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Items: 1 to 20 of 51

1.

Sparse group factor analysis for biclustering of multiple data sources.

Bunte K, Leppäaho E, Saarinen I, Kaski S.

Bioinformatics. 2016 Apr 19. pii: btw207. [Epub ahead of print]

PMID:
27153643
2.

Modelling-based experiment retrieval: a case study with gene expression clustering.

Blomstedt P, Dutta R, Seth S, Brazma A, Kaski S.

Bioinformatics. 2016 May 1;32(9):1388-94. doi: 10.1093/bioinformatics/btv762. Epub 2016 Jan 6.

PMID:
26740526
3.

On the Identifiability of Transmission Dynamic Models for Infectious Diseases.

Lintusaari J, Gutmann MU, Kaski S, Corander J.

Genetics. 2016 Mar;202(3):911-8. doi: 10.1534/genetics.115.180034. Epub 2016 Jan 6.

PMID:
26739450
4.

Toward the Replacement of Animal Experiments through the Bioinformatics-driven Analysis of 'Omics' Data from Human Cell Cultures.

Grafström RC, Nymark P, Hongisto V, Spjuth O, Ceder R, Willighagen E, Hardy B, Kaski S, Kohonen P.

Altern Lab Anim. 2015 Nov;43(5):325-32.

5.

Kernelized Bayesian Matrix Factorization.

Gönen M, Kaski S.

IEEE Trans Pattern Anal Mach Intell. 2014 Oct;36(10):2047-60. doi: 10.1109/TPAMI.2014.2313125.

PMID:
26352634
6.

Towards brain-activity-controlled information retrieval: Decoding image relevance from MEG signals.

Kauppi JP, Kandemir M, Saarinen VM, Hirvenkari L, Parkkonen L, Klami A, Hari R, Kaski S.

Neuroimage. 2015 May 15;112:288-98. doi: 10.1016/j.neuroimage.2014.12.079. Epub 2015 Jan 13.

PMID:
25595505
7.

Group Factor Analysis.

Klami A, Virtanen S, Leppäaho E, Kaski S.

IEEE Trans Neural Netw Learn Syst. 2015 Sep;26(9):2136-47. doi: 10.1109/TNNLS.2014.2376974. Epub 2014 Dec 18.

PMID:
25532193
8.

Toward computational cumulative biology by combining models of biological datasets.

Faisal A, Peltonen J, Georgii E, Rung J, Kaski S.

PLoS One. 2014 Nov 26;9(11):e113053. doi: 10.1371/journal.pone.0113053. eCollection 2014.

9.

Identification of structural features in chemicals associated with cancer drug response: a systematic data-driven analysis.

Khan SA, Virtanen S, Kallioniemi OP, Wennerberg K, Poso A, Kaski S.

Bioinformatics. 2014 Sep 1;30(17):i497-504. doi: 10.1093/bioinformatics/btu456.

10.

Stronger findings for metabolomics through Bayesian modeling of multiple peaks and compound correlations.

Suvitaival T, Rogers S, Kaski S.

Bioinformatics. 2014 Sep 1;30(17):i461-7. doi: 10.1093/bioinformatics/btu455.

11.

Integrative and personalized QSAR analysis in cancer by kernelized Bayesian matrix factorization.

Ammad-ud-din M, Georgii E, Gönen M, Laitinen T, Kallioniemi O, Wennerberg K, Poso A, Kaski S.

J Chem Inf Model. 2014 Aug 25;54(8):2347-59. doi: 10.1021/ci500152b. Epub 2014 Aug 6.

PMID:
25046554
12.

Stronger findings from mass spectral data through multi-peak modeling.

Suvitaival T, Rogers S, Kaski S.

BMC Bioinformatics. 2014 Jun 19;15:208. doi: 10.1186/1471-2105-15-208.

13.

A community effort to assess and improve drug sensitivity prediction algorithms.

Costello JC, Heiser LM, Georgii E, Gönen M, Menden MP, Wang NJ, Bansal M, Ammad-ud-din M, Hintsanen P, Khan SA, Mpindi JP, Kallioniemi O, Honkela A, Aittokallio T, Wennerberg K; NCI DREAM Community, Collins JJ, Gallahan D, Singer D, Saez-Rodriguez J, Kaski S, Gray JW, Stolovitzky G.

Nat Biotechnol. 2014 Dec;32(12):1202-12. doi: 10.1038/nbt.2877. Epub 2014 Jun 1.

14.

Exploration and retrieval of whole-metagenome sequencing samples.

Seth S, Välimäki N, Kaski S, Honkela A.

Bioinformatics. 2014 Sep 1;30(17):2471-9. doi: 10.1093/bioinformatics/btu340. Epub 2014 May 19.

15.

Probabilistic drug connectivity mapping.

Parkkinen JA, Kaski S.

BMC Bioinformatics. 2014 Apr 17;15:113. doi: 10.1186/1471-2105-15-113.

16.

Assessing multivariate gene-metabolome associations with rare variants using Bayesian reduced rank regression.

Marttinen P, Pirinen M, Sarin AP, Gillberg J, Kettunen J, Surakka I, Kangas AJ, Soininen P, O'Reilly P, Kaakinen M, Kähönen M, Lehtimäki T, Ala-Korpela M, Raitakari OT, Salomaa V, Järvelin MR, Ripatti S, Kaski S.

Bioinformatics. 2014 Jul 15;30(14):2026-34. doi: 10.1093/bioinformatics/btu140. Epub 2014 Mar 24.

17.

Genome-wide association studies with high-dimensional phenotypes.

Marttinen P, Gillberg J, Havulinna A, Corander J, Kaski S.

Stat Appl Genet Mol Biol. 2013 Aug;12(4):413-31. doi: 10.1515/sagmb-2012-0032.

PMID:
23759510
18.

Targeted retrieval of gene expression measurements using regulatory models.

Georgii E, Salojärvi J, Brosché M, Kangasjärvi J, Kaski S.

Bioinformatics. 2012 Sep 15;28(18):2349-56. Epub 2012 Jun 27.

19.

Comprehensive data-driven analysis of the impact of chemoinformatic structure on the genome-wide biological response profiles of cancer cells to 1159 drugs.

Khan SA, Faisal A, Mpindi JP, Parkkinen JA, Kalliokoski T, Poso A, Kallioniemi OP, Wennerberg K, Kaski S.

BMC Bioinformatics. 2012 May 30;13:112. doi: 10.1186/1471-2105-13-112.

20.

Identifying fragments of natural speech from the listener's MEG signals.

Koskinen M, Viinikanoja J, Kurimo M, Klami A, Kaski S, Hari R.

Hum Brain Mapp. 2013 Jun;34(6):1477-89. doi: 10.1002/hbm.22004. Epub 2012 Feb 17.

PMID:
22344824
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