NJ}
}

@Article{Peltonen04nn,
  author = 	 {Jaakko Peltonen and Arto Klami and Samuel Kaski},
  title = 	 {Improved Learning of {R}iemannian Metrics for
                  Exploratory Analysis},
  journal = 	 {Neural Networks},
  year = 	 2004,
  volume =	 17,
  pages =	 {1087-1100},
  note =	 {Invited paper}
}

@InProceedings{Peltonen04,
  author = 	 {Jaakko Peltonen and Janne Sinkkonen and Samuel Kaski},
  title = 	 {Sequential Information Bottleneck for Finite Data},
  booktitle = 	 {Proceedings of ICML 2004, the Twenty-First
                  International Conference on Machine Learning},
  pages =	 {647-654},
  publisher =	 {Omnipress},
  year =	 2004,
  editor =	 {Russ Greiner and Dale Schuurmans},
  address =	 {Madison, WI}
}

@TechReport{Puolamaki04,
  author = 	 {Kai Puolam{\"a}ki and Eerika Savia and Janne
                  Sinkkonen and Samuel Kaski},
  title = 	 {Two-Way Latent Grouping Model for User Preference
                  Prediction},
  institution =  {Helsinki University of Technology},
  year = 	 2004,
  type =	 {Publications in Computer and Information Science},
  number =	 {A80},
  address =	 {Espoo, Finland},
  flags =        {copy}
}

@InCollection{Salojarvi04,
  author = 	 {Jarkko Saloj{\"a}rvi and Kai Puolam{\"a}ki and
                  Samuel Kaski},
  title = 	 {Relevance feedback from eye movements for proactive
                  information retrieval},
  booktitle = 	 {Proceedings of PSIPS 2004, Workshop on Processing
                  Sensory Information for Proactive Systems},
  pages =	 {37-42},
  publisher =	 {Infotech Oulu},
  year =	 2004,
  editor =	 {Janne Heikkil{\"a} and Matti Pietik{\"a}inen and
                  Olli Silv{\'e}n},
  address =	 {Oulu, Finland}
}

@InCollection{Savia04,
  author = 	 {Eerika Savia and Samuel Kaski and Ville Tuulos and
                  Petri Myllym{\"a}ki},
  title = 	 {On text-based estimation of document relevance},
  booktitle = 	 {Proceedings of IJCNN'04, International Joint
                  Conference on Neural Networks},
  pages =	 {3275-3280},
  publisher =	 {IEEE},
  year =	 2004,
  address =	 {Piscataway, NJ}
}

@InProceedings{Sinkkonen04ecml,
  author = 	 {Janne Sinkkonen and Janne Nikkila and Leo Lahti and
                  Samuel Kaski},
  title = 	 {Associative clustering},
  booktitle = 	 {Machine Learning: ECML'04. Proceedings of the 15th
                  European Conference on Machine Learning},
  pages =	 {396-405},
  publisher =	 {Springer},
  year =	 2004,
  editor =	 {Jean-Francois Boulicaut and Floriana Esposito and
                  Fosca Giannotti and Dino Pedreschi},
  address =	 {Berlin}
}

@InProceedings{Kaski03isi,
  author = 	 {Samuel Kaski},
  title = 	 {Discriminative Clustering},
  booktitle = 	 {Bulletin of the International Statistical Institute.
                  Invited Paper Proceedings of the 54th Session},
  pages =	 {270-273},
  publisher =	 {International Statistical Institute},
  year =	 2003,
  volume =	 2
}

@InProceedings{Kaski03iew,
  author = 	 {Samuel Kaski and Janne Nikkilä and Teuvo Kohonen},
  title = 	 {Methods for Exploratory Cluster Analysis},
  booktitle = 	 {Intelligent Exploration of the Web},
  pages =	 {136-151},
  publisher =	 {Physica-Verlag},
  year =	 2003,
  editor =	 {P. S. Szczepaniak and J. Segovia and J. Kacprzyk and
                  L. A. Zadeh},
  address =	 {Heidelberg}
}

@Article{Kaski03bioinf,
  author = 	 {Samuel Kaski and Janne Nikkil{\"a} and Merja Oja and
                  Jarkko Venna and Petri T{\"o}r{\"o}nen and Eero
                  Castr{\'e}n},
  title = 	 {Trustworthiness and metrics in visualizing
                  similarity of gene expression},
  journal = 	 {BMC Bioinformatics},
  year = 	 2003,
  volume =	 4,
  number =	 48
}

@InProceedings{Kaski03icml,
  author = 	 {Samuel Kaski and Jaakko Peltonen},
  title = 	 {Informative Discriminant Analysis},
  booktitle = 	 {Proceedings of ICML-2003, the Twentieth
                  International Conference on Machine Learning},
  pages =	 {329-336},
  publisher =	 {AAAI Press},
  year =	 2003,
  editor =	 {Tom Fawcett and Nina Mishra},
  address =      {Menlo Park, CA}
}

@InProceedings{Kaski03gfkl,
  author = 	 {Samuel Kaski and Janne Sinkkonen},
  title = 	 {Discriminative Clustering: Vector Quantization in
                  Learning Metrics},
  booktitle = 	 {Between Data Science and Applied Data Analysis},
  pages =	 {456-463},
  publisher =	 {Springer},
  year =	 2003,
  editor =	 {M. Schader and W. Gaul and M. Vichi},
  address =	 {Berlin}
}

@InProceedings{Kaski03nnsp,
  author = 	 {Samuel Kaski and Janne Sinkkonen and Arto Klami},
  title = 	 {Regularized Discriminative Clustering},
  booktitle = 	 {Neural Networks for Signal Processing {XIII}},
  pages =	 {289-298},
  publisher =	 {IEEE},
  year =	 2003,
  editor =	 {Christophe Molina and T{\"u}lay Adali and Jan Larsen
                  and Marc {Van Hulle} and Scott Douglas and Jean Rouat},
  address =	 {New York, NY}
}

@InProceedings{Nikkila03,
  author = 	 {Janne Nikkil{\"a} and Christophe Roos and Janne
                  Sinkkonen and Samuel Kaski},
  title = 	 {Associative clustering to find dependencies between
                  expression profiles and transcription factor binding},
  booktitle = 	 {Proceedings of ECCB'2003, European Conference on
                  Computational Biology},
  pages =	 {433-434},
  year =	 2003,
  editor =	 {Catherine Christophe and Hans-Peter Lenhof and
                  Marie-France Sagot}
}

@Article{Oja03ncs,
  author = 	 "Merja Oja and Samuel Kaski and Teuvo Kohonen",
  title = 	 "Bibliography of Self-Organizing Map ({SOM}) Papers:
		  1998--2001 Addendum",
  journal =	 "Neural Computing Surveys",
  year =	 2003,
  volume =	 3,
  pages =	 "1-156",
  note =	 "Available in electronic form at
		  http://www.soe.ucsc.edu/NCS/"
}

@InProceedings{Oja03,
  author = 	 {Merja Oja and Panu Somervuo and Samuel Kaski and
                  Teuvo Kohonen},
  title = 	 {Clustering of human endogenous retrovirus sequences
                  with median self-organizing map},
  booktitle = 	 {Proceedings of WSOM'03, Workshop on Self-Organizing
                  Maps},
  pages =	 {134-139},
  publisher =	 {Kyushu Institute of Technology},
  year =	 2003,
  address =	 {Kitakyushu, Japan},
  note =	 {(Proceedings on CD-ROM)}
}

@InProceedings{Peltonen03wsom,
  author = 	 {Jaakko Peltonen and Arto Klami and Samuel Kaski},
  title = 	 {Learning metrics for information visualization},
  booktitle = 	 {Proceedings of WSOM'03, Workshop on Self-Organizing
                  Maps},
  pages =	 {213-218},
  publisher =	 {Kyushu Institute of Technology},
  year =	 2003,
  address =	 {Kitakyushu, Japan},
  note =	 {(Proceedings on CD-ROM)}
}

@InProceedings{Salojarvi03icann,
  author = 	 {Jarkko Saloj{\"a}rvi and Samuel Kaski and Janne
                  Sinkkonen},
  title = 	 {Discriminative Clustering in {F}isher metrics},
  booktitle = 	 {Artificial Neural Networks and Neural Information
                  Processing---Supplementary proceedings ICANN/ICONIP},
  pages =	 {161-164},
  year =	 2003,
  editor =	 {O. Kaynak and E. Alpaydin and E. Oja and L. Xu}
}

@InProceedings{Salojarvi03wsom,
  author = 	 {Jarkko Saloj{\"a}rvi and Ilpo Kojo and Jaana Simola
                  and Samuel Kaski},
  title = 	 {Can relevance be inferred from eye movements in
                  information retrieval?},
  booktitle = 	 {Proceedings of WSOM'03, Workshop on Self-Organizing
                  Maps},
  pages =	 {261-266},
  publisher =	 {Kyushu Institute of Technology},
  year =	 2003,
  address =	 {Kitakyushu, Japan},
  note =	 {(Proceedings on CD-ROM)}
}

@InProceedings{Salojarvi03mlui,
  author = 	 {Jarkko Salojärvi and Kai Puolam\"aki and Samuel Kaski},
  title = 	 {Relevance feedback from eye movements for proactive
                  information retrieval},
  booktitle = 	 {Machine Learning Meets the User Interface, A
                  workshop at NIPS 2003},
  year =	 2003,
  note =	 {(2-page abstract)}
}

@TechReport{Salojarvi03tr,
  author = 	 {Jarkko Saloj{\"a}rvi and Kai Puolam{\"a}ki and
                  Samuel Kaski},
  title = 	 {Relevance feedback from eye movements for proactive
                  information retrieval},
  institution =  {Helsinki University of Technology},
  year = 	 2003,
  type =	 {Publications in Computer and Information Science},
  number =	 {A73},
  address =	 {Espoo, Finland}
}

@TechReport{Sinkkonen03tr,
  author = 	 {Janne Sinkkonen and Janne Nikkil{\"a} and Leo Lahti
                  and Samuel Kaski},
  title = 	 {Associative clustering by maximizing a {B}ayes factor},
  institution =  {Helsinki University of Technology},
  year = 	 2003,
  type =	 {Publications in Computer and Information Science},
  number =	 {A68},
  address =	 {Espoo, Finland},
  month =	 {June}
}

@InProceedings{Venna03icann,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Visualizing high-dimensional posterior distributions
                  in {B}ayesian modeling},
  booktitle = 	 {Artificial Neural Networks and Neural Information
                  Processing---Supplementary proceedings ICANN/ICONIP},
  year =	 2003,
  pages =	 {165-168}
}

@InProceedings{Venna03ecml,
  author = 	 {Jarkko Venna and Samuel Kaski and Jaakko Peltonen},
  title = 	 {Visualizations for Assessing Convergence and Mixing of
                  {MCMC}},
  booktitle = 	 {Proceedings of ECML-2003, 14th European Conference
                  on Machine Learning},
  pages =	 {432-443},
  publisher =	 {Springer},
  year =	 2003,
  editor =	 {N. Lavrac and D. Gamberger and H. Blockeel and
                  L. Todorovski},
  address =	 {Berlin}
}

@Book{STeP02,
  editor =	 {Pekka Ala-Siuru and Samuel Kaski},
  title = 	 {STeP 2002---Intelligence, the Art of Natural and
                  Artificial. Proceedings of the 10th Finnish
                  Artificial Intelligence Conference},
  publisher = 	 {Finnish Artificial Intelligence Society},
  year = 	 2002,
  address =	 {Oulu, Finland}
}

@Book{Hatutus02,
  editor =	 {Jukka Iivarinen and Samuel Kaski and Erkki Oja},
  title = 	 {Nelj{\"a}nnesvuosisata Hatutusta:
                  Hahmontunnistustutkimus Suomessa 1977--2002},
  publisher = 	 {Suomen hahmontunnistustutkimuksen seura ry},
  year = 	 2002,
  address =	 {Otaniemi}
}

@InProceedings{Kaski02isei,
  author = 	 {Samuel Kaski},
  title = 	 {Learning metrics},
  booktitle = 	 {3rd Conference of the International Society for
                  Ecological Informatics, Grottaferrata, Italy},
  pages =	 42,
  year =	 2002,
  note =	 {(Abstract of a plenary talk)}
}

@InProceedings{Klami02,
  author = 	 {Arto Klami and Jaakko Peltonen and Samuel Kaski},
  title = 	 {Accurate self-organizing maps in learning metrics},
  editor =	 {Pekka Ala-Siuru and Samuel Kaski},
  booktitle = 	 {STeP 2002---Intelligence, the Art of Natural and
                  Artificial. Proceedings of the 10th Finnish
                  Artificial Intelligence Conference},
  publisher = 	 {Finnish Artificial Intelligence Society},
  year = 	 2002,
  address =	 {Oulu, Finland},
  pages =	 {41-49}
}

@Article{Nikkila02,
  author = 	 {Janne Nikkil{\"a} and Petri T{\"o}r{\"o}nen and
                  Samuel Kaski and Jarkko Venna and Eero
                  Castr{\'e}n and Garry Wong},
  title = 	 {Analysis and visualization of gene expression data
                  using self-organizing maps},
  journal = 	 {Neural Networks},
  year = 	 2002,
  volume =	 15,
  pages =	 {953-966}
}

@InProceedings{Oja02step,
  author = 	 {Merja Oja and Janne Nikkil\"a and Petri T\"or\"onen
                  and Eero Castr\'en and Samuel Kaski},
  title = 	 {Learning metrics for visualizing gene functional
                  similarities},
  editor =	 {Pekka Ala-Siuru and Samuel Kaski},
  booktitle = 	 {STeP 2002---Intelligence, the Art of Natural and
                  Artificial. Proceedings of the 10th Finnish
                  Artificial Intelligence Conference},
  publisher = 	 {Finnish Artificial Intelligence Society},
  year = 	 2002,
  address =	 {Oulu, Finland},
  pages =	 {31-40}
}

@InProceedings{Oja02,
  author = 	 {Merja Oja and Janne Nikkil{\"a} and Petri
                  T{\"o}r{\"o}nen and Garry Wong and Eero Castr{\'e}n
                  and Samuel Kaski},
  title = 	 {Exploratory clustering of gene expression profiles
                  of mutated yeast strains},
  booktitle = 	 {Computational and Statistical Approaches to
                  Genomics},
  pages = 	 {65-78},
  publisher =	 {Kluwer},
  year =	 {2002},
  editor =	 {Wei Zhang and Ilya Shmulevich},
  address = 	 {Boston, MA}
}

@InProceedings{Oja02bioinf,
  author = 	 {M. Oja and P. T{\"o}r{\"o}nen and J. Nikkil{\"a} and
                  E. Castr{\'e}n and S. Kaski},
  title = 	 {Learning metrics for {SOM}-based clustering and
                  visualization of yeast gene expression data},
  booktitle = 	 {Proceedings of Bioinformatics 2002, Bergen, Norway,
                  April 4-7},
  pages =	 78,
  year =	 2002
}

@Article{Ollikainen02,
  author = 	 {Ville Ollikainen and Christer B{\"a}ckstr{\"o}m and
                  Samuel Kaski},
  title = 	 {Electronic Editor: Automatic Content-based
                  Sequential Compilation of Newspaper Articles},
  journal = 	 {Neurocomputing},
  year = 	 2002,
  volume =	 43,
  pages =	 {91-106}
}

@InProceedings{Peltonen02icann,
  author = 	 {Jaakko Peltonen and Arto Klami and Samuel Kaski},
  title = 	 {Learning more accurate metrics for self-organizing
                  maps},
  booktitle = 	 {Artificial Neural Networks---ICANN 2002},
  pages =	 {999-1004},
  publisher =	 {Springer},
  year =	 2002,
  editor =	 {J. R. Dorronsoro},
  address =	 {Berlin}
}

@InProceedings{Peltonen02,
  author = 	 {Jaakko Peltonen and Janne Sinkkonen and Samuel Kaski},
  title = 	 {Discriminative clustering of text documents},
  booktitle = 	 {Proceedings of ICONIP'02, 9th International
                  Conference on Neural Information Processing},
  publisher =	 {IEEE},
  address =      {Piscataway, NJ},
  year =	 2002,
  vol =          4,
  pages =        {1956-1960},
  editor =	 {Lipo Wang and Jagath C. Rajapakse and Kunihiko
                  Fukushima and Soo-Young Lee and Xin Yao}
}

@Article{Salojarvi02,
  author = 	 {Jarkko Saloj{\"a}rvi and Samuel Kaski},
  title = 	 {Mixture Density from Autonomous Experts},
  journal = 	 {International Journal of Knowledge Based Intelligent
                  Engineering Systems},
  year = 	 2002,
  volume =	 6,
  pages =	 {48-55}
}

@Article{Sinkkonen02NC,
  author = 	 {Janne Sinkkonen and Samuel Kaski},
  title = 	 {Clustering based on conditional
                  distributions in an auxiliary space},
  journal = 	 {Neural Computation},
  year = 	 2002,
  volume =	 14,
  pages =	 {217-239}
}

@InProceedings{Sinkkonen02ecml,
  author = 	 {Janne Sinkkonen and Samuel Kaski and Janne Nikkil{\"a}},
  title = 	 {Discriminative clustering: optimal contingency
                  tables by learning metrics},
  booktitle = 	 {Machine Learning: ECML 2002},
  pages =	 {418-430},
  publisher =	 {Springer},
  year =	 2002,
  editor =	 {Tapio Elomaa and Heikki Mannila and Hannu Toivonen},
  address =	 {Berlin}
}

@InProceedings{Kaski01kes,
  author = 	 {Samuel Kaski and Jarkko Saloj{\"a}rvi},
  title = 	 {Generative mixture modeling by autonomous estimators},
  booktitle = 	 {Knowledge-Based Intelligent Information Engineering
                  Systems \& Allied Technologies, Proceedings of
                  KES'2001},
  pages =	 {250-254},
  publisher =	 {IOS Press},
  year =	 2001,
  editor =	 {N. Baba and L. C. Jain and R. J. Howlett},
  volume =	 1,
  address =	 {Amsterdam}
}

@InProceedings{Nikkila01,
  author = 	 {Janne Nikkil{\"a} and Petri T{\"o}r{\"o}nen and
                  Janne Sinkkonen and Samuel Kaski},
  title = 	 {Analysis of Gene Expression Data Using
                  Semi-Supervised Clustering},
  booktitle = 	 {Proceedings of Bioinformatics 2001, Sk{\"o}vde,
                  Sweden, March 29-April 1},
  pages =	 {2-3},
  year =	 2001,
  note =	 {(Abstract)}
}

@InProceedings{Kaski01icann,
  author = 	 {Samuel Kaski and Janne Sinkkonen and Janne Nikkil{\"a}},
  title = 	 {Clustering Gene Expression Data by Mutual
                  Information with Gene Function},
  booktitle = 	 {Artificial Neural Networks---ICANN 2001},
  pages =	 {81-86},
  publisher =	 {Springer},
  year =	 2001,
  editor =	 {Georg Dorffner and Horst Bischof and Kurt Hornik},
  address =	 {Berlin}
}

@InProceedings{Venna01,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Neighborhood preservation in nonlinear projection
                  methods: An experimental study},
  booktitle = 	 {Artificial Neural Networks---ICANN 2001},
  publisher =	 {Springer},
  year =	 2001,
  pages =	 {485-491},
  editor =	 {Georg Dorffner and Horst Bischof and Kurt Hornik},
  address =	 {Berlin}
}

@InProceedings{Kaski01nnsp,
  author = 	 {Samuel Kaski},
  title = 	 {Learning metrics for exploratory data analysis},
  booktitle = 	 {Neural Networks for Signal Processing XI,
                  Proceedings of the 2001 IEEE Signal Processing
                  Society Workshop},
  editor =       {David Miller and T{\"u}lay Adali and Jan Larsen and
                  Marc {Van Hulle} and Scott Douglas},
  pages =	 {53-62},
  publisher =	 {IEEE},
  year =	 2001,
  address =	 {New York, NY}
}

@InProceedings{Kaski01dawak,
  author = 	 {Samuel Kaski and Janne Sinkkonen and Jaakko Peltonen},
  title = 	 {Data Visualization and Analysis with
                  Self-Organizing Maps in Learning Metrics},
  booktitle = 	 {Data Warehousing and Knowledge
                  Discovery. Proceedings of the Third International
                  Conference},
  pages =	 {162-173},
  publisher =	 {Springer},
  year =	 2001,
  editor =	 {Yahiko Kambayashi and Werner Winiwarter and
                  Masatoshi Arikawa},
  address =	 {Berlin},
  note =	 {(LNCS 2114)}
}

@InProceedings{Kaski01ijcnn,
  author = 	 {Samuel Kaski and Janne Sinkkonen and Jaakko Peltonen},
  title = 	 {Learning Metrics for Self-Organizing Maps},
  booktitle = 	 {Proceedings of IJCNN'01, International Joint
                  Conference on Neural Networks},
  pages =	 {914-919},
  publisher =	 {IEEE},
  year =	 2001,
  address =	 {Piscataway, NJ},
  note =	 {}
}

@InProceedings{Kaski01wsom-inv,
  author = 	 {Samuel Kaski},
  title = 	 {{SOM}-Based Exploratory Analysis of Gene Expression Data},
  booktitle = 	 {Advances in Self-Organizing Maps},
  pages =	 {124-131},
  publisher =	 {Springer},
  year =	 2001,
  editor =       {Nigel Allinson and Hujun Yin and Lesley Allinson and
                 Jon Slack},
  address =      {London}
}

@InProceedings{Kaski01wsom,
  author = 	 {Samuel Kaski and Janne Sinkkonen},
  title = 	 {A Topography-Preserving Latent Variable Model with
                  Learning Metrics},
  booktitle = 	 {Advances in Self-Organizing Maps},
  pages =	 {224-229},
  publisher =	 {Springer},
  year =	 2001,
  editor =       {Nigel Allinson and Hujun Yin and Lesley Allinson and
                 Jon Slack},
  address =      {London}

}

@Article{Kaski01trnn,
  author = 	 {Samuel Kaski and Janne Sinkkonen and Jaakko Peltonen},
  title = 	 {Bankruptcy Analysis with Self-Organizing Maps in
                  Learning Metrics},
  journal = 	 {IEEE Transactions on Neural Networks},
  year = 	 2001,
  volume =	 12,
  pages =	 {936-947}
}

@InProceedings{Kaski01nsip,
  author = 	 {Samuel Kaski and Janne Nikkil{\"a} and Petri
                  T{\"o}r{\"o}nen and Eero Castren and Garry Wong},
  title = 	 {Analysis and visualization of gene expression data
                  using self-organizing maps},
  booktitle = 	 {Proceedings of NSIP-01, IEEE-EURASIP Workshop on Nonlinear
                  Signal and Image Processing, 03.06.2001 -
                  06.06.2001, Baltimore, Maryland USA},
  year =	 2001,
  note =	 {Proceedings on CD-ROM}
}

@TechReport{Kaski00tr,
  author = 	 {Samuel Kaski},
  title = 	 {Convergence of a stochastic semisupervised
                  clustering algorithm},
  institution =  {Helsinki University of Technology, Publications in
                  Computer and Information Science},
  year = 	 2000,
  number =	 {A62},
  month =        {November},
  address =	 {Espoo, Finland}
}

@Article{Kaski00ajiips,
  author = 	 {Samuel Kaski and Jarkko Venna and Teuvo Kohonen},
  title = 	 {Coloring that reveals cluster structures in
                  multivariate data},
  journal = 	 {Australian Journal of Intelligent Information
                  Processing Systems},
  year =	 2000,
  volume =	 6,
  pages =	 {82-88}
}

@InCollection{Kaski00yoop,
  author = 	 {Samuel Kaski},
  title = 	 {Kohti uutta luovan ajattelun opettamista},
  booktitle = 	 {\protect$OPE^2$, Dokumentoitua opetuksen kehittämistä
                  Teknillisessä korkeakoulussa 1999-2000},
  pages =	 {9-14},
  publisher =	 {Teknillinen korkeakoulu, Opetuksen ja opiskelun tuen
                  julkaisuja 3/2000},
  year =	 2000,
  editor =	 {Irene Hein and Riikka Lauhia},
  address =	 {Helsinki, Finland}
}

@InProceedings{Kaski00ssgrr,
  author = 	 {Samuel Kaski and Janne Nikkil{\"a} and Teuvo Kohonen},
  title = 	 {Methods for exploratory cluster analysis},
  booktitle = 	 {Proceedings of SSGRR 2000,  International Conference on
                  Advances in Infrastructure for Electronic Business,
                  Science, and Education on the Internet, L'Aquila,
                  July 31--August 6},
  publisher =	 {Scuola Superiore G.~Reiss Romoli},
  year =	 2000,
  note =	 {(Proceedings on CD-ROM, ISBN 88-85280-52-8)}
}

@InProceedings{Kaski00ijcnn,
  author = 	 {Samuel Kaski and Janne Sinkkonen},
  title = 	 {Metrics that learn relevance},
  booktitle = 	 {Proceedings of IJCNN-2000, International Joint Conference on
                  Neural Networks},
  pages =	 {547-552},
  publisher =	 {IEEE Service Center},
  year =	 2000,
  volume =	 {V},
  address =	 {Piscataway, NJ}
}

@Article{Kohonen00,
  author = 	 {Teuvo Kohonen and Samuel Kaski and Krista Lagus and
                  Jarkko Saloj{\"a}rvi and Jukka Honkela and Vesa
                  Paatero and Antti Saarela},
  title = 	 {Self organization of a massive document collection},
  journal = 	 {IEEE Transactions on Neural Networks},
  year = 	 2000,
  volume =	 11,
  pages =	 {574-585}
}

@InProceedings{Ollikainen00,
  author = 	 {Ville Ollikainen and Christer B{\"a}ckstr{\"o}m and
                  Samuel Kaski},
  title = 	 {Automatic Content-based Sequential Ordering of
                  Newspaper Articles for Electronic Books},
  booktitle = 	 {Engineering Problems, Neural Network Solutions;
                  Proceedings of EANN-2000, International Conference
                  on Engineering Applications of Neural Networks},
  pages =	 {183-190},
  publisher =	 {Neural Network Centre, Kingston University},
  year =	 2000,
  editor =	 {Dimitris Tsaptsinos},
  address =	 {Kingston Upon Thames, England}
}

@InProceedings{Sinkkonen00ideal,
  author = 	 {Janne Sinkkonen and Samuel Kaski},
  title = 	 {Clustering by Similarity in an Auxiliary Space},
  booktitle = 	 {Proceedings of IDEAL 2000, Second International
                  Conference on Intelligent Data Engineering and
                  Automated Learning},
  pages =	 {3-8},
  publisher =	 {Springer},
  year =	 2000,
  editor =	 {Kwong Sak Leung and Lai-Wan Chan and Helen Meng},
  address =	 {Berlin}
}

InCollection{Venna00,
  author = 	 {Jarkko Venna and Samuel Kaski},
  title = 	 {Coloring that reveals cluster structures in
                  multidimensional data},
  booktitle = 	 {Proceedings of STeP'00, Finnish Artificial
		  Intelligence Conference. 'AI of Tomorrow': Symposium
                  on Theory},
  publisher =	 {Finnish Artificial Intelligence Society},
  year =	 2000,
  editor =	 {Heikki Hy{\"o}tyniemi},
  address =	 {Helsinki, Finland},
  pages =	 {203-210}
}

@Article{Lagus99,
  author = 	 "Krista Lagus and Timo Honkela and Samuel Kaski and
		  Teuvo Kohonen",
  title = 	 "{WEBSOM} for Textual Data Mining",
  journal =	 "Artificial Intelligence Review",
  year =	 1999,
  volume =	 13,
  pages =	 "345-364"
}

@InProceedings{Kaski99iconip,
  author = 	 {Samuel Kaski and Jarkko Venna and Teuvo Kohonen},
  title = 	 {Coloring that Reveals High-Dimensional Structures in Data},
  booktitle = 	 {Proceedings of ICONIP'99, 6th International
                  Conference on Neural Information Processing},
  pages =	 {729-734},
  publisher =	 {IEEE Service Center},
  year =	 1999,
  editor =	 {T. Gedeon and P. Wong and S. Halgamuge and
                  N. Kasabov and D. Nauck and K. Fukushima},
  volume =	 {II},
  address =	 {Piscataway, NJ}
}

@InProceedings{Kaski99icann,
  author =       {Samuel Kaski},
  title =        {Fast winner search for {SOM}-based monitoring and
                  retrieval of high-dimensional data},
  booktitle =    {Proceedings of ICANN99, Ninth International Conference 
                  on Artificial Neural Networks},
  pages =        {940--945},
  year =         1999,
  volume =       2,
  publisher =    {IEE},
  address =      {London}
}

@InProceedings{Lagus99icann,
  author =       {Krista Lagus and Samuel Kaski},
  title =        {Keyword selection method for characterizing 
                  text document maps},
  booktitle =    {Proceedings of ICANN99, Ninth International Conference 
                  on Artificial Neural Networks},
  pages =        {371--376},
  publisher =    {IEE},
  year =         1999,
  volume =       1,
  address =      {London}
}

@Book{Oja99,
  editor = 	 {Erkki Oja and Samuel Kaski},
  title = 	 {Kohonen Maps},
  publisher = 	 {Elsevier},
  year = 	 1999,
  address =	 {Amsterdam}
}

@InCollection{Kohonen99,
  author = 	 "Teuvo Kohonen and Samuel Kaski and Krista Lagus and
		  Jarkko Saloj{\"a}rvi and Jukka Honkela and Vesa Paatero and
		  Antti Saarela",
  title = 	 "Self organization of a massive text document
		  collection",
  booktitle =	 "Kohonen Maps",
  publisher =	 "Elsevier",
  year =	 1999,
  editor =	 "Erkki Oja and Samuel Kaski",
  pages =	 "171-182",
  address =	 "Amsterdam"
}


@Article{Kaski98ncs,
  author = 	 "Samuel Kaski and Jari Kangas and Teuvo Kohonen",
  title = 	 "Bibliography of Self-Organizing Map ({SOM}) Papers:
		  1981--1997",
  journal =	 "Neural Computing Surveys",
  year =	 1998,
  volume =	 1,
  number =       "3\&4",
  pages =	 "1-176",
  note =	 "Available in electronic form at
		  http://www.icsi.berkeley.edu/\protect$\sim$jagota/NCS/: Vol 1,
		  pp.\ 102--350"
}

@Article{Kaski98,
  author = 	 "Samuel Kaski and Timo Honkela and Krista Lagus and
		  Teuvo Kohonen",
  title = 	 "{WEBSOM}---Self-Organizing Maps of Document
		  Collections",
  journal =	 "Neurocomputing",
  year =	 1998,
  volume =	 21,
  pages =	 "101-117"
}

@TechReport{Kangas98,
  author = 	 "Jari Kangas and Samuel Kaski",
  title = 	 "3043 works that have been based on the
		  Self-Organizing Map ({SOM}) method developed by
		  {K}ohonen",
  institution =  "Helsinki University of Technology, Laboratory of
		  Computer and Information Science",
  year = 	 1998,
  number =	 "A49",
  address =	 "Espoo, Finland",
  month =	 "February"
}

@InCollection{Honkela98deboeck,
  author = 	 "Timo Honkela and Krista Lagus and Samuel Kaski",
  title = 	 "Self-Organizing Maps of Large Document Collections",
  booktitle =	 "Visual Explorations in Finance with Self-Organizing 
		  Maps",
  publisher =	 "Springer",
  year =	 1998,
  editor =	 "Guido Deboeck and Teuvo Kohonen",
  pages =	 "168-178",
  address =	 "London"
}

@InCollection{Kaski98deboeck,
  author = 	 "S. Kaski and T. Kohonen",
  title = 	 "Tips for Processing and Color-coding of
		  Self-Organizing Maps",
  booktitle =	 "Visual Explorations in Finance with Self-Organizing 
		  Maps",
  publisher =	 "Springer",
  year =	 1998,
  editor =	 "Guido Deboeck and Teuvo Kohonen",
  pages =	 "195-202",
  address =	 "London"
}

@InCollection{Kaski98esann,
  author = 	 "Samuel Kaski and Janne Nikkil{\"a} and Teuvo Kohonen",
  title = 	 "Methods for Interpreting a Self-Organized Map in
		  Data Analysis",
  booktitle =	 "Proceedings of ESANN'98, 6th European Symposium on
		  Artificial Neural Networks, Bruges, April 22-24",
  year =	 1998,
  publisher =	 "D-Facto",
  editor =	 "Michel Verleysen",
  pages =	 "185-190",
  address =	 "Brussels, Belgium"
}

@InCollection{Kaski98ijcnn,
  author = 	 "Samuel Kaski",
  title = 	 "Dimensionality Reduction by Random Mapping: Fast
		  Similarity Computation for Clustering",
  booktitle =	 "Proceedings of IJCNN'98, International Joint
		  Conference on Neural Networks",
  publisher =	 "IEEE Service Center",
  year =	 1998,
  pages =	 "413-418",
  volume =       "1",
  address =	 "Piscataway, NJ"
}

@InCollection{Honkela98klass,
  author = 	 "T. Honkela and S. Kaski and T. Kohonen and K. Lagus",
  title = 	 "Self-Organizing Maps of Very Large Document
		  Collections: Justification for the {WEBSOM} method",
  booktitle =	 "Classification, Data Analysis, and Data Highways",
  publisher =	 "Springer",
  year =	 1998,
  editor =	 "I. Balderjahn and R. Mathar and M. Schader",
  pages =	 "245-252",
  address =	 "Berlin"
}

@Article{Kaski98stat,
  author = 	 "S. Kaski and K. Lagus and T. Honkela and T. Kohonen",
  title = 	 "Statistical Aspects of the {WEBSOM} System in
		  Organizing Document Collections",
  journal =	 "Computing Science and Statistics",
  year =	 1998,
  volume =	 29,
  pages =	 "281-290",
  note =	 "(Scott, D. W., ed.), Interface Foundation of North
		  America, Inc.: Fairfax Station, VA"
}

@InCollection{Honkela97wsom,
  author = 	 {Timo Honkela and Samuel Kaski and Krista Lagus and
		  Teuvo Kohonen},
  title = 	 {{WEBSOM}---Self-Organizing Maps of Document Collections},
  booktitle = 	 {Proceedings of WSOM'97, Workshop on Self-Organizing
		  Maps, Espoo, Finland, June 4-6},
  publisher =	 {Helsinki University of Technology, Neural Networks
		  Research Centre},
  year =	 1997,
  address =	 {Espoo, Finland},
  pages =	 {310-315},
}

@InCollection{Kohonen97wsom,
  author = 	 {Teuvo Kohonen and Samuel Kaski and Harri Lappalainen
		  and Jarkko Salojärvi},
  title = 	 {The Adaptive-Subspace Self-Organizing Map ({ASSOM})},
  booktitle = 	 {Proceedings of WSOM'97, Workshop on Self-Organizing
		  Maps, Espoo, Finland, June 4-6},
  publisher =	 {Helsinki University of Technology, Neural Networks
		  Research Centre},
  year =	 1997,
  address =	 {Espoo, Finland},
  pages =	 {191-196}
}

@Article{Sinkkonen97tcm,
  author = 	 "J. Sinkkonen and S. Kaski",
  title = 	 "Topographic Components Model with Adaptive Latencies",
  journal =	 "Neuroimage",
  year =         "1997",
  volume =	 5,
  number =	 4,
  pages =	 "S445",
  note =	 "A. W. Toga and R. S. J. Frackowiak and
		  J. C. Mazziotta (eds.), Proceedings of the Third
		  International Conference on Functional Mapping of
		  the Human Brain, May 19-23 1997, Copenhagen, Denmark"
}

@Article{Kohonen97,
  author = 	 {Teuvo Kohonen and Samuel Kaski and Harri Lappalainen},
  title = 	 {Self-Organized Formation of Various
		  Invariant-Feature Filters in the Adaptive-Subspace {SOM}},
  journal = 	 {Neural Computation},
  year = 	 1997,
  volume =	 9,
  pages =	 {1321-1344}
}

@Article{Kaski97npl,
  author = 	 {Samuel Kaski},
  title = 	 {Computationally Efficient Approximation of a
		  Probabilistic Model for Document Representation in
		  the {WEBSOM} Full-Text Analysis Method},
  journal = 	 {Neural Processing Letters},
  year = 	 1997,
  volume =	 5,
  pages =	 {139-151}
}

@Article{Kaski97thesis,
  author = 	 {Samuel Kaski},
  title = 	 {Data Exploration Using Self-Organizing Maps},
  journal = 	 {Acta Polytechnica Scandinavica, Mathematics,
		  Computing and Management in Engineering Series No.~82},
  year = 	 1997,
  month =	 {March},
  note =	 {Dr.Tech. Thesis, Helsinki University of Technology, Finland}
}

@Article{Sinkkonen96,
  author = 	 {Janne Sinkkonen and Samuel Kaski and Minna
		  Huotilainen and Risto J. Ilmoniemi and Risto
		  N{\"a}{\"a}t{\"a}nen and Kai Kaila},
  title = 	 {Optimal resource allocation for novelty detection in
		  a human auditory memory},
  journal = 	 {Neuroreport},
  year = 	 1996,
  volume =	 7,
  pages =	 {2479-2482}
}

@InCollection{Kaski96wcnn,
  author = 	 {Samuel Kaski and Timo Honkela and Krista Lagus and
		  Teuvo Kohonen},
  title = 	 {Creating an order in digital libraries with
		  self-organizing maps},
  booktitle = 	 {Proceedings of WCNN'96, World Congress on Neural
		  Networks, September 15-18, San Diego, California},
  publisher =	 {Lawrence Erlbaum and INNS Press},
  year =	 1996,
  address =	 {Mahwah, NJ},
  pages =	 {814-817}
}

@InCollection{Lagus96kdd,
  author = 	 {Krista Lagus and Timo Honkela and Samuel Kaski and
		  Teuvo Kohonen},
  title = 	 {Self-organizing maps of document collections: {A}
		  new approach to interactive exploration},
  booktitle = 	 {Proceedings of the Second International Conference
		  on Knowledge Discovery and Data Mining},
  publisher =	 {AAAI Press},
  year =	 1996,
  editor =	 {Evangelios Simoudis and Jiawei Han and Usama Fayyad},
  address =	 {Menlo Park, California},
  pages =	 {238-243}
}

@InCollection{Kangas96,
  author = 	 {Jari Kangas and Samuel Kaski},
  title = 	 {Compression of vector quantization code sequences
		  based on code frequencies and spatial redundancies},
  booktitle = 	 {Proc. ICIP'96, IEEE International Conference on
		  Image Processing, Lausanne, Switzerland, September 16-19},
  publisher =	 {IEEE Service Center},
  year =	 1996,
  volume =	 {III},
  address =	 {Piscataway, NJ},
  pages =	 {463-466}
}

@InCollection{Lagus96step,
  author = 	 {Krista Lagus and Timo Honkela and Samuel Kaski and
		  Teuvo Kohonen},
  title = 	 {{WEBSOM} -- A Status Report},
  booktitle = 	 {Proceedings of STeP'96, Finnish Artificial
		  Intelligence Conference},
  publisher =	 {Finnish Artificial Intelligence Society},
  year =	 1996,
  editor =	 {Jarmo Alander and Timo Honkela and Matti Jakobsson},
  address =	 {Vaasa, Finland},
  pages =	 {73-78}
}

@InCollection{Kohonen96icann,
  author = 	 {Teuvo Kohonen and Samuel Kaski and Krista Lagus and
		  Timo Honkela},
  title = 	 {Very large two-level {SOM} for the browsing of newsgroups},
  booktitle = 	 {Proceedings of ICANN96, International Conference on
		  Artificial Neural Networks, Bochum, Germany, July
		  16-19, 1996},
  publisher =	 {Springer},
  year =	 1996,
  editor =	 {C. von der Malsburg and W. von Seelen and
		  J. C. Vorbr{\"u}ggen and B. Sendhoff},
  series =	 {Lecture Notes in Computer Science, vol. 1112},
  address =	 {Berlin},
  pages =	 {269-274}
}

@InCollection{Kaski96,
  author = 	 {Samuel Kaski and Krista Lagus},
  title = 	 {Comparing Self-Organizing Maps},
  booktitle = 	 {Proceedings of ICANN96, International Conference on
		  Artificial Neural Networks, Bochum, Germany, July
		  16-19},
  publisher =	 {Springer},
  year =	 1996,
  editor =	 {C. von der Malsburg and W. von Seelen and
		  J. C. Vorbr{\"u}ggen and B. Sendhoff},
  series =	 {Lecture Notes in Computer Science, vol. 1112},
  address =	 {Berlin},
  pages =	 {809-814}
}

@InCollection{Honkela96,
  author = 	 {Timo Honkela and Samuel Kaski and Krista Lagus and
		  Teuvo Kohonen},
  title = 	 {Exploration of full-text databases with
		  self-organizing maps},
  booktitle = 	 {Proceedings of the ICNN96, International Conference
		  on Neural Networks},
  publisher =	 {IEEE Service Center},
  year =	 1996,
  volume =	 {I},
  address =	 {Piscataway, NJ},
  pages =	 {56-61}
}

@InCollection{Lagus96,
  author = 	 {Krista Lagus and Samuel Kaski and Timo Honkela and
		  Teuvo Kohonen},
  title = 	 {Browsing digital libraries with the aid of
		  self-organizing maps},
  booktitle = 	 {Proceedings of the Fifth International World Wide
		  Web Conference WWW5, May 6-10, Paris, France},
  publisher =	 {EPGL},
  year =	 1996,
  volume =	 {Poster Proceedings},
  pages =	 {71-79}
}

@Article{Honkela96alma,
  author = 	 {Timo Honkela and Samuel Kaski and Krista Lagus and
		  Teuvo Kohonen},
  title = 	 {Self-organizing maps of document collections},
  journal = 	 {ALMA},
  year = 	 1996,
  volume =	 1,
  number =	 2,
  note =	 {Electronic Journal, address http://www.diemme.it/~luigi/alma.html}
}

@TechReport{Honkela96tr,
  author = 	 {Timo Honkela and Samuel Kaski and Krista Lagus and
		  Teuvo Kohonen},
  title = 	 {Newsgroup exploration with {WEBSOM} method and
		  browsing interface},
  institution =  {Helsinki University of Technology, Laboratory of
		  Computer and Information Science},
  year = 	 1996,
  number =	 {A32},
  address =	 {Espoo, Finland}
}

@InCollection{Kaski96nncm,
  author = 	 {Samuel Kaski and Teuvo Kohonen},
  title = 	 {Exploratory data analysis by the self-organizing
		  map: {S}tructures of welfare and poverty in the world},
  booktitle = 	 {Neural Networks in Financial
		  Engineering. Proceedings of the Third International
		  Conference on Neural Networks in the Capital
		  Markets, London, England, 11-13 October, 1995},
  publisher =	 {World Scientific},
  year =	 1996,
  editor =	 {Apostolos-Paul N. Refenes and Yaser Abu-Mostafa and
		  John Moody and Andreas Weigend},
  address =	 {Singapore},
  pages =	 {498-507}
}

@Article{Joutsiniemi95,
  author = 	 "Sirkka-Liisa Joutsiniemi and Samuel Kaski and Andreo Larsen",
  title = 	 "Self-organizing map in recognition of topographic
		  patterns of {EEG} spectra",
  journal =	 "IEEE Transactions on Biomedical Engineering",
  year =	 1995,
  volume =	 42,
  pages =	 "1062-1068"
}

@TechReport{Kaski95,
  author = 	 "Samuel Kaski and Teuvo Kohonen",
  title = 	 "Structures of Welfare and Poverty in the World
		  Discovered by the Self-Organizing Map",
  institution =  "Helsinki University of Technology, Laboratory of
		  Computer and Information Science",
  year = 	 1995,
  number =	 "A24",
  address =	 "Espoo, Finland"
}

@InCollection{Iivarinen94,
  author = 	 "Jukka Iivarinen and Teuvo Kohonen and Jari Kangas
		  and Sami Kaski",
  title = 	 "Visualizing the clusters on the self-organizing map",
  number = 	 "12",
  series = 	 "Publications of the Finnish Artificial Intelligence Society",
  booktitle =    "Proceedings of the Conference on Artificial
		  Intelligence Research in Finland",
  editor = 	 "Christer Carlsson and Timo J{\"{a}}rvi and Tapio Reponen",
  publisher =	 "Finnish Artificial Intelligence Society",
  address = 	 "Helsinki, Finland",
  year =	 1994,
  pages =	 "122-126"
}

@Article{Kaski94NN,
  author = 	 "Samuel Kaski and Teuvo Kohonen",
  title = 	 "Winner-Take-All Networks for physiological
		  models of competitive learning",
  journal =	 "Neural Networks",
  year =	 1994,
  volume =	 7,
  OPTnumber =	 "6/7",
  pages =	 "973-984"
}

@MastersThesis{Kaski93dityo,
  author = 	 "Samuel Kaski",
  title = 	 "Hermoverkkomalleissa tapahtuvaan kilpailuoppimiseen
		  liittyv{\"a}t mekanismit ({M}echanisms connected with
		  competitive learning in neural network models)",
  school = 	 "Helsinki University of Technology",
  year = 	 1993,
  note =	 "(In Finnish)"
}

@InProceedings{Portin93,
  author = 	"Karin Portin and Riitta Salmelin and Samuel Kaski",
  title = 	"Analysis of magnetoencephalographic data with
		 self-organizing maps",
  booktitle =	"Proceedings of the XXVII Annual Conference of the
		 Finnish Physical Society",
  year = 	1993,
  editor = 	"T. Kuusela",
  pages = 	"15.2",
  publisher =	 "Finnish Physical Society",
  address = 	"Turku",
  note =	 "Report TURKU-SFL-R5, Department of Applied Physics,
		 University of Turku"
}

@InProceedings{Kaski93,
  author = 	"Samuel Kaski and Sirkka-Liisa Joutsiniemi",
  title = 	"Monitoring {EEG} signal with the self-organizing map",
  booktitle =	"Proceedings of the International Conference on
		  Artificial Neural Networks ({ICANN93}), Amsterdam,
		  September 13-16",
  year = 	1993,
  editor =	"Stan Gielen and Bert Kappen",
  pages =	"974-977",
  publisher =	 "Springer-Verlag",
  address =	 "London"
}

@MastersThesis{Kaski92gradu,
  author = 	 "Samuel Kaski",
  title = 	 "Viivemukautuvat topografiset komponentit:
		  Tunto{\"a}rsykkeisiin liittyv{\"a}t aivojen
		  j{\"a}nnitevasteet uudella menetelm{\"a}ll{\"a}
		  analysoituina ({L}atency-adjusting topographic
		  components model: {A}n analysis of somatosensory
		  evoked potentials with a novel method)",
  school = 	 "University of Helsinki",
  year = 	 1992,
  note =	 "(In Finnish)"
}

@InProceedings{Utela92SteP,
  author =      "Pekka Utela and Kari Torkkola and Lea Leinonen and
                 Jari Kangas and Samuel Kaski and Teuvo Kohonen",
  title =       "Speech Recognition and Analysis",
  booktitle =   "Proceedings of the Fifth Finnish Artificial Intelligence
                 Conference (SteP-92): New Directions in Artificial
                 Intelligence, Espoo, Finland, June 9-11",
  year =        1992,
  pages =       "178-182",
  volume =      2,
  publisher = "Finnish Artificial Intelligence Society (FAIS)"
}

@InProceedings{Utela92,
  author = 	"Pekka Utela and Samuel Kaski and Kari Torkkola",
  title = 	"Using phoneme group specific {LVQ}-codebooks with {HMM}s",
  booktitle =	"Proceedings of the 1992 International Conference on
		 spoken language processing (ICSLP 92). Banff,
		 Alberta, Canada, October 12-16",
  year = 	1992,
  pages = 	"551-554",
  publisher =	"Personal Publishing Ltd.",
  address = 	"Edmonton, Canada"
}

@InProceedings{Kohonen92a,
  author = 	"Teuvo Kohonen and Samuel Kaski",
  title = 	"The Self-Organizing Map as a model for the
		 formation of memory representations",
  booktitle =	"Abstracts of the 15th Annual Meeting of the European
		 Neuroscience Association. Munich, September 13-17",
  year = 	1992,
  pages = 	280,
  publisher =	"Oxford University Press",
  note = 	"Supplement No. 5 to the European Journal of Neuroscience"
}

@InProceedings{Torkkola91icann,
  author = 	"Kari Torkkola and Jari Kangas and Pekka Utela and Sami Kaski
		and Mikko Kokkonen and Mikko Kurimo and Teuvo Kohonen",
  title = 	"Status Report of the {F}innish Phonetic Typewriter Project",
  booktitle = 	"Artificial Neural Networks",
  year = 	1991,
  pages = 	"771-776",
  editor =	 "T. Kohonen and K. Mäkisara and O. Simula and J. Kangas",
  publisher = 	"North-Holland",
  address =	 "Amsterdam"
}