Vizardous: Interactive analysis of microbial populations with single cell resolution

Bioinformatics

Volumn 31, Issue 23, 2015, Pages 3875-3877

  Helfrich, Stefan ^a   Azzouzi, Charaf E ^a   Probst, Christopher ^a   Seiffarth, Johannes ^a   Grünberger, Alexander ^a   Wiechert, Wolfgang ^a   Kohlheyer, Dietrich ^a   Nöh, Katharina ^a  

^a FORSCHUNGSZENTRUM JÜLICH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

COMPUTER PROGRAM; CORYNEBACTERIUM GLUTAMICUM; FLUORESCENCE MICROSCOPY; PHYSIOLOGY; PROCEDURES; SINGLE CELL ANALYSIS; TIME LAPSE IMAGING;

CORYNEBACTERIUM GLUTAMICUM; MICROSCOPY, FLUORESCENCE; SINGLE-CELL ANALYSIS; SOFTWARE; TIME-LAPSE IMAGING;

EID: 84950274088     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btv468     Document Type: Article

References (19)

1. Allan, C. et al. (2012) OMERO: flexible, model-driven data management for experimental biology. Nat. Methods, 9, 245-253.
2. Balaban, N.Q. et al. (2004) Bacterial persistence as a phenotypic switch. Science, 305, 1622-1625.
3. Binder, D. et al. (2014) Light-responsive control of bacterial gene expression: precise triggering of the lac promoter activity using photocaged IPTG. Integr. Biol. (Camb)., 6, 755-765.
4. Campos, M. et al. (2014) A constant size extension drives bacterial cell size homeostasis. Cell, 159, 1433-1446.
5. Grünberger, A. et al. (2014) Single-cell microfluidics: opportunity for bioprocess development. Curr. Opin. Biotechnol., 29, 15-23.
6. Han, M.V. and Zmasek, C.M. (2009) phylo XML: XML for evolutionary biology and comparative genomics. BMC Bioinformatics, 10, 356.
7. Hol, F.J.H. et al. (2014) Zooming in to see the bigger picture: microfluidic and nanofabrication tools to study bacteria. Science, 346, 1251821.
8. Kiviet, D.J. et al. (2014) Stochasticity of metabolism and growth at the singlecell level. Nature, 514, 376-379.
9. Levine, J.H. et al. (2013) Functional roles of pulsing in genetic circuits. Science, 342, 1193-1200.
10. Locke, J.C.W. and Elowitz, M.B. (2009) Using movies to analyse gene circuit dynamics in single cells. Nat. Rev. Microbiol., 7, 383-392.
11. Mustafi, N. et al. (2014) Application of a genetically encoded biosensor for live cell imaging of L-valine production in pyruvate dehydrogenase complex-deficient Corynebacterium glutamicum strains. PLoS One, 9, e85731.
12. Nanda, A.M. et al. (2014) Analysis of SOS-induced spontaneous prophage induction in Corynebacterium glutamicum at the single-cell level. J. Bacteriol., 196, 180-188.
13. Nobs, J.-B. and Maerkl, S.J. (2014) Long-term single cell analysis of S. pombe on a microfluidic microchemostat array. PLoS One, 9, e93466.
14. Probst, C. et al. (2015) Rapid inoculation of single bacteria into parallel picoliter fermentation chambers. Anal. Methods, 7, 91-98.
15. Rosenthal, A.Z. and Elowitz, M.B. (2012) Following evolution of bacterial antibiotic resistance in real time. Nat. Genet., 44, 11-13.
16. Sackmann, E.K. et al. (2014) The present and future role of microfluidics in biomedical research. Nature, 507, 181-189.
17. Taheri-Araghi, S. et al. (2014) Cell-size control and homeostasis in bacteria. Curr. Biol., 25, 385-391.
18. Wang, P. et al. (2010) Robust growth of Escherichia coli. Curr. Biol., 20, 1099-1103.
19. Young, J.W. et al. (2012) Measuring single-cell gene expression dynamics in bacteria using fluorescence time-lapse microscopy. Nat. Protoc., 7, 80-88.