Knijnenburg TA - Search Results

1

Creating gene set activity profiles with time-series expression data.

Knijnenburg TA, Wessels LF, Reinders MJ. Knijnenburg TA, et al. Int J Bioinform Res Appl. 2008;4(3):306-23. doi: 10.1504/IJBRA.2008.019577. Int J Bioinform Res Appl. 2008. PMID: 18640906

2

Combinatorial influence of environmental parameters on transcription factor activity.

Knijnenburg TA, Wessels LF, Reinders MJ. Knijnenburg TA, et al. Bioinformatics. 2008 Jul 1;24(13):i172-81. doi: 10.1093/bioinformatics/btn155. Bioinformatics. 2008. PMID: 18586711 Free PMC article.

3

Integration of known transcription factor binding site information and gene expression data to advance from co-expression to co-regulation.

Clements M, van Someren EP, Knijnenburg TA, Reinders MJ. Clements M, et al. Among authors: knijnenburg ta. Genomics Proteomics Bioinformatics. 2007 May;5(2):86-101. doi: 10.1016/S1672-0229(07)60019-9. Genomics Proteomics Bioinformatics. 2007. PMID: 17893074 Free PMC article.

4

Combinatorial effects of environmental parameters on transcriptional regulation in Saccharomyces cerevisiae: a quantitative analysis of a compendium of chemostat-based transcriptome data.

Knijnenburg TA, Daran JM, van den Broek MA, Daran-Lapujade PA, de Winde JH, Pronk JT, Reinders MJ, Wessels LF. Knijnenburg TA, et al. BMC Genomics. 2009 Jan 27;10:53. doi: 10.1186/1471-2164-10-53. BMC Genomics. 2009. PMID: 19173729 Free PMC article.

5

Exploiting combinatorial cultivation conditions to infer transcriptional regulation.

Knijnenburg TA, de Winde JH, Daran JM, Daran-Lapujade P, Pronk JT, Reinders MJ, Wessels LF. Knijnenburg TA, et al. BMC Genomics. 2007 Jan 22;8:25. doi: 10.1186/1471-2164-8-25. BMC Genomics. 2007. PMID: 17241460 Free PMC article.

6

Generic and specific transcriptional responses to different weak organic acids in anaerobic chemostat cultures of Saccharomyces cerevisiae.

Abbott DA, Knijnenburg TA, de Poorter LM, Reinders MJ, Pronk JT, van Maris AJ. Abbott DA, et al. Among authors: knijnenburg ta. FEMS Yeast Res. 2007 Sep;7(6):819-33. doi: 10.1111/j.1567-1364.2007.00242.x. Epub 2007 Apr 30. FEMS Yeast Res. 2007. PMID: 17484738

7

Quantitative proteomics and transcriptomics of anaerobic and aerobic yeast cultures reveals post-transcriptional regulation of key cellular processes.

de Groot MJL, Daran-Lapujade P, van Breukelen B, Knijnenburg TA, de Hulster EAF, Reinders MJT, Pronk JT, Heck AJR, Slijper M. de Groot MJL, et al. Among authors: knijnenburg ta. Microbiology (Reading). 2007 Nov;153(Pt 11):3864-3878. doi: 10.1099/mic.0.2007/009969-0. Microbiology (Reading). 2007. PMID: 17975095 Free article.

8

Fewer permutations, more accurate P-values.

Knijnenburg TA, Wessels LF, Reinders MJ, Shmulevich I. Knijnenburg TA, et al. Bioinformatics. 2009 Jun 15;25(12):i161-8. doi: 10.1093/bioinformatics/btp211. Bioinformatics. 2009. PMID: 19477983 Free PMC article.

9

A multilevel pan-cancer map links gene mutations to cancer hallmarks.

Knijnenburg TA, Bismeijer T, Wessels LF, Shmulevich I. Knijnenburg TA, et al. Chin J Cancer. 2015 Sep 14;34(10):439-49. doi: 10.1186/s40880-015-0050-6. Chin J Cancer. 2015. PMID: 26369414 Free PMC article.

10

A Landscape of Pharmacogenomic Interactions in Cancer.

Iorio F, Knijnenburg TA, Vis DJ, Bignell GR, Menden MP, Schubert M, Aben N, Gonçalves E, Barthorpe S, Lightfoot H, Cokelaer T, Greninger P, van Dyk E, Chang H, de Silva H, Heyn H, Deng X, Egan RK, Liu Q, Mironenko T, Mitropoulos X, Richardson L, Wang J, Zhang T, Moran S, Sayols S, Soleimani M, Tamborero D, Lopez-Bigas N, Ross-Macdonald P, Esteller M, Gray NS, Haber DA, Stratton MR, Benes CH, Wessels LFA, Saez-Rodriguez J, McDermott U, Garnett MJ. Iorio F, et al. Among authors: knijnenburg ta. Cell. 2016 Jul 28;166(3):740-754. doi: 10.1016/j.cell.2016.06.017. Epub 2016 Jul 7. Cell. 2016. PMID: 27397505 Free PMC article.

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