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Research Areas

Sequence analysis, Protein structure, Protein function, Phylogeny, Evolution, Mutation, Enzymes, Allergens, Virus

Research Interests

My research interest is in computational protein sequence and structure analysis to predict various aspects of molecular and cellular functions (enzymatic activities, posttranslational modifications, cleavage, translocation signals, 3D structures, effects of mutations, phylogenetic relationships, cellular pathways etc.) for discovering the molecular mechanisms of biological and clinical phenotypes and experimental validation together with collaborators. Our repertoire of computational analysis methods is applicable and useful in multiple research areas but our main focus currently is on infectious diseases, human mutations, allergy and enzyme function prediction.

Selected Publications

>140 publications, h-index 47

1. Han AX, Parker E, Scholer F, Maurer-Stroh S, Russell CA. Phylogenetic Clustering by Linear Integer Programming (PhyCLIP). Mol Biol Evol. 2019 Mar 11. pii: msz053. doi: 10.1093/molbev/msz053. [Epub ahead of print] PubMed PMID: 30854550.

2. Maurer-Stroh S, Krutz NL, Kern PS, Gunalan V, Nguyen MN, Limviphuvadh V, Eisenhaber F, Gerberick GF. AllerCatPro – Prediction of protein allergenicity potential from the protein sequence. Bioinformatics. 2019 Jan 18. doi:10.1093/bioinformatics/btz029. [Epub ahead of print] PubMed PMID: 30657872.

3. Han AX, Maurer-Stroh S, Russell CA. Individual immune selection pressure has limited impact on seasonal influenza virus evolution. Nature Ecol Evol. 2019 Feb;3(2):302-311. doi: 10.1038/s41559-018-0741-x. Epub 2018 Dec 3. PubMed PMID: 30510176.

4. Zhao H, Li H, Maurer-Stroh S, Cheng L. Synthesizing retinal and neuronal images with generative adversarial nets. Med Image Anal. 2018 Oct;49:14-26. doi:10.1016/j.media.2018.07.001. Epub 2018 Jul 4. PubMed PMID: 30007254.

5. Lackenby A, Besselaar TG, Daniels RS, Fry A, Gregory V, Gubareva LV, Huang W, Hurt AC, Leang SK, Lee RTC, Lo J, Lollis L, Maurer-Stroh S, Odagiri T, Pereyaslov D, Takashita E, Wang D, Zhang W, Meijer A. Global update on the susceptibility of human influenza viruses to neuraminidase inhibitors and status of novel antivirals, 2016-2017. Antiviral Res. 2018 Sep;157:38-46. doi:10.1016/j.antiviral.2018.07.001. Epub 2018 Jul 3. PubMed PMID: 29981793; PubMed Central PMCID: PMC6094047.

6. Limviphuvadh V, Tan CS, Konishi F, Jenjaroenpun P, Xiang JS, Kremenska Y, Mu YS, Syn N, Lee SC, Soo RA, Eisenhaber F, Maurer-Stroh S, Yong WP. Discovering novel SNPs that are correlated with patient outcome in a Singaporean cancer patient cohort treated with gemcitabine-based chemotherapy. BMC Cancer. 2018 May 11;18(1):555. doi: 10.1186/s12885-018-4471-x. PubMed PMID: 29751792; PubMed Central PMCID: PMC5948914.

7. Taye B, Vaz C, Tanavde V, Kuznetsov VA, Eisenhaber F, Sugrue RJ, Maurer-Stroh S. Benchmarking selected computational gene network growing tools in context of virus-host interactions. Sci Rep. 2017 Jul 19;7(1):5805. doi: 10.1038/s41598-017-06020-6. PubMed PMID: 28724991; PubMed Central PMCID: PMC5517527.

8. Singapore Zika Study Group. Outbreak of Zika virus infection in Singapore: an epidemiological, entomological, virological, and clinical analysis. Lancet Infect Dis. 2017 Aug;17(8):813-821. doi: 10.1016/S1473-3099(17)30249-9. Epub 2017 May 17. PubMed PMID: 28527892.

9. Lipsitch M, Barclay W, Raman R, Russell CJ, Belser JA, Cobey S, Kasson PM,

10. Lloyd-Smith JO, Maurer-Stroh S, Riley S, Beauchemin CA, Bedford T, Friedrich TC, Handel A, Herfst S, Murcia PR, Roche B, Wilke CO, Russell CA. Viral factors in influenza pandemic risk assessment. Elife. 2016 Nov 11;5. pii: e18491. doi:10.7554/eLife.18491. PubMed PMID: 27834632; PubMed Central PMCID: PMC5156527.

11. Maurer-Stroh S, Mak TM, Ng YK, Phuah SP, Huber RG, Marzinek JK, Holdbrook DA, Lee RT, Cui L, Lin RT. South-east Asian Zika virus strain linked to cluster of cases in Singapore, August 2016. Euro Surveill. 2016 Sep 22;21(38). doi:10.2807/1560-7917.ES.2016.21.38.30347. PubMed PMID: 27684526; PubMed Central PMCID: PMC5073200.

12. Souma T, Tompson SW, Thomson BR, Siggs OM, Kizhatil K, Yamaguchi S, Feng L, Limviphuvadh V, Whisenhunt KN, Maurer-Stroh S, Yanovitch TL, Kalaydjieva L, Azmanov DN, Finzi S, Mauri L, Javadiyan S, Souzeau E, Zhou T, Hewitt AW, Kloss B, Burdon KP, Mackey DA, Allen KF, Ruddle JB, Lim SH, Rozen S, Tran-Viet KN, Liu X, John S, Wiggs JL, Pasutto F, Craig JE, Jin J, Quaggin SE, Young TL. Angiopoietin receptor TEK mutations underlie primary congenital glaucoma with variable expressivity. J Clin Invest. 2016 Jul 1;126(7):2575-87. doi: 10.1172/JCI85830. Epub 2016 Jun 6. PubMed PMID: 27270174; PubMed Central PMCID: PMC4922711.

13. Hapuarachchi HC, Koo C, Kek R, Xu H, Lai YL, Liu L, Kok SY, Shi Y, Chuen RL, Lee KS, Maurer-Stroh S, Ng LC. Intra-epidemic evolutionary dynamics of a Dengue virus type 1 population reveal mutant spectra that correlate with disease transmission. Sci Rep. 2016 Mar 4;6:22592. doi: 10.1038/srep22592. PubMed PMID: 26940650; PubMed Central PMCID: PMC4778070.

14. Wee KB, Lee RT, Lin J, Pramono ZA, Maurer-Stroh S. Discovery of Influenza A Virus Sequence Pairs and Their Combinations for Simultaneous Heterosubtypic Targeting that Hedge against Antiviral Resistance. PLoS Comput Biol. 2016 Jan 15;12(1):e1004663. doi: 10.1371/journal.pcbi.1004663. eCollection 2016 Jan. PubMed PMID: 26771381; PubMed Central PMCID: PMC4714944.

15. Maurer-Stroh S, Li Y, Bastien N, Gunalan V, Lee RT, Eisenhaber F, Booth TF. Potential human adaptation mutation of influenza A(H5N1) virus, Canada. Emerg Infect Dis. 2014 Sep;20(9):1580-2. doi: 10.3201/eid2009.140240. PubMed PMID: 25153690; PubMed Central PMCID: PMC4178386.

16. Maurer-Stroh S, Gunalan V, Wong WC, Eisenhaber F. A simple shortcut to unsupervised alignment-free phylogenetic genome groupings, even from unassembled sequencing reads. J Bioinform Comput Biol. 2013 Dec;11(6):1343005. doi:10.1142/S0219720013430051. Epub 2013 Dec 2. PubMed PMID: 24372034.

17. Tan J, Kuchibhatla D, Sirota FL, Sherman WA, Gattermayer T, Kwoh CY, Eisenhaber F, Schneider G, Maurer-Stroh S. Tachyon search speeds up retrieval of similar sequences by several orders of magnitude. Bioinformatics. 2012 Jun 15;28(12):1645-6. doi: 10.1093/bioinformatics/bts197. Epub 2012 Apr 23. PubMed PMID: 22531216; PubMed Central PMCID: PMC3371831.

18. Maurer-Stroh S, Debulpaep M, Kuemmerer N, Lopez de la Paz M, Martins IC, Reumers J, Morris KL, Copland A, Serpell L, Serrano L, Schymkowitz JW, Rousseau F. Exploring the sequence determinants of amyloid structure using position-specific scoring matrices. Nature Methods. 2010 Mar;7(3):237-42. doi: 10.1038/nmeth.1432. Epub 2010 Feb 14. PubMed PMID: 20154676.

19. Maurer-Stroh S, Eisenhaber F. Refinement and prediction of protein prenylation motifs. Genome Biol. 2005;6(6):R55. Epub 2005 May 27. PubMed PMID: 15960807; PubMed Central PMCID: PMC1175975.

20. Maurer-Stroh S, Dickens NJ, Hughes-Davies L, Kouzarides T, Eisenhaber F, Ponting CP. The Tudor domain ‘Royal Family’: Tudor, plant Agenet, Chromo, PWWP and MBT domains. Trends Biochem Sci. 2003 Feb;28(2):69-74. PubMed PMID: 12575993.