1. Q. Zhang, S.M. Azarin, and C.A. Sarkar. "Model-guided engineering of DNA sequences with predictable site-specific recombination rates." bioRxiv (2021). Link
     
  2. B. Bruncsics, W.J. Errington, and C.A. Sarkar. "MVsim: a toolset for quantifying and designing multivalent interactions." bioRxiv (2021). Link
     
  3. G.C. Markou and C.A. Sarkar. "A cell-free approach to identify binding hotspots in plant immune receptors." Scientific Reports, in press (2021). Link
     
  4. G.C. Markou, A. Ohoka, and C.A. Sarkar. "Engineering a minimal leucine-rich repeat IgG-binding module." Applied Biochemistry and Biotechnology, in press (2021). Link
     
  5. H. Venkatachalapathy, S.M. Azarin, and C.A. Sarkar. "Trajectory-based energy landscapes of gene regulatory networks." Biophysical Journal, 120:687-698 (2021). Link
     
  6. W.J. Errington, B. Bruncsics, and C.A. Sarkar. "Mechanisms of non-canonical binding dynamics in multivalent protein-protein interactions." Proceedings of the National Academy of Sciences USA, 116:25659-25667 (2019). Link
     
  7. N.A. Shah and C.A. Sarkar. "Variable cellular decision-making behavior in a constant synthetic network topology." BMC Bioinformatics, 20:237 (2019). Link
     
  8. Z. Ye and C.A. Sarkar. "Towards a quantitative understanding of cell identity." Trends in Cell Biology, 28:1030-1048 (2018). Link
     
  9. F.W. Sadler, I. Dodevski, and C.A. Sarkar. "RNA thermometers for the PURExpress system." ACS Synthetic Biology, 7:292-296 (2018). Link
     
  10. A.L. Kane, B. Al-Shayeb, P.V. Holec, S. Rajan, N.E. Le Mieux, S.C. Heinsch, S. Psarska, K.G. Aukema, C.A. Sarkar, E.A. Nater and J.A. Gralnick. "Toward bioremediation of methylmercury using silica encapsulated Escherichia coli harboring the mer operon." PLOS ONE, 11:e0147036 (2016). Link
     
  11. N.A. Shah, M. Levesque, A. Raj, and C.A. Sarkar. "Robust hematopoietic progenitor cell commitment in the presence of a conflicting cue." Journal of Cell Science, 128:3009-3017 (2015). Link
     
  12. I. Dodevski, G.C. Markou, and C.A. Sarkar. "Conceptual and methodological advances in cell-free directed evolution." Current Opinion in Structural Biology, 33:1-7 (2015). Contributed equally.  Link
     
  13. N.A. Shah and C.A. Sarkar. "Computationally guided design of robust gene circuits." Methods in Molecular Biology, 1244:167-178 (2015). Link
     
  14. D.T.W. Ng and C.A. Sarkar. "NP-Sticky: a web server for optimizing DNA ligation with non-palindromic sticky ends." Journal of Molecular Biology, 426:1861-1869 (2014). Link | NP-Sticky
     
  15. M.S. Magaraci, A. Veerakumar, P. Qiao, A. Amurthur, J.Y. Lee, J.S. Miller, M. Goulian, and C.A. Sarkar. "Engineering Escherichia coli for light-activated cytolysis of mammalian cells." ACS Synthetic Biology, 3:944-948 (2014). Contributed equallyco-corresponding authors. Link
     
  16. H.M. Mehta, M. Futami, T. Glaubach, Q. Yang, D.W. Lee, J.R. Andolina, Z. Whichard, M. Quinn, H. Lu, W.-M. Kao, B. Przychodzen, C.A. Sarkar, A. Minella, J.P. Maciejewski, and S.J. Corey. "Alternatively spliced, truncated GCSF receptor promotes leukemogenic properties and sensitivity to JAK inhibition." Leukemia, 28:1041-1051 (2014). Link
     
  17. C.A. Sarkar. "Concentrating (on) native proteins to control cell fate." Science, 341:1349-1351 (2013). Link
     
  18. P.A. Barendt, N.A. Shah, G.A. Barendt, P.A. Kothari, and C.A. Sarkar. "Evidence for context-dependent complementarity of non-Shine-Dalgarno ribosome binding sites to Escherichia coli rRNA." ACS Chemical Biology, 8:958-966 (2013). Link
     
  19. P.A. Barendt, D.T.W. Ng, C.N. McQuade, and C.A. Sarkar. "Streamlined protocol for mRNA display." ACS Combinatorial Science, 15:77-81 (2013). Contributed equallyLink | Cover
     
  20. D.T.W. Ng and C.A. Sarkar. "Engineering signal peptides for enhanced protein secretion from Lactococcus lactis." Applied and Environmental Microbiology, 79:347-356 (2013). Link
     
  21. S.T. Jung, W. Kelton, T.H. Kang, D.T.W. Ng, J.T. Andersen, I. Sandlie, C.A. Sarkar, and G. Georgiou. "Effective phagocytosis of low Her2 tumor cell lines with engineered, aglycosylated IgG displaying high FcγRIIa affinity and selectivity." ACS Chemical Biology, 8:368-375 (2013). Link
     
  22. D.T.W. Ng and C.A. Sarkar. "Model-guided ligation strategy for optimal assembly of DNA libraries." Protein Engineering, Design, and Selection, 25:669-678 (2012). Link
     
  23. P.A. Barendt, N.A. Shah, G.A. Barendt, and C.A. Sarkar. "Broad-specificity mRNA-rRNA complementarity in efficient protein translation." PLOS Genetics, 8:e1002598 (2012). Link
     
  24. S. Palani and C.A. Sarkar. "Transient noise amplification and gene expression synchronization in a bistable mammalian cell-fate switch." Cell Reports, 1:215-224 (2012). Link
     
  25. E.C. O'Shaughnessy and C.A. Sarkar. "Analyzing and engineering cell signaling modules with synthetic biology." Current Opinion in Biotechnology, 23:785-790 (2012). Link
     
  26. N.A. Shah and C.A. Sarkar. "Robust network topologies for generating switch-like cellular responses." PLOS Computational Biology, 7:e1002085 (2011). Link
     
  27. S. Palani and C.A. Sarkar. "Synthetic conversion of a graded receptor signal into a tunable, reversible switch." Molecular Systems Biology, 7:480 (2011). Link
     
  28. D.T.W. Ng and C.A. Sarkar. "Nisin-inducible secretion of a biologically active single-chain insulin analog by Lactococcus lactis NZ9000." Biotechnology and Bioengineering, 108:1987-1996 (2011). Link
     
  29. E.C. O'Shaughnessy, S. Palani, J.J. Collins, and C.A. Sarkar. "Tunable signal processing in synthetic MAP kinase cascades." Cell, 144:119-131 (2011). Co-corresponding authorsLink
     
  30. C. Zahnd, C.A. Sarkar, and A. Plückthun. "Computational analysis of off-rate selection experiments to optimize affinity maturation by directed evolution." Protein Engineering, Design, and Selection, 23:175-184 (2010). Co-corresponding authorsLink
     
  31. Z.L. Whichard, C.A. Sarkar, M. Kimmel, and S.J. Corey. "Hematopoiesis and its disorders: a systems biology approach." Blood, 115:2339-2347 (2010). Link
     
  32. S. Palani and C.A. Sarkar. "Integrating extrinsic and intrinsic cues into a minimal model of lineage commitment for hematopoietic progenitors." PLOS Computational Biology, 5:e1000518 (2009). Link
     
  33. P.A. Barendt and C.A. Sarkar. "Cell-Free Display Systems for Protein Engineering" in Protein Engineering and Design, Jennifer Cochran and Sheldon Park, eds., Taylor and Francis Group, Boca Raton, FL (2009). Link
     
  34. C.A. Sarkar. "Principles of Computational Cell Biology – From Protein Complexes to Cellular Networks." The Quarterly Review of Biology, 84:303-303 (2009). Link
     
  35. P. Milovnik, D. Ferrari, C.A. Sarkar, and A. Plückthun. "Selection and characterization of DARPins specific for the neurotensin receptor 1." Protein Engineering, Design, and Selection, 22:357-366 (2009). Link
     
  36. C.A. Sarkar, I. Dodevski, M. Kenig, S. Dudli, A. Mohr, E. Hermans, and A. Plückthun. "Directed evolution of a G-protein coupled receptor for expression, stability, and binding selectivity." Proceedings of the National Academy of Sciences USA, 105:14808-14813 (2008). Contributed equallyLink
     
  37. S. Palani and C.A. Sarkar. "Positive receptor feedback during lineage commitment can generate ultrasensitivity to ligand and confer robustness to a bistable switch." Biophysical Journal, 95:1575-1589 (2008). Link
     
  38. S. Kubetzko, C.A. Sarkar, and A. Plückthun. "Protein PEGylation decreases observed target association rates via a dual blocking mechanism." Molecular Pharmacology, 68:1439-1454 (2005). Contributed equally. Link
     
  39. C.A. Sarkar, K. Lowenhaupt, P.J. Wang, T. Horan, and D.A. Lauffenburger. "Parsing the effects of binding, signaling, and trafficking on the mitogenic potencies of granulocyte colony-stimulating factor analogues." Biotechnology Progress, 19:955-964 (2003). Link
     
  40. M.S. Ricci, C.A. Sarkar, E.M. Fallon, D.A. Lauffenburger, and D.N Brems. "pH dependence of structural stability of interleukin-2 and granulocyte colony-stimulating factor." Protein Science, 12:1030-1038 (2003). Link
     
  41. C.A. Sarkar and D.A. Lauffenburger. "Cell-level pharmacokinetic model of granulocyte colony-stimulating factor: implications for ligand lifetime and potency in vivo." Molecular Pharmacology, 63:147-158 (2003). Link
     
  42. C.A. Sarkar, K. Lowenhaupt, T. Horan, T.C. Boone, B. Tidor, and D.A. Lauffenburger. "Rational cytokine design for increased lifetime and enhanced potency using pH-activated 'histidine switching.'" Nature Biotechnology, 20:908-913 (2002). Link