Publications

Google Scholar profile

screen-shot-2016-09-27-at-4-11-45-pmTracking single-cell gene regulation in dynamically controlled environments using an integrated microfluidic and computational setup 
Kaiser M, Jug F, Silander OK, Deshpande S, Pfohl T, Julou T, Myers G, van Nimwegen E (2016)
bioRxiv http://dx.doi.org/10.1101/076224 pdf 

 

Freed_edit

Combining Shigella Tn-seq data with Gold-standard E. coli Gene Deletion Data Suggests Rare Transitions between Essential and Non-essential Gene Functionality
Freed NE, Bumann D, Silander OK* (2016)
bioRxiv http://dx.doi.org/10.1101/038869 pdf

 

Screen Shot 2014-08-06 at 10.45.01

Expression noise facilitates the evolution of gene regulation
Wolf L, Silander OK*, van Nimwegen E*  (2015)
eLife 4:e05856  pdf

 

Bertels_editAutomated reconstruction of whole genome phylogenies from short sequence reads
Bertels F*, Silander OK, Pachkov M, Rainey P, van Nimwegen E  (2014)
Mol Biol Evol 31 (5): 1077-1088 pdf (News comment)

 

growth_editThe predictability of molecular evolution during functional innovation
Blank D, Wolf L, Ackermann M, Silander OK* (2014)
PNAS 111(8): 3044-3049 pdf (Evol. Appl. comment)

 

persisters_edit

Quantitative analysis of persister fractions suggests different mechanisms of formation among environmental isolates of E. coli
Hofsteenge N, van Nimwegen E, Silander OK* (2013)
BMC Microbiology: 13:25 pdf

 

gaba_editOpposite effects of KCTD subunit domains on GABAB receptor-mediated desensitization
Seddik R, Jungblut SP, Silander OK, Rajalu M, Fritzius T, Besseyrias V, Jacquier V, Fakler B, Gassmann M*, Bettler B* (2012) Journal of Biological Chemistry 287: 39869 pdf

 

essential_editPatterns of evolutionary conservation of essential genes correlate with their compensability pdf
Bergmiller T, Ackermann M, Silander OK* (2012)
PLOS Genetics 8(6): e1002803

 

genomewide_editA Genome-Wide Analysis of Promoter-Mediated Phenotypic Noise in Escherichia coli
Silander OK*, Nikolic N, Zaslaver A, Bren A, Kikoin I, Alon U, Ackermann M (2012)
PLOS Genetics 8(1): e1002443 pdf

*indicates corresponding author

Pre-2012

Geographic differences in sexual reassortment in RNA phage
O’Keefe KJ, Silander OK, McCreery H, Weinreich DM, Wright KM, ChaoL, Edwards SV, Remold SK, Turner PE (2010)
Evolution, doi: 10.1111/j.1558-5646.2010.01040.

The constancy of gene conservation across divergent bacterial orders.
Silander OK, Ackermann M (2009)
BMC Research Notes 2(2).

A simple screen to identify promoters conferring high levels of phenotypic variation
Freed NE, Silander OK, Stecher B, Boehm A, Hardt WD, Ackermann M (2008)
PLOS Genetics 4(12): e1000307.

Disruption of Esrom and Ryk identifies the roof plate boundary as an intermediate target for commisure formation
Hendricks M, Mathru AS, Hui W, Silander O, Kee MZL, Jesuthasan S (2008)
Molecular and Cellular Neuroscience. 37(2): 271-283.

Epistasis and the Evolution of Recombination
Kouyos R, Silander OK, Bonhoeffer S (2007)
Trends in Ecology and Evolution 22(6): 308-315.

Understanding the evolutionary fate of finite size populations: Surviving deleterious mutations
Silander OK, Tenaillon O, Chao L (2007)
PLOS Biology 5(4): e94.

Quantifying Organismal Complexity using a Population Genetics Approach
Tenaillon O, Silander OK, Uzan J-P, Chao L (2007)
PLoS One 2(2): e217.

Widespread genetic exchange among terrestrial bacteriophages
Silander OK, Weinreich DM, Wright KM, O’Keefe KJ, Rang CU, Turner PE, Chao L (2005)
Proceedings of the National Academy of Sciences 102: 19009-14.

Alterations of the X-linked lymphoproliferative disease gene SH2D1A in common variable immunodeficiency syndrome
Morra M, Silander O, Calpe S, Choi M, Oettgen H, Myers L, Etzioni A, Buckley R, Terhorst C (2001)
Blood 98 (5): 1321-25.

Characterization of SH2D1A missense mutations identified in X-linked lymphoproliferative disease patients
Morra M, Simarro-Grande M, Martin M, Chen ASI, Lanyi A, Silander O, Calpe S, Davis J, Pawson T, Eck MJ, Sumegi J, Engel P, Li SC, Terhorst C (2001)
Journal of Biological Chemistry 276 (39): 36809-16.

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