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Items: 1 to 20 of 79


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 Jul 10. pii: btw475. [Epub ahead of print]


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.


Book review.

Emmert-Streib F.

Stat Methods Med Res. 2016 Apr;25(2):983-4. doi: 10.1177/0962280212465929. No abstract available.


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.


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.


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.


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.


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.


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.


Discrimination Power of Polynomial-Based Descriptors for Graphs by Using Functional Matrices.

Dehmer M, Emmert-Streib F, Shi Y, Stefu M, Tripathi S.

PLoS One. 2015 Oct 19;10(10):e0139265. doi: 10.1371/journal.pone.0139265. eCollection 2015.


Gene set analysis approaches for RNA-seq data: performance evaluation and application guideline.

Rahmatallah Y, Emmert-Streib F, Glazko G.

Brief Bioinform. 2016 May;17(3):393-407. doi: 10.1093/bib/bbv069. Epub 2015 Sep 4.


Comprehensive molecular pathology analysis of small bowel adenocarcinoma reveals novel targets with potential for clinical utility.

Alvi MA, McArt DG, Kelly P, Fuchs MA, Alderdice M, McCabe CM, Bingham V, McGready C, Tripathi S, Emmert-Streib F, Loughrey MB, McQuaid S, Maxwell P, Hamilton PW, Turkington R, James JA, Wilson RH, Salto-Tellez M.

Oncotarget. 2015 Aug 28;6(25):20863-74.


Effects of subsampling on characteristics of RNA-seq data from triple-negative breast cancer patients.

Stupnikov A, Glazko GV, Emmert-Streib F.

Chin J Cancer. 2015 Aug 8;34(10):427-38. doi: 10.1186/s40880-015-0040-8.


Structural Analysis of Treatment Cycles Representing Transitions between Nursing Organizational Units Inferred from Diabetes.

Dehmer M, Kurt Z, Emmert-Streib F, Them C, Schulc E, Hofer S.

PLoS One. 2015 Jun 1;10(6):e0127152. doi: 10.1371/journal.pone.0127152. eCollection 2015.


Urothelial cancer gene regulatory networks inferred from large-scale RNAseq, Bead and Oligo gene expression data.

de Matos Simoes R, Dalleau S, Williamson KE, Emmert-Streib F.

BMC Syst Biol. 2015 May 14;9:21. doi: 10.1186/s12918-015-0165-z.


Computational cancer biology: education is a natural key to many locks.

Emmert-Streib F, Zhang SD, Hamilton P.

BMC Cancer. 2015 Jan 15;15:7. doi: 10.1186/s12885-014-1002-2.


Comparative evaluation of gene set analysis approaches for RNA-Seq data.

Rahmatallah Y, Emmert-Streib F, Glazko G.

BMC Bioinformatics. 2014 Dec 5;15:397. doi: 10.1186/s12859-014-0397-8.


Gene regulatory networks and their applications: understanding biological and medical problems in terms of networks.

Emmert-Streib F, Dehmer M, Haibe-Kains B.

Front Cell Dev Biol. 2014 Aug 19;2:38. doi: 10.3389/fcell.2014.00038. eCollection 2014. Review.


Untangling statistical and biological models to understand network inference: the need for a genomics network ontology.

Emmert-Streib F, Dehmer M, Haibe-Kains B.

Front Genet. 2014 Aug 29;5:299. doi: 10.3389/fgene.2014.00299. eCollection 2014.


Functional and genetic analysis of the colon cancer network.

Emmert-Streib F, de Matos Simoes R, Glazko G, McDade S, Haibe-Kains B, Holzinger A, Dehmer M, Campbell F.

BMC Bioinformatics. 2014;15 Suppl 6:S6. doi: 10.1186/1471-2105-15-S6-S6. Epub 2014 May 16.

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