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Rama Ranganathan - Publications

Affiliations: 
1997-2017 University of Texas Southwestern Medical Center, Dallas, TX, United States 
 2017- Biochemistry and Molecular Biology University of Chicago, Chicago, IL 
Website:
https://newfaculty.uchicago.edu/page/rama-ranganathan

50 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Poelwijk FJ, Socolich M, Ranganathan R. Learning the pattern of epistasis linking genotype and phenotype in a protein. Nature Communications. 10: 4213. PMID 31527666 DOI: 10.1038/s41467-019-12130-8  0.72
2018 Rosensweig C, Reynolds KA, Gao P, Laothamatas I, Shan Y, Ranganathan R, Takahashi JS, Green CB. An evolutionary hotspot defines functional differences between CRYPTOCHROMES. Nature Communications. 9: 1138. PMID 29556064 DOI: 10.1038/s41467-018-03503-6  1
2016 Hekstra DR, White KI, Socolich MA, Henning RW, Šrajer V, Ranganathan R. Electric-field-stimulated protein mechanics. Nature. PMID 27926732 DOI: 10.1038/nature20571  0.56
2016 Shah NH, Wang Q, Yan Q, Karandur D, Kadlecek TA, Fallahee IR, Russ WP, Ranganathan R, Weiss A, Kuriyan J. An electrostatic selection mechanism controls sequential kinase signaling downstream of the T cell receptor. Elife. 5. PMID 27700984 DOI: 10.7554/eLife.20105  0.56
2016 Stiffler MA, Subramanian SK, Salinas VH, Ranganathan R. A Protocol for Functional Assessment of Whole-Protein Saturation Mutagenesis Libraries Utilizing High-Throughput Sequencing. Journal of Visualized Experiments : Jove. PMID 27403811 DOI: 10.3791/54119  0.56
2016 Raman AS, White KI, Ranganathan R. Origins of Allostery and Evolvability in Proteins: A Case Study. Cell. PMID 27321669 DOI: 10.1016/j.cell.2016.05.047  1
2016 Rivoire O, Reynolds KA, Ranganathan R. Evolution-Based Functional Decomposition of Proteins. Plos Computational Biology. 12: e1004817. PMID 27254668 DOI: 10.1371/journal.pcbi.1004817  1
2015 Stiffler MA, Hekstra DR, Ranganathan R. Evolvability as a function of purifying selection in TEM-1 β-lactamase. Cell. 160: 882-92. PMID 25723163 DOI: 10.1016/j.cell.2015.01.035  1
2014 Novinec M, Koren? M, Caflisch A, Ranganathan R, Lenar?i? B, Baici A. A novel allosteric mechanism in the cysteine peptidase cathepsin K discovered by computational methods. Nature Communications. 5: 3287. PMID 24518821 DOI: 10.1038/ncomms4287  1
2014 Ma L, Ranganathan R. Systems-level characterization of the kernel mechanism of the cyanobacterial circadian oscillator. Bio Systems. 117: 30-9. PMID 24444761 DOI: 10.1016/j.biosystems.2014.01.002  1
2013 Reynolds KA, Russ WP, Socolich M, Ranganathan R. Evolution-based design of proteins. Methods in Enzymology. 523: 213-35. PMID 23422432 DOI: 10.1016/B978-0-12-394292-0.00010-2  1
2012 McLaughlin RN, Poelwijk FJ, Raman A, Gosal WS, Ranganathan R. The spatial architecture of protein function and adaptation. Nature. 491: 138-42. PMID 23041932 DOI: 10.1038/nature11500  1
2012 Ma L, Ranganathan R. Quantifying the rhythm of KaiB-C interaction for in vitro cyanobacterial circadian clock. Plos One. 7: e42581. PMID 22900029 DOI: 10.1371/journal.pone.0042581  1
2011 Reynolds KA, McLaughlin RN, Ranganathan R. Hot spots for allosteric regulation on protein surfaces. Cell. 147: 1564-75. PMID 22196731 DOI: 10.1016/j.cell.2011.10.049  1
2011 Ma L, Ranganathan R. Kernel mechanism of the cyanobacterial circadian clock is a relaxation oscillator Proceedings of the Ieee Conference On Decision and Control. 5850-5855. DOI: 10.1109/CDC.2011.6161040  1
2010 Smock RG, Rivoire O, Russ WP, Swain JF, Leibler S, Ranganathan R, Gierasch LM. An interdomain sector mediating allostery in Hsp70 molecular chaperones. Molecular Systems Biology. 6: 414. PMID 20865007 DOI: 10.1038/msb.2010.65  1
2010 Levine B, Ranganathan R. Autophagy: Snapshot of the network. Nature. 466: 38-40. PMID 20596005 DOI: 10.1038/466038a  1
2009 Halabi N, Rivoire O, Leibler S, Ranganathan R. Protein sectors: evolutionary units of three-dimensional structure. Cell. 138: 774-86. PMID 19703402 DOI: 10.1016/j.cell.2009.07.038  1
2008 Lee J, Natarajan M, Nashine VC, Socolich M, Vo T, Russ WP, Benkovic SJ, Ranganathan R. Surface sites for engineering allosteric control in proteins. Science (New York, N.Y.). 322: 438-42. PMID 18927392 DOI: 10.1126/science.1159052  1
2008 Pumir A, Graves J, Ranganathan R, Shraiman BI. Systems analysis of the single photon response in invertebrate photoreceptors. Proceedings of the National Academy of Sciences of the United States of America. 105: 10354-9. PMID 18653755 DOI: 10.1073/pnas.0711884105  1
2007 Ranganathan R. Biochemistry. Signaling across the cell membrane. Science (New York, N.Y.). 318: 1253-4. PMID 18033872 DOI: 10.1126/science.1151656  1
2007 Mishra P, Socolich M, Wall MA, Graves J, Wang Z, Ranganathan R. Dynamic scaffolding in a G protein-coupled signaling system. Cell. 131: 80-92. PMID 17923089 DOI: 10.1016/j.cell.2007.07.037  1
2007 Laidlaw J, Gelfand Y, Ng KW, Garner HR, Ranganathan R, Benson G, Fondon JW. Elevated basal slippage mutation rates among the Canidae. The Journal of Heredity. 98: 452-60. PMID 17437958 DOI: 10.1093/jhered/esm017  1
2007 Ferguson AD, Amezcua CA, Halabi NM, Chelliah Y, Rosen MK, Ranganathan R, Deisenhofer J. Signal transduction pathway of TonB-dependent transporters. Proceedings of the National Academy of Sciences of the United States of America. 104: 513-8. PMID 17197416 DOI: 10.1073/pnas.0609887104  1
2006 Poole AM, Ranganathan R. Knowledge-based potentials in protein design. Current Opinion in Structural Biology. 16: 508-13. PMID 16843652 DOI: 10.1016/j.sbi.2006.06.013  1
2006 Natarajan M, Lin KM, Hsueh RC, Sternweis PC, Ranganathan R. A global analysis of cross-talk in a mammalian cellular signalling network. Nature Cell Biology. 8: 571-80. PMID 16699502 DOI: 10.1038/ncb1418  1
2005 Russ WP, Lowery DM, Mishra P, Yaffe MB, Ranganathan R. Natural-like function in artificial WW domains. Nature. 437: 579-83. PMID 16177795 DOI: 10.1038/nature03990  1
2005 Socolich M, Lockless SW, Russ WP, Lee H, Gardner KH, Ranganathan R. Evolutionary information for specifying a protein fold. Nature. 437: 512-8. PMID 16177782 DOI: 10.1038/nature03991  1
2004 Shulman AI, Larson C, Mangelsdorf DJ, Ranganathan R. Structural determinants of allosteric ligand activation in RXR heterodimers. Cell. 116: 417-29. PMID 15016376 DOI: 10.1016/S0092-8674(04)00119-9  1
2004 Jain RK, Ranganathan R. Local complexity of amino acid interactions in a protein core. Proceedings of the National Academy of Sciences of the United States of America. 101: 111-6. PMID 14684834 DOI: 10.1073/pnas.2534352100  1
2003 Hatley ME, Lockless SW, Gibson SK, Gilman AG, Ranganathan R. Allosteric determinants in guanine nucleotide-binding proteins. Proceedings of the National Academy of Sciences of the United States of America. 100: 14445-50. PMID 14623969 DOI: 10.1073/pnas.1835919100  1
2003 Ranganathan R. Cell biology. A matter of life or death. Science (New York, N.Y.). 299: 1677-9. PMID 12637727 DOI: 10.1126/science.1082509  1
2003 Süel GM, Lockless SW, Wall MA, Ranganathan R. Evolutionarily conserved networks of residues mediate allosteric communication in proteins. Nature Structural Biology. 10: 59-69. PMID 12483203 DOI: 10.1038/nsb881  1
2002 Gilman AG, Simon MI, Bourne HR, Harris BA, Long R, Ross EM, Stull JT, Taussig R, Bourne HR, Arkin AP, Cobb MH, Cyster JG, Devreotes PN, Ferrell JE, Fruman D, ... ... Ranganathan R, et al. Overview of the Alliance for Cellular Signaling. Nature. 420: 703-6. PMID 12478301 DOI: 10.1038/nature01304  0.4
2002 Russ WP, Ranganathan R. Knowledge-based potential functions in protein design. Current Opinion in Structural Biology. 12: 447-52. PMID 12163066 DOI: 10.1016/S0959-440X(02)00346-9  1
2000 Wall MA, Socolich M, Ranganathan R. The structural basis for red fluorescence in the tetrameric GFP homolog DsRed. Nature Structural Biology. 7: 1133-8. PMID 11101896 DOI: 10.1038/81992  1
2000 Kiselev A, Socolich M, Vinós J, Hardy RW, Zuker CS, Ranganathan R. A molecular pathway for light-dependent photoreceptor apoptosis in Drosophila. Neuron. 28: 139-52. PMID 11086990  1
1999 Lockless SW, Ranganathan R. Evolutionarily conserved pathways of energetic connectivity in protein families. Science (New York, N.Y.). 286: 295-9. PMID 10514373 DOI: 10.1126/science.286.5438.295  1
1999 Zuker CS, Ranganathan R. The path to specificity. Science (New York, N.Y.). 283: 650-1. PMID 9988659  1
1997 Ranganathan R, Ross EM. PDZ domain proteins: scaffolds for signaling complexes. Current Biology : Cb. 7: R770-3. PMID 9382826  1
1997 Ranganathan R, Lu KP, Hunter T, Noel JP. Structural and functional analysis of the mitotic rotamase Pin1 suggests substrate recognition is phosphorylation dependent. Cell. 89: 875-86. PMID 9200606  1
1996 Ranganathan R, Lewis JH, MacKinnon R. Spatial localization of the K+ channel selectivity filter by mutant cycle-based structure analysis. Neuron. 16: 131-9. PMID 8562077 DOI: 10.1016/S0896-6273(00)80030-6  1
1995 Ranganathan R, Stevens CF. Arrestin binding determines the rate of inactivation of the G protein-coupled receptor rhodopsin in vivo. Cell. 81: 841-8. PMID 7781061 DOI: 10.1016/0092-8674(95)90004-7  1
1995 Ranganathan R, Malicki DM, Zuker CS. Signal transduction in Drosophila photoreceptors. Annual Review of Neuroscience. 18: 283-317. PMID 7605064 DOI: 10.1146/annurev.ne.18.030195.001435  1
1994 Ranganathan R, Bacskai BJ, Tsien RY, Zuker CS. Cytosolic calcium transients: spatial localization and role in Drosophila photoreceptor cell function. Neuron. 13: 837-48. PMID 7946332 DOI: 10.1016/0896-6273(94)90250-X  1
1994 Ranganathan R. Evolutionary origins of ion channels. Proceedings of the National Academy of Sciences of the United States of America. 91: 3484-6. PMID 7513423  1
1993 Dolph PJ, Ranganathan R, Colley NJ, Hardy RW, Socolich M, Zuker CS. Arrestin function in inactivation of G protein-coupled receptor rhodopsin in vivo. Science (New York, N.Y.). 260: 1910-6. PMID 8316831  1
1991 Smith DP, Ranganathan R, Hardy RW, Marx J, Tsuchida T, Zuker CS. Photoreceptor deactivation and retinal degeneration mediated by a photoreceptor-specific protein kinase C. Science (New York, N.Y.). 254: 1478-84. PMID 1962207  1
1991 Ranganathan R, Harris GL, Stevens CF, Zuker CS. A Drosophila mutant defective in extracellular calcium-dependent photoreceptor deactivation and rapid desensitization. Nature. 354: 230-2. PMID 1961249 DOI: 10.1038/354230a0  1
1991 Ranganathan R, Harris WA, Zuker CS. The molecular genetics of invertebrate phototransduction. Trends in Neurosciences. 14: 486-93. PMID 1726765 DOI: 10.1016/0166-2236(91)90060-8  1
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