Ryan Gutenkunst Department of Biological Statistics and Computational Biology Cornell University rng7@cornell.edu

• Sloppiness, Modeling, and Evolution in Biochemical Networks
  Ryan N. Gutenkunst
  Ph.D. thesis, Cornell University (2007); university copy; hyperlinked local copy


• ∂a∂i - Software for fitting demographic models to genetic resequencing data.
• SloppyCell - Software environment for building, fitting, and analyzing biochemical models.

Selected Presentations

• Inferring Human History from the Joint Site-Frequency Spectrum (1.1 MB pdf)
  Poster: Cornell Postdoc Research Day, winner of a Best Poster Presentation award (05/08/08)
  
• Universal Sloppiness in Complex Biology: Implications for Modeling and Evolution (3.2 MB pdf)
  Talk: Computational Biology Student Seminar (02/09/07)
• Probing the effects of specific transducin mutations via computational kinetic modeling (492 KB pdf)
  Poster: Keystone Symposium on G Protein Coupled Receptors (02/13/06)

Peer Reviewed Publications

1. Global distribution of genomic diversity underscores rich complex history of continental human populations
   A Auton, K Bryc, AR Boyko, KE Lohmueller, J Novembre, A Reynolds, A Indap, MH Wright, J Degenhardt, RN Gutenkunst, KS King, MR Nelson, CD Bustamante
   submitted
2. Sloppiness, robustness, and evolvability in systems biology
   BC Daniels, YJ Chen, JP Sethna, RN Gutenkunst, CR Myers
   Current Opinion in Biotechnology 19:389-395 (2008); arXiv:0805.2628; publisher copy; local copy
3. Adaptive mutation in a geometrical model of chemotype evolution
   RN Gutenkunst, JP Sethna
   submitted; arXiv:0712.3240
4. Variational method for estimating the rate of convergence of Markov Chain Monte Carlo algorithms
   FP Casey, JJ Waterfall, RN Gutenkunst, CR Myers, JP Sethna
   submitted; arXiv:physics/0609001
5. Universally sloppy parameter sensitivities in systems biology
   RN Gutenkunst, JJ Waterfall, FP Casey, KS Brown, CR Myers, JP Sethna
   PLoS Computational Biology 3(10):e189 (2007); arXiv:q-bio.QM/0701039; publisher copy; local copy; local supporting info
   • Featured in a one-page article: Amber Dance, "Sloppy" Systems Biology, Biomedical Computation Review Winter:2 (2007/08); publisher copy; local copy
   • "Exceptional" evaluation on Faculty of 1000: Biology.
6. Extracting falsifiable predictions from sloppy models
   RN Gutenkunst, FP Casey, JJ Waterfall, CR Myers, JP Sethna
   in G. Stolovitsky, A. Califano, J. Collins, editors, Reverse Engineering Biological Networks: Opportunities and Challenges in Computational Methods for Pathway Inference
   Annals of the New York Academy of Sciences 1115:203-211 (2007); arXiv:0704.3049; publisher copy; local copy
7. Optimal experimental design in an epidermal growth factor receptor signalling and down-regulation model
   FP Casey, D Baird, Q Feng, RN Gutenkunst, JJ Waterfall, CR Myers, KS Brown, RA Cerione, JP Sethna
   IET Systems Biology 1(3):190-202 (2007); arXiv:q-bio.MN/0610024; publisher copy; local copy
8. Python unleashed on systems biology
   CR Myers, RN Gutenkunst, JP Sethna
   Computing in Science and Engineering 9(3):34-37 (2007); arXiv:0704.3259; publisher copy; local copy
9. Inferring resource distributions from Atlantic bluefin tuna movements: an analysis based on net displacement and length of track
   R Gutenkunst, N Newlands, M Lutcavage, L Edelstein-Keshet
   Journal of Theoretical Biology 245(2):243-257 (2007); publisher copy; local copy
10. Sloppy-model universality class and the Vandermonde matrix
    JJ Waterfall, FP Casey, RN Gutenkunst, KS Brown, CR Myers, PW Brouwer, V Elser, JP Sethna
    Physical Review Letters 97:150601 (2006); arXiv:cond-mat/0605387; publisher copy; local copy
    
11. An introduction to signal extraction in interferometric gravitational wave detectors
    ED Black, RN Gutenkunst
    American Journal of Physics 71(4):365-378 (2003); publisher copy; local copy
12. Extracting light from water: Sonoluminescence
    R Gutenkunst
    Caltech Undergraduate Research Journal 2(1):16-22 (2002); local copy

Other Publications

1. Sloppiness, Modeling, and Evolution in Biochemical Networks
   RN Gutenkunst
   Ph.D. thesis, Cornell University (2007); university copy; hyperlinked local copy
2. Black Tusk: Črna gora v Britanski Kolumbiji
   M Željko, R Gutenkunst (photographer)
   Planinski Vestnik May:22 (2004); local copy (sadly, poor photo quality in pdf)

Pictures

• Moving across America - Shannon and I drove from Ithaca to Santa Barbara, stopping to see sites and visit folks along the way. (8/20/08-9/13/08)
• Peru - Shannon and I traveled to Peru, where I was best man in Zach and Roxana's wedding. It was an amazing trip. (07/23/08-08/04/08)
• Ithaca Ice Storm - Ithaca was hit with a few days of freezing rain and sleet, leaving the trees coated. When the sun came out, they became beautiful and crystalline. (03/07-09/08)
• Woodstock, Vermont - Shannon, her father Norm, and I took a nice trip to Vermont for Fall Break. The colors were out in force, and the weather was good to us. All in all quite a fun trip. (We even found good Mexican fotrees od!) (10/06-10/07)
• Melon-Cat - Shannon and I brought Melvin the Melon-Cat to Henrik and Jamie's BBQ. Decorating him was great fun. (The awesome asparagus tail was Shannon's idea.) (08/04/07)
• Hawaiian Honeymoon - Shannon and I spent 10 great days on the big island of Hawaii. It was my first time to the islands, and it was awesome. Too bad we didn't have an underwater camera to capture the turtles and fishies we saw snorkling. (05/18-28/07)
• Wedding - Shannon and I were married at Torrey Pines State Reserve. It was a beautiful day, and we both enjoyed it. (Although we were definitely exhausted by the end of the day.) (04/29/07)
• Older Pictures

Miscellaneous

• Bookmarks - Useful bookmarks for myself.

Contact

• Email: rng7@cornell.edu
• Office: 102D Weill Hall