Bioinformatics, 1367-4803

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  1. 2019
  2. SMSSVD: SubMatrix Selection Singular Value Decomposition

    Rasmus Henningsson & Fontes, M., 2019, In : Bioinformatics (Oxford, England). 35, 3, p. 478-486 9 p.

    Research output: Contribution to journalArticle

  3. Uncertainty quantification, propagation and characterization by Bayesian analysis combined with global sensitivity analysis applied to dynamical intracellular pathway models

    Eriksson, O., Jauhiainen, A., Sara Maad Sasane, Kramer, A., Nair, A. G., Sartorius, C. & Hellgren Kotaleski, J., 2019, In : Bioinformatics (Oxford, England). 35, 2, p. 284-292 9 p.

    Research output: Contribution to journalArticle

  4. 2017
  5. LoFtool: a gene intolerance score based on loss-of-function variants in 60 706 individuals

    Fadista, J., Nikolay Oskolkov, Ola Hansson & Leif Groop, 2017, In : Bioinformatics. 33, 4, p. 471-474

    Research output: Contribution to journalArticle

  6. 2016
  7. PON-Sol: Prediction of effects of amino acid substitutions on protein solubility

    Yang, Y., Abhishek Niroula, Shen, B. & Mauno Vihinen, 2016 Jul 1, In : Bioinformatics. 32, 13, p. 2032-2034

    Research output: Contribution to journalArticle

  8. 2015
  9. Automatic determination of NET (neutrophil extracellular traps) coverage in fluorescent microscopy images

    Coelho, L. P., Pato, C., Friães, A., Neumann, A., von Köckritz-Blickwede, M., Ramirez, M. & Carriço, J. A., 2015 Jul 15, In : Bioinformatics. 31, 14, p. 2364-70 7 p.

    Research output: Contribution to journalArticle

  10. DIANA - algorithmic improvements for analysis of data-independent acquisition MS data.

    Teleman, J., Röst, H., Rosenberger, G., Schmitt, U., Malmström, L., Johan Malmström & Fredrik Levander, 2015, In : Bioinformatics. 31, 4, p. 555-562

    Research output: Contribution to journalArticle

  11. EVpedia: A Community Web Portal for Extracellular Vesicles Research.

    Kim, D-K., Lee, J., Kim, S. R., Choi, D-S., Yoon, Y. J., Kim, J. H., Go, G., Nhung, D., Hong, K., Jang, S. C., Kim, S-H., Park, K-S., Kim, O. Y., Park, H. T., Seo, J. H., Aikawa, E., Baj-Krzyworzeka, M., van Balkom, B. W. M., Belting, M., Blanc, L. & 75 othersBond, V., Bongiovanni, A., Borràs, F. E., Buée, L., Buzás, E. I., Cheng, L., Clayton, A., Cocucci, E., Dela Cruz, C. S., Desiderio, D. M., Di Vizio, D., Ekström, K., Falcon-Perez, J. M., Gardiner, C., Giebel, B., Greening, D. W., Gross, J. C., Gupta, D., Hendrix, A., Hill, A. F., Hill, M. M., Nolte-'t Hoen, E., Hwang, D. W., Inal, J., Jagannadham, M. V., Jayachandran, M., Jee, Y-K., Jørgensen, M., Kim, K. P., Kim, Y-K., Kislinger, T., Lässer, C., Lee, D. S., Lee, H., van Leeuwen, J., Lener, T., Liu, M-L., Lötvall, J., Marcilla, A., Mathivanan, S., Möller, A., Morhayim, J., Mullier, F., Nazarenko, I., Nieuwland, R., Nunes, D. N., Pang, K., Park, J., Patel, T., Pocsfalvi, G., Del Portillo, H., Putz, U., Ramirez, M. I., Rodrigues, M. L., Roh, T-Y., Royo, F., Sahoo, S., Schiffelers, R., Sharma, S., Siljander, P., Simpson, R. J., Soekmadji, C., Stahl, P., Stensballe, A., Stępień, E., Tahara, H., Trummer, A., Valadi, H., Vella, L. J., Wai, S. N., Witwer, K., Yáñez-Mó, M., Youn, H., Zeidler, R. & Gho, Y. S., 2015, In : Bioinformatics. 31, 6, p. 933-939

    Research output: Contribution to journalArticle

  12. 2013
  13. SBSI: an extensible distributed software infrastructure for parameter estimation in systems biology

    Adams, R., Clark, A., Yamaguchi, A., Hanlon, N., Tsorman, N., Ali, S., Lebedeva, G., Goltsov, A., Sorokin, A., Akman, O. E., Carl Troein, Millar, A. J., Goryanin, I. & Gilmore, S., 2013, In : Bioinformatics. 29, 5, p. 664-665

    Research output: Contribution to journalArticle

  14. Ultranet: efficient solver for the sparse inverse covariance selection problem in gene network modeling.

    Järvstråt, L., Johansson, M., Urban Gullberg & Nilsson, B., 2013, In : Bioinformatics. 29, 4, p. 511-512

    Research output: Contribution to journalArticle

  15. 2012
  16. Analysis of case-control association studies with known risk variants

    Zaitlen, N., Pasaniuc, B., Patterson, N., Pollack, S., Voight, B., Leif Groop, Altshuler, D., Henderson, B. E., Kolonel, L. N., Le Marchand, L., Waters, K., Haiman, C. A., Stranger, B. E., Dermitzakis, E. T., Kraft, P. & Price, A. L., 2012, In : Bioinformatics. 28, 13, p. 1729-1737

    Research output: Contribution to journalArticle

  17. 2009
  18. Modified variational bayes EM estimation of hidden markov tree model of cell lineages

    Victor Olariu, Coca, D., Billings, S. A., Tonge, P., Gokhale, P., Andrews, P. W. & Kadirkamanathan, V., 2009 Nov 1, In : Bioinformatics. 25, 21, p. 2824-2830 7 p.

    Research output: Contribution to journalArticle

  19. RAMI: a tool for identification and characterization of phylogenetic clusters in microbial communities

    Pommier, T., Canback, B., Per Lundberg, Hagstrom, A. & Anders Tunlid, 2009, In : Bioinformatics. 25, 6, p. 736-742

    Research output: Contribution to journalArticle

  20. Ultrasome: efficient aberration caller for copy number studies of ultra-high resolution

    Björn Nilsson, Johansson, M., Al-Shahrour, F., Carpenter, A. E. & Ebert, B. L., 2009, In : Bioinformatics. 25, 8, p. 1078-1079

    Research output: Contribution to journalArticle

  21. 2008
  22. Model-based prediction of sequence alignment quality.

    Ahola, V., Aittokallio, T., Mauno Vihinen & Uusipaikka, E., 2008, In : Bioinformatics. 24, 19, p. 2165-2171

    Research output: Contribution to journalArticle

  23. 2007
  24. Continuous-index hidden Markov modelling of array CGH copy number data.

    Stjernqvist, S., Rydén, T., Sköld, M. & Johan Staaf, 2007, In : Bioinformatics. 23, p. 1006-1014

    Research output: Contribution to journalArticle

  25. Multiple spaced seeds for homology search

    Ilie, L. & Ilie, S., 2007, In : Bioinformatics. 23, 22, p. 2969-2977

    Research output: Contribution to journalArticle

  26. Regression analysis and modelling of data acquisition for SELDI-TOF mass spectrometry.

    Sköld, M., Rydén, T., Samuelsson, V., Charlotte Welinder, Lars Ekblad, Håkan Olsson & Bo Baldetorp, 2007, In : Bioinformatics. 23, 11, p. 1401-1409

    Research output: Contribution to journalArticle

  27. Robust smooth segmentation approach for array CGH data analysis

    Huang, J., Gusnanto, A., O'Sullivan, K., Johan Staaf, Åke Borg & Pawitan, Y., 2007, In : Bioinformatics. 23, 18, p. 2463-2469

    Research output: Contribution to journalArticle

  28. 2005
  29. CoGenT++: an extensive and extensible data environment for computational genomics

    Goldovsky, L., Janssen, P., Dag Ahrén, Audit, B., Cases, I., Darzentas, N., Enright, A., López-Bigas, N., Peregrin-Alvarez, J., Smith, M., Tsoka, S., Kunin, V. & Ouzounis, C., 2005, In : Bioinformatics. 21, 19, p. 3806-3810

    Research output: Contribution to journalArticle

  30. Modeling the organization of the WUSCHEL expression domain in the shoot apical meristem

    Henrik Jönsson, Heisler, M., Reddy, GV., Agrawal, V., Gor, V., Shapiro, BE., Mjolsness, E. & Meyerowitz, EM., 2005, In : Bioinformatics. 21, Suppl 1, p. I232-I240

    Research output: Contribution to journalArticle

  31. PROTEIOS: an open source proteomics initiative

    Gärdén, P., Alm, R. & Jari Häkkinen, 2005, In : Bioinformatics. 21, 9, p. 2085-2087

    Research output: Contribution to journalArticle

  32. 2004
  33. ACID: a database for microarray clone information

    Markus Ringnér, Srinivas Veerla, Andersson, S., Johan Staaf & Jari Häkkinen, 2004, In : Bioinformatics. 20, 14, p. 2305-2306

    Research output: Contribution to journalArticle

  34. Approximate geodesic distances reveal biologically relevant structures in microarray data

    Nilsson, J., Thoas Fioretos, Mattias Höglund & Fontes, M., 2004, In : Bioinformatics. 20, 6, p. 874-880

    Research output: Contribution to journalArticle

  35. Modular, scriptable and automated analysis tools for high-throughput peptide mass fingerprinting

    Samuelsson, J., Dalevi, D., Fredrik Levander & Rognvaldsson, T., 2004, In : Bioinformatics. 20, 18, p. 3628-3635

    Research output: Contribution to journalArticle

  36. 2003
  37. Efficient estimation of emission probabilities in profile hidden Markov models.

    Ahola, V., Aittokallio, T., Uusipaikka, E. & Mauno Vihinen, 2003, In : Bioinformatics. 19, 18, p. 2359-2368

    Research output: Contribution to journalArticle

  38. RankViaContact: ranking and visualization of amino acid contacts.

    Shen, B. & Mauno Vihinen, 2003, In : Bioinformatics. 19, 16, p. 2161-2162

    Research output: Contribution to journalArticle

  39. 2002
  40. A novel approach to local reliability of sequence alignments.

    Schlosshauer, M. & Mattias Ohlsson, 2002, In : Bioinformatics. 18, 6, p. 847-854

    Research output: Contribution to journalArticle

  41. 2001
  42. BioWAP, mobile Internet service for bioinformatics

    Riikonen, P., Boberg, J., Salakoski, T. & Mauno Vihinen, 2001, In : Bioinformatics. 17, 9, p. 855-856

    Research output: Contribution to journalArticle

  43. 1999
  44. MUTbase: maintenance and analysis of distributed mutation databases

    Riikonen, P. & Mauno Vihinen, 1999, In : Bioinformatics. 15, 10, p. 852-859

    Research output: Contribution to journalArticle

  45. 1995
  46. MIST - A user-friendly metabolic simulator

    Ehlde, M. & Guido Zacchi, 1995, In : Computer Applications in the Biosciences. 11, 2, p. 201-207

    Research output: Contribution to journalArticle

  47. 1992
  48. MULTICOMP - A PROGRAM PACKAGE FOR MULTIPLE SEQUENCE COMPARISON

    Mauno Vihinen, EURANTO, A., LUOSTARINEN, P. & NEVALAINEN, O., 1992, In : Computer Applications in the Biosciences. 8, 1, p. 35-38

    Research output: Contribution to journalArticle

  49. 1988
  50. AN ALGORITHM FOR SIMULTANEOUS COMPARISON OF SEVERAL SEQUENCES

    Mauno Vihinen, 1988, In : Computer Applications in the Biosciences. 4, 1, p. 89-92

    Research output: Contribution to journalArticle