Palma, Cristina S.D. et al. "Dissecting the in vivo dynamics of transcription locking due to positive supercoiling buildup". Biochimica et Biophysica Acta - Gene Regulatory Mechanisms. 2020. 1863(5).

Vanharanta, Lauri et al. "High-content imaging and structure-based predictions reveal functional differences between Niemann-Pick C1 variants". Traffic. 2020, 21(5). 386-397.

Liekkinen, Juho et al. "Pulmonary Surfactant Lipid Reorganization Induced by the Adsorption of the Oligomeric Surfactant Protein B Complex". JOURNAL OF MOLECULAR BIOLOGY. 2020, 432(10). 3251-3268.

Johansson, Julia K. et al. "Sodium channels enable fast electrical signaling and regulate phagocytosis in the retinal pigment epithelium". BMC BIOLOGY. 2019. 17(1).

Manna, Moutusi, Tuomo Nieminen ja Ilpo Vattulainen. "Understanding the Role of Lipids in Signaling Through Atomistic and Multiscale Simulations of Cell Membranes". ANNUAL REVIEW OF BIOPHYSICS. 2019, 48. 421-439.

Liimatainen, Kaisa et al. "Iterative unsupervised domain adaptation for generalized cell detection from brightfield z-stacks". BMC Bioinformatics. 2019. 20(1).

Startceva, Sofia et al. "Regulation of asymmetries in the kinetics and protein numbers of bacterial gene expression". Biochimica et Biophysica Acta - Gene Regulatory Mechanisms. 2019, 1862(2). 119-128.

Laulumaa, Saara et al. "Structure and dynamics of a human myelin protein P2 portal region mutant indicate opening of the β barrel in fatty acid binding proteins". BMC Structural Biology. 2018. 18(1).

Neeli-Venkata, Ramakanth et al. "The precision of the symmetry in Z-ring placement in Escherichia coli is hampered at critical temperatures". Physical Biology. 2018. 15(5).

Ferreira, Ana R.V. et al. "Comparison of different coating techniques on the properties of FucoPol films". International Journal of Biological Macromolecules. 2017, 103. 268-274.

Tripathi, Shailesh et al. "sgnesR: An R package for simulating gene expression data from an underlying real gene network structure considering delay parameters". BMC Bioinformatics. 2017. 18(1).

Rahmatallah, Yasir et al. "GSAR: Bioconductor package for Gene Set analysis in R". BMC Bioinformatics. 2017. 18(1).

Kandavalli, Vinodh K., Huy Tran, ja Andre S. Ribeiro. "Effects of σ factor competition are promoter initiation kinetics dependent". Biochimica et Biophysica Acta: Gene Regulatory Mechanisms. 2016, 1859(10). 1281-1288.

Koivuniemi, Artturi ja Ilpo Vattulainen. "Biogenesis of Nascent High Density Lipoprotein Particles". Structure. 2015, 23(7). 1153-1154.

Matos Simoes, Ricardo de et al. "Urothelial cancer gene regulatory networks inferred from large-scale RNAseq, Bead and Oligo gene expression data". BMC Systems Biology. 2015. 9.

Moriya, Toshio et al. "A Bayesian approach for suppression of limited angular sampling artifacts in single particle 3D reconstruction". Journal of Structural Biology. 2015, 191(3). 318–331.

Rahmatallah, Yasir, Frank Emmert-Streib ja Galina Glazko. "Comparative evaluation of gene set analysis approaches for RNA-Seq data". BMC Bioinformatics. 2014. 15(1).

Kokkola, Tarja et al. "AROS has a context-dependent effect on SIRT1". FEBS Letters. 2014, 588(9). 1523-1528.

Rangl, Martina et al. "Investigating the binding behaviour of two avidin-based testosterone binders using molecular recognition force spectroscopy". Journal of Molecular Recognition. 2014, 27(2). 92-97.

Emmert-Streib, Frank et al. "Functional and genetic analysis of the colon cancer network.". BMC Bioinformatics. 2014. 15(Suppl 6).

Anantharajan, Jothi et al. "The structural motifs for substrate binding and dimerization of the α subunit of collagen prolyl 4-hydroxylase". Structure. 2013, 21(12). 2107-2118.

Sharma, Vivek ja Tom Misteli. "Non-coding RNAs in DNA damage and repair". FEBS Letters. 2013, 587(13). 1832-1839.

Tossavainen, Helena et al. "Resonance assignments of the 56 kDa chimeric avidin in the biotin-bound and free forms". BIOMOLECULAR NMR ASSIGNMENTS. 2013, 7(1). 35-38.

Lisitsyna, E. S. et al. "Characteristics of complex formation between monomeric and dimeric bisbenzimidazoles and AT-containing polynucleotide". MOLECULAR BIOLOGY. 2012, 46(6). 823-827.

de Matos Simoes, Ricardo, Shailesh Tripathi, ja Frank Emmert-Streib. "Organizational structure and the periphery of the gene regulatory network in B-cell lymphoma.". BMC Systems Biology. 2012. 6.

Mueller, Laurin A. J. et al. "Structural Measures for Network Biology Using QuACN". BMC Bioinformatics. 2011. 12(1).

Altay, Gökmen ja Frank Emmert-Streib. "Inferring the conservative causal core of gene regulatory networks". BMC Systems Biology. 2010. 4.

Emmert-Streib, Frank ja Matthias Dehmer. "Hierarchical coordination of periodic genes in the cell cycle of Saccharomyces cerevisiae". BMC Systems Biology. 2009. 3.

Emmert-Streib, Frank ja Matthias Dehmer. "Information processing in the transcriptional regulatory network of yeast: Functional robustness". BMC Systems Biology. 2009. 3.

Dehmer, Matthias ja Frank Emmert-Streib. "Structural information content of networks: Graph entropy based on local vertex functionals". Computational Biology and Chemistry. 2008, 32(2). 131-138.

Emmert-Streib, Frank ja Arcady Mushegian. "A topological algorithm for identification of structural domains of proteins". BMC Bioinformatics. 2007. 8.