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Items: 1 to 20 of 90

1.

Global Genetics Research in Prostate Cancer: A Text Mining and Computational Network Theory Approach.

Azam MF, Musa A, Dehmer M, Yli-Harja OP, Emmert-Streib F.

Front Genet. 2019 Feb 14;10:70. doi: 10.3389/fgene.2019.00070. eCollection 2019.

2.

2-(2-(2,4-dioxopentan-3-ylidene)hydrazineyl)benzonitrile as novel inhibitor of receptor tyrosine kinase and PI3K/AKT/mTOR signaling pathway in glioblastoma.

Viswanathan A, Kute D, Musa A, Konda Mani S, Sipilä V, Emmert-Streib F, Zubkov FI, Gurbanov AV, Yli-Harja O, Kandhavelu M.

Eur J Med Chem. 2019 Mar 15;166:291-303. doi: 10.1016/j.ejmech.2019.01.021. Epub 2019 Jan 22.

PMID:
30731398
3.

Impact of Variable RNA-Sequencing Depth on Gene Expression Signatures and Target Compound Robustness: Case Study Examining Brain Tumor (Glioma) Disease Progression.

Stupnikov A, O'Reilly PG, McInerney CE, Roddy AC, Dunne PD, Gilmore A, Ellis HP, Flannery T, Healy E, McIntosh SA, Savage K, Kurian KM, Emmert-Streib F, Prise KM, Salto-Tellez M, McArt DG.

JCO Precis Oncol. 2018 Sep 13;2. doi: 10.1200/PO.18.00014.

4.

Harnessing the biological complexity of Big Data from LINCS gene expression signatures.

Musa A, Tripathi S, Kandhavelu M, Dehmer M, Emmert-Streib F.

PLoS One. 2018 Aug 29;13(8):e0201937. doi: 10.1371/journal.pone.0201937. eCollection 2018.

5.

Multilayer Aggregation with Statistical Validation: Application to Investor Networks.

Baltakys K, Kanniainen J, Emmert-Streib F.

Sci Rep. 2018 May 29;8(1):8198. doi: 10.1038/s41598-018-26575-2.

6.

Lessons from the Human Genome Project: Modesty, Honesty, and Realism.

Emmert-Streib F, Dehmer M, Yli-Harja O.

Front Genet. 2017 Nov 23;8:184. doi: 10.3389/fgene.2017.00184. eCollection 2017. No abstract available.

7.

Extracting the Strongest Signals from Omics Data: Differentially Expressed Pathways and Beyond.

Glazko G, Rahmatallah Y, Zybailov B, Emmert-Streib F.

Methods Mol Biol. 2017;1613:125-159. doi: 10.1007/978-1-4939-7027-8_7.

8.

sgnesR: An R package for simulating gene expression data from an underlying real gene network structure considering delay parameters.

Tripathi S, Lloyd-Price J, Ribeiro A, Yli-Harja O, Dehmer M, Emmert-Streib F.

BMC Bioinformatics. 2017 Jul 4;18(1):325. doi: 10.1186/s12859-017-1731-8.

9.

A review of connectivity map and computational approaches in pharmacogenomics.

Musa A, Ghoraie LS, Zhang SD, Glazko G, Yli-Harja O, Dehmer M, Haibe-Kains B, Emmert-Streib F.

Brief Bioinform. 2017 Sep 1;18(5):903. doi: 10.1093/bib/bbx023. No abstract available.

10.

GSAR: Bioconductor package for Gene Set analysis in R.

Rahmatallah Y, Zybailov B, Emmert-Streib F, Glazko G.

BMC Bioinformatics. 2017 Jan 24;18(1):61. doi: 10.1186/s12859-017-1482-6.

11.

A review of connectivity map and computational approaches in pharmacogenomics.

Musa A, Ghoraie LS, Zhang SD, Glazko G, Yli-Harja O, Dehmer M, Haibe-Kains B, Emmert-Streib F.

Brief Bioinform. 2018 May 1;19(3):506-523. doi: 10.1093/bib/bbw112. Erratum in: Brief Bioinform. 2017 Sep 1;18(5):903.

12.

samExploreR: exploring reproducibility and robustness of RNA-seq results based on SAM files.

Stupnikov A, Tripathi S, de Matos Simoes R, McArt D, Salto-Tellez M, Glazko G, Dehmer M, Emmert-Streib F.

Bioinformatics. 2016 Nov 1;32(21):3345-3347. Epub 2016 Jul 10.

PMID:
27402900
13.

Against Dataism and for Data Sharing of Big Biomedical and Clinical Data with Research Parasites.

Emmert-Streib F, Dehmer M, Yli-Harja O.

Front Genet. 2016 Aug 31;7:154. doi: 10.3389/fgene.2016.00154. eCollection 2016. No abstract available.

14.

The Need for Formally Defining "Modern Medicine" by Means of Experimental Design.

Emmert-Streib F, Tuomisto L, Yli-Harja O.

Front Genet. 2016 Apr 20;7:60. doi: 10.3389/fgene.2016.00060. eCollection 2016. No abstract available.

15.

Comparison of module detection algorithms in protein networks and investigation of the biological meaning of predicted modules.

Tripathi S, Moutari S, Dehmer M, Emmert-Streib F.

BMC Bioinformatics. 2016 Mar 18;17:129. doi: 10.1186/s12859-016-0979-8.

16.

A BRCA1 deficient, NFκB driven immune signal predicts good outcome in triple negative breast cancer.

Buckley NE, Haddock P, De Matos Simoes R, Parkes E, Irwin G, Emmert-Streib F, McQuaid S, Kennedy R, Mullan P.

Oncotarget. 2016 Apr 12;7(15):19884-96. doi: 10.18632/oncotarget.7865.

17.

The Process of Analyzing Data is the Emergent Feature of Data Science.

Emmert-Streib F, Moutari S, Dehmer M.

Front Genet. 2016 Feb 9;7:12. doi: 10.3389/fgene.2016.00012. eCollection 2016. No abstract available.

18.

Biological networks: the microscope of the twenty-first century?

Emmert-Streib F, Dehmer M.

Front Genet. 2015 Oct 13;6:307. doi: 10.3389/fgene.2015.00307. eCollection 2015. No abstract available.

19.

Using shRNA experiments to validate gene regulatory networks.

Olsen C, Fleming K, Prendergast N, Rubio R, Emmert-Streib F, Bontempi G, Quackenbush J, Haibe-Kains B.

Genom Data. 2015 Apr 1;4:123-6. doi: 10.1016/j.gdata.2015.03.011. eCollection 2015 Jun.

20.

Report from the 2nd Summer School in Computational Biology organized by the Queen's University of Belfast.

Emmert-Streib F, Zhang SD, Hamilton P.

Genom Data. 2014 Feb 13;2:37-9. doi: 10.1016/j.gdata.2013.12.001. eCollection 2014 Dec.

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