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Results: 1 to 20 of 89

1.

Quantitative analysis of colony morphology in yeast.

Ruusuvuori P, Lin J, Scott AC, Tan Z, Sorsa S, Kallio A, Nykter M, Yli-Harja O, Shmulevich I, Dudley AM.

Biotechniques. 2014 Jan;56(1):18-27. doi: 10.2144/000114123.

PMID:
24447135
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Effects of multimerization on the temporal variability of protein complex abundance.

Häkkinen A, Tran H, Yli-Harja O, Ingalls B, Ribeiro AS.

BMC Syst Biol. 2013;7 Suppl 1:S3. doi: 10.1186/1752-0509-7-S1-S3. Epub 2013 Aug 12.

PMID:
24267954
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Characterization of aberrant pathways across human cancers.

Ylipää A, Yli-Harja O, Zhang W, Nykter M.

BMC Syst Biol. 2013;7 Suppl 1:S1. doi: 10.1186/1752-0509-7-S1-S1. Epub 2013 Aug 12.

PMID:
24267866
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Cell segmentation by multi-resolution analysis and maximum likelihood estimation (MAMLE).

Chowdhury S, Kandhavelu M, Yli-Harja O, Ribeiro AS.

BMC Bioinformatics. 2013;14 Suppl 10:S8. doi: 10.1186/1471-2105-14-S10-S8. Epub 2013 Aug 12.

PMID:
24267594
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Multi-scale Gaussian representation and outline-learning based cell image segmentation.

Farhan M, Ruusuvuori P, Emmenlauer M, Rämö P, Dehio C, Yli-Harja O.

BMC Bioinformatics. 2013;14 Suppl 10:S6. doi: 10.1186/1471-2105-14-S10-S6. Epub 2013 Aug 12.

PMID:
24267488
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

ZebIAT, an image analysis tool for registering zebrafish embryos and quantifying cancer metastasis.

Annila T, Lihavainen E, Marques IJ, Williams DR, Yli-Harja O, Ribeiro A.

BMC Bioinformatics. 2013;14 Suppl 10:S5. doi: 10.1186/1471-2105-14-S10-S5. Epub 2013 Aug 12.

PMID:
24267347
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

ESTOOLS Data@Hand: human stem cell gene expression resource.

Kong L, Aho KL, Granberg K, Lund R, Järvenpää L, Seppälä J, Gokhale P, Leinonen K, Hahne L, Mäkelä J, Laurila K, Pukkila H, Närvä E, Yli-Harja O, Andrews PW, Nykter M, Lahesmaa R, Roos C, Autio R.

Nat Methods. 2013 Sep;10(9):814-5. doi: 10.1038/nmeth.2576. No abstract available.

PMID:
23985726
[PubMed - indexed for MEDLINE]
8.

Effects of rate-limiting steps in transcription initiation on genetic filter motifs.

Häkkinen A, Tran H, Yli-Harja O, Ribeiro AS.

PLoS One. 2013 Aug 5;8(8):e70439. doi: 10.1371/journal.pone.0070439. Print 2013.

PMID:
23940576
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

NanoMiner - integrative human transcriptomics data resource for nanoparticle research.

Kong L, Tuomela S, Hahne L, Ahlfors H, Yli-Harja O, Fadeel B, Lahesmaa R, Autio R.

PLoS One. 2013 Jul 12;8(7):e68414. doi: 10.1371/journal.pone.0068414. Print 2013.

PMID:
23874618
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

In vivo single-molecule kinetics of activation and subsequent activity of the arabinose promoter.

Mäkelä J, Kandhavelu M, Oliveira SM, Chandraseelan JG, Lloyd-Price J, Peltonen J, Yli-Harja O, Ribeiro AS.

Nucleic Acids Res. 2013 Jul;41(13):6544-52. doi: 10.1093/nar/gkt350. Epub 2013 May 3.

PMID:
23644285
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

The tumorigenic FGFR3-TACC3 gene fusion escapes miR-99a regulation in glioblastoma.

Parker BC, Annala MJ, Cogdell DE, Granberg KJ, Sun Y, Ji P, Li X, Gumin J, Zheng H, Hu L, Yli-Harja O, Haapasalo H, Visakorpi T, Liu X, Liu CG, Sawaya R, Fuller GN, Chen K, Lang FF, Nykter M, Zhang W.

J Clin Invest. 2013 Feb 1;123(2):855-65. doi: 10.1172/JCI67144. Epub 2013 Jan 9.

PMID:
23298836
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Regulation of mean and noise of the in vivo kinetics of transcription under the control of the lac/ara-1 promoter.

Kandhavelu M, Lloyd-Price J, Gupta A, Muthukrishnan AB, Yli-Harja O, Ribeiro AS.

FEBS Lett. 2012 Nov 2;586(21):3870-5. doi: 10.1016/j.febslet.2012.09.014. Epub 2012 Sep 24.

PMID:
23017207
[PubMed - indexed for MEDLINE]
Free Article
13.

Transcriptome and small RNA deep sequencing reveals deregulation of miRNA biogenesis in human glioma.

Moore LM, Kivinen V, Liu Y, Annala M, Cogdell D, Liu X, Liu CG, Sawaya R, Yli-Harja O, Shmulevich I, Fuller GN, Zhang W, Nykter M.

J Pathol. 2013 Feb;229(3):449-59. doi: 10.1002/path.4109.

PMID:
23007860
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Effects of codon sequence on the dynamics of genetic networks.

Potapov I, Mäkelä J, Yli-Harja O, Ribeiro AS.

J Theor Biol. 2012 Dec 21;315:17-25. doi: 10.1016/j.jtbi.2012.08.029. Epub 2012 Aug 31.

PMID:
22960571
[PubMed - indexed for MEDLINE]
15.

Dynamics of transcription driven by the tetA promoter, one event at a time, in live Escherichia coli cells.

Muthukrishnan AB, Kandhavelu M, Lloyd-Price J, Kudasov F, Chowdhury S, Yli-Harja O, Ribeiro AS.

Nucleic Acids Res. 2012 Sep 1;40(17):8472-83. Epub 2012 Jun 22.

PMID:
22730294
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Single-molecule dynamics of transcription of the lar promoter.

Kandhavelu M, Häkkinen A, Yli-Harja O, Ribeiro AS.

Phys Biol. 2012;9(2):026004. doi: 10.1088/1478-3975/9/2/026004. Epub 2012 Apr 4.

PMID:
22475987
[PubMed - indexed for MEDLINE]
17.

Dynamics of transcription of closely spaced promoters in Escherichia coli, one event at a time.

Martins L, Mäkelä J, Häkkinen A, Kandhavelu M, Yli-Harja O, Fonseca JM, Ribeiro AS.

J Theor Biol. 2012 May 21;301:83-94. doi: 10.1016/j.jtbi.2012.02.015. Epub 2012 Feb 20.

PMID:
22370562
[PubMed - indexed for MEDLINE]
18.

Asymmetric disposal of individual protein aggregates in Escherichia coli, one aggregate at a time.

Lloyd-Price J, Häkkinen A, Kandhavelu M, Marques IJ, Chowdhury S, Lihavainen E, Yli-Harja O, Ribeiro AS.

J Bacteriol. 2012 Apr;194(7):1747-52. doi: 10.1128/JB.06500-11. Epub 2012 Jan 27.

PMID:
22287517
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Effects of Mg(2+) on in vivo transcriptional dynamics of the lar promoter.

Kandhavelu M, Lihavainen E, Muthukrishnan AB, Yli-Harja O, Ribeiro AS.

Biosystems. 2012 Mar;107(3):129-34. doi: 10.1016/j.biosystems.2011.11.001. Epub 2011 Nov 9.

PMID:
22101250
[PubMed - indexed for MEDLINE]
20.

An interacting multiple model filter-based autofocus strategy for confocal time-lapse microscopy.

Chowdhury S, Kandhavelu M, Yli-Harja O, Ribeiro AS.

J Microsc. 2012 Mar;245(3):265-75. doi: 10.1111/j.1365-2818.2011.03568.x. Epub 2011 Nov 17.

PMID:
22091730
[PubMed - indexed for MEDLINE]

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