rna.urmc.rochester.edu

Mathews Lab Website Home

David H. Mathews. Department of Biochemistry and Biophysics. University of Rochester Medical Center. 601 Elmwood Avenue, Box 712. Rochester, New York 14642. Email: David Mathews[at]urmc.rochester.edu. Quick Links for Software:. RNA Secondary Structure Prediction and Analysis. RNA Secondary Structure Prediction and Analysis on the web. The source code of OligoWalk program is also available for download) - Select efficient siRNA using hybridization thermodynamics -.

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Mathews Lab Website Home | rna.urmc.rochester.edu Reviews

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David H. Mathews. Department of Biochemistry and Biophysics. University of Rochester Medical Center. 601 Elmwood Avenue, Box 712. Rochester, New York 14642. Email: David Mathews[at]urmc.rochester.edu. Quick Links for Software:. RNA Secondary Structure Prediction and Analysis. RNA Secondary Structure Prediction and Analysis on the web. The source code of OligoWalk program is also available for download) - Select efficient siRNA using hybridization thermodynamics -.

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Mathews Lab Website Home | rna.urmc.rochester.edu Reviews

https://rna.urmc.rochester.edu

David H. Mathews. Department of Biochemistry and Biophysics. University of Rochester Medical Center. 601 Elmwood Avenue, Box 712. Rochester, New York 14642. Email: David Mathews[at]urmc.rochester.edu. Quick Links for Software:. RNA Secondary Structure Prediction and Analysis. RNA Secondary Structure Prediction and Analysis on the web. The source code of OligoWalk program is also available for download) - Select efficient siRNA using hybridization thermodynamics -.

INTERNAL PAGES

rna.urmc.rochester.edu

1

Mathews Lab Publications

http://rna.urmc.rochester.edu/publications.html

98 DiChiacchio, L., Sloma, M. F., and Mathews, D. H. (2015). AccessFold: Predicting RNA-RNA Interactions with Consideration for Competing Self-Structure. 97 Chen, J. L,. Bellaousov, S., Tubbs, J. D., Kennedy, S. D., Lopez, M. J., Mathews, D. H., &Turner, D. H. (2015). NMR-assisted prediction of secondary structure for RNA: Incorporation of direction-dependent chemical shift constraints. Proceedings of the National Academy of Sciences of the United States of America. 89 Zhang, X., Walker, R. C&#46...88 Ma...

2

Mathews Lab Website Home

http://rna.urmc.rochester.edu/index.html

David H. Mathews. Department of Biochemistry and Biophysics. University of Rochester Medical Center. 601 Elmwood Avenue, Box 712. Rochester, New York 14642. Email: David Mathews[at]urmc.rochester.edu. Quick Links for Software:. RNA Secondary Structure Prediction and Analysis. RNA Secondary Structure Prediction and Analysis on the web. The source code of OligoWalk program is also available for download) - Select efficient siRNA using hybridization thermodynamics -.

3

Mathews Lab Software

http://rna.urmc.rochester.edu/software.html

RNAstructure is a complete software package for RNA secondary structure prediction and analysis. Use RNAstructure on the web. OligoWalk can be used for siRNA design. Source code is also downloadable for local compilation. Note: We currently are aware that the web server does not work with the Firefox browser and we are working on this issue.

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OligoWalk Web Server for siRNA design

http://rna.urmc.rochester.edu/servers/oligowalk

Is an online sever calculating thermodynamic features of sense-antisense hybidization. It predicts the free energy changes of oligonucleotides binding to a target RNA. It can be used to design efficient siRNA. Targeting a given mRNA sequence. The source code of OligoWalk for siRNA design can be downloaded from here. The efficient siRNA selection method is described in a published paper ( link. Are listed in the Help page. The server has been tested on Firefox 2 and Internet Explorer 7. Maintained by: Dav...

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Mathews Lab Courses

http://rna.urmc.rochester.edu/teaching.html

Biochemistry 208 - 2012 - lecture slides. Biochemistry 208 - 2013 - lecture slides. Biochemistry 208 - 2014 - lecture slides. Biochemistry 208 - 2015 - lecture slides.

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rna.chem.rochester.edu

Turner Group Home Page

http://rna.chem.rochester.edu/frmgrouplist.html

From left to right: Neelabh Shankar, Blanton Tolbert, Scott Kennedy, Nicholas Hammond, Ela Kierzek, Ryszard Kierzek, Doug, Ilyas Yildirim, Shenghua Duan, Biao Liu, Jim Hart, and Ruiting Liang, Doug's birthday July 26, 2006. Hutchison Hall is behind. Photograph by Ruiting Liang (far right). Mark E. Burkard. Faculty at University of Wisconsin School of Medicine and Public Health). Associate Professor at the Scripps Research Institute, Department of Chemistry. Susan J. Schroeder. Brent M. Znosko. Nicholas H...

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Mathews Lab Website Home

David H. Mathews. Department of Biochemistry and Biophysics. University of Rochester Medical Center. 601 Elmwood Avenue, Box 712. Rochester, New York 14642. Email: David Mathews[at]urmc.rochester.edu. Quick Links for Software:. RNA Secondary Structure Prediction and Analysis. RNA Secondary Structure Prediction and Analysis on the web. The source code of OligoWalk program is also available for download) - Select efficient siRNA using hybridization thermodynamics -.

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