☰

Rohit V. Pappu - Publications

Affiliations: 
Biomedical Engineering Washington University, Saint Louis, St. Louis, MO 
Area:
General Biophysics, Condensed Matter Physics
Tree Info Similar researchers PubMed Report error

199/274 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
2023 Dar F, Cohen SR, Mitrea DM, Phillips AH, Nagy G, Leite WC, Stanley CB, Choi JM, Kriwacki RW, Pappu RV. Biomolecular condensates form spatially inhomogeneous network fluids. Research Square. PMID 37886520 DOI: 10.21203/rs.3.rs-3419423/v1  0.677
2023 Dar F, Cohen SR, Mitrea DM, Phillips AH, Nagy G, Leite WC, Stanley CB, Choi JM, Kriwacki RW, Pappu RV. Biomolecular condensates form spatially inhomogeneous network fluids. Biorxiv : the Preprint Server For Biology. PMID 37873180 DOI: 10.1101/2023.10.07.561338  0.677
2023 Farag M, Borcherds WM, Bremer A, Mittag T, Pappu RV. Phase separation of protein mixtures is driven by the interplay of homotypic and heterotypic interactions. Nature Communications. 14: 5527. PMID 37684240 DOI: 10.1038/s41467-023-41274-x  0.303
2023 Lalmansingh JM, Keeley AT, Ruff KM, Pappu RV, Holehouse AS. SOURSOP: A Python Package for the Analysis of Simulations of Intrinsically Disordered Proteins. Journal of Chemical Theory and Computation. PMID 37463458 DOI: 10.1021/acs.jctc.3c00190  0.337
2023 Lalmansingh JM, Keeley AT, Ruff KM, Pappu RV, Holehouse AS. SOURSOP: A Python package for the analysis of simulations of intrinsically disordered proteins. Biorxiv : the Preprint Server For Biology. PMID 36824878 DOI: 10.1101/2023.02.16.528879  0.336
2022 Ruff KM, Choi YH, Cox D, Ormsby AR, Myung Y, Ascher DB, Radford SE, Pappu RV, Hatters DM. Sequence grammar underlying the unfolding and phase separation of globular proteins. Molecular Cell. PMID 35853451 DOI: 10.1016/j.molcel.2022.06.024  0.301
2022 Zeng X, Ruff KM, Pappu RV. Competing interactions give rise to two-state behavior and switch-like transitions in charge-rich intrinsically disordered proteins. Proceedings of the National Academy of Sciences of the United States of America. 119: e2200559119. PMID 35512095 DOI: 10.1073/pnas.2200559119  0.323
2021 Zeng X, Liu C, Fossat MJ, Ren P, Chilkoti A, Pappu RV. Design of intrinsically disordered proteins that undergo phase transitions with lower critical solution temperatures. Apl Materials. 9. PMID 38362050 DOI: 10.1063/5.0037438  0.48
2020 Choi JM, Hyman AA, Pappu RV. Generalized models for bond percolation transitions of associative polymers. Physical Review. E. 102: 042403. PMID 33212590 DOI: 10.1103/PhysRevE.102.042403  0.668
2020 Dar F, Pappu R. Phase Separation: Restricting the sizes of condensates Elife. 9. PMID 32662769 DOI: 10.7554/Elife.59663  0.341
2020 Zeng X, Holehouse AS, Chilkoti A, Mittag T, Pappu RV. Connecting Coil-to-Globule Transitions to Full Phase Diagrams for Intrinsically Disordered Proteins. Biophysical Journal. PMID 32619404 DOI: 10.1016/J.Bpj.2020.06.014  0.404
2020 Cohan MC, Pappu RV. Making the Case for Disordered Proteins and Biomolecular Condensates in Bacteria. Trends in Biochemical Sciences. PMID 32456986 DOI: 10.1016/J.Tibs.2020.04.011  0.339
2020 Guillén-Boixet J, Kopach A, Holehouse AS, Wittmann S, Jahnel M, Schlüßler R, Kim K, Trussina IREA, Wang J, Mateju D, Poser I, Maharana S, Ruer-Gruß M, Richter D, Zhang X, ... ... Pappu RV, et al. RNA-Induced Conformational Switching and Clustering of G3BP Drive Stress Granule Assembly by Condensation. Cell. 181: 346-361.e17. PMID 32302572 DOI: 10.1016/J.Cell.2020.03.049  0.329
2020 Cohan MC, Eddelbuettel AMP, Levin PA, Pappu RV. Dissecting the functional contributions of the intrinsically disordered C-terminal tail of B. subtilis FtsZ. Journal of Molecular Biology. PMID 32198113 DOI: 10.1016/J.Jmb.2020.03.008  0.371
2020 Greig JA, Nguyen TA, Lee M, Holehouse AS, Posey AE, Pappu RV, Jedd G. Arginine-Enriched Mixed-Charge Domains Provide Cohesion for Nuclear Speckle Condensation. Molecular Cell. PMID 32048997 DOI: 10.1016/J.Molcel.2020.01.025  0.36
2020 Martin EW, Holehouse AS, Peran I, Farag M, Incicco JJ, Bremer A, Grace CR, Soranno A, Pappu RV, Mittag T. Valence and patterning of aromatic residues determine the phase behavior of prion-like domains. Science (New York, N.Y.). 367: 694-699. PMID 32029630 DOI: 10.1126/Science.Aaw8653  0.367
2020 Choi JM, Holehouse AS, Pappu RV. Physical Principles Underlying the Complex Biology of Intracellular Phase Transitions. Annual Review of Biophysics. PMID 32004090 DOI: 10.1146/Annurev-Biophys-121219-081629  0.698
2020 Pappu RV, Grosberg A. Decision letter: Dynamic metastable long-living droplets formed by sticker-spacer proteins Elife. DOI: 10.7554/Elife.56159.Sa1  0.302
2020 Posey AE, Fossat MJ, Pappu RV. Quantifying the Effects of Charge Regulation on Disorder-Order Transitions of Highly Charged Protein Sequences Biophysical Journal. 118: 540a-541a. DOI: 10.1016/J.Bpj.2019.11.2960  0.344
2020 Fossat MJ, Posey AE, Pappu RV. Heuristics for the Effects of Sequence and Conformational Contexts on pKA Values of Ionizable Residues Inferred from Q-Canonical Monte Carlo Simulations Biophysical Journal. 118: 539a-540a. DOI: 10.1016/J.Bpj.2019.11.2956  0.357
2020 Choi J, Pappu RV. The Stickers and Spacers Framework for Describing Phase Behavior of Multivalent Intrinsically Disordered Proteins Biophysical Journal. 118: 492a. DOI: 10.1016/J.Bpj.2019.11.2723  0.699
2020 Martin EW, Holehouse AS, Peran I, Incicco J, Soranno A, Pappu RV, Mittag T. Evolutionarily Conserved Amino Acid Organization in Protein Low Complexity Regions Encodes Conformation, Dynamics and Assembly Biophysical Journal. 118: 6a. DOI: 10.1016/J.Bpj.2019.11.226  0.343
2020 Zeng X, Pappu RV. Combined Theoretical and Computational Approach for Calculating Sequence-specific Phase Diagrams of Thermoresponsive Intrinsically Disordered Homopolypeptides Biophysical Journal. 118: 304a. DOI: 10.1016/J.Bpj.2019.11.1721  0.336
2020 Dar F, Pappu RV. Multidimensional Phase Diagrams for Multicomponent Systems Comprising Multivalent Proteins Biophysical Journal. 118: 213a. DOI: 10.1016/J.Bpj.2019.11.1270  0.31
2019 Choi JM, Dar F, Pappu RV. LASSI: A lattice model for simulating phase transitions of multivalent proteins. Plos Computational Biology. 15: e1007028. PMID 31634364 DOI: 10.1371/Journal.Pcbi.1007028  0.726
2019 Powers SK, Holehouse AS, Korasick DA, Schreiber KH, Clark NM, Jing H, Emenecker R, Han S, Tycksen E, Hwang I, Sozzani R, Jez JM, Pappu RV, Strader LC. Nucleo-cytoplasmic Partitioning of ARF Proteins Controls Auxin Responses in Arabidopsis thaliana. Molecular Cell. PMID 31421981 DOI: 10.1016/J.Molcel.2019.06.044  0.317
2019 Cohan MC, Ruff KM, Pappu RV. Information theoretic measures for quantifying sequence-ensemble relationships of intrinsically disordered proteins. Protein Engineering, Design & Selection : Peds. PMID 31375817 DOI: 10.1093/Protein/Gzz014  0.346
2019 Fossat MJ, Pappu RV. -Canonical Monte Carlo Sampling for Modeling the Linkage between Charge Regulation and Conformational Equilibria of Peptides. The Journal of Physical Chemistry. B. PMID 31362509 DOI: 10.1021/Acs.Jpcb.9B05206  0.361
2019 Bai W, Sargent CJ, Choi JM, Pappu RV, Zhang F. Covalently-assembled single-chain protein nanostructures with ultra-high stability. Nature Communications. 10: 3317. PMID 31346167 DOI: 10.1038/S41467-019-11285-8  0.717
2019 Cable J, Brangwynne C, Seydoux G, Cowburn D, Pappu RV, Castañeda CA, Berchowitz LE, Chen Z, Jonikas M, Dernburg A, Mittag T, Fawzi NL. Phase separation in biology and disease-a symposium report. Annals of the New York Academy of Sciences. PMID 31199001 DOI: 10.1111/Nyas.14126  0.325
2019 Peran I, Holehouse AS, Carrico IS, Pappu RV, Bilsel O, Raleigh DP. Unfolded states under folding conditions accommodate sequence-specific conformational preferences with random coil-like dimensions. Proceedings of the National Academy of Sciences of the United States of America. PMID 31167941 DOI: 10.1073/Pnas.1818206116  0.429
2019 Boeynaems S, Holehouse AS, Weinhardt V, Kovacs D, Van Lindt J, Larabell C, Van Den Bosch L, Das R, Tompa PS, Pappu RV, Gitler AD. Spontaneous driving forces give rise to protein-RNA condensates with coexisting phases and complex material properties. Proceedings of the National Academy of Sciences of the United States of America. PMID 30926670 DOI: 10.1073/Pnas.1821038116  0.332
2019 Beveridge R, Migas LG, Das RK, Pappu RV, Kriwacki RW, Barran PE. Ion mobility mass spectrometry uncovers the impact of the patterning of oppositely charged residues on the conformational distributions of intrinsically disordered proteins. Journal of the American Chemical Society. PMID 30823702 DOI: 10.1021/Jacs.8B13483  0.387
2019 Choi JM, Pappu RV. Improvements to the ABSINTH forcefield for proteins based on experimentally derived amino-acid specific backbone conformational statistics. Journal of Chemical Theory and Computation. PMID 30633502 DOI: 10.1021/Acs.Jctc.8B00573  0.699
2019 Pappu RV. Making and Breaking the Symmetry between Sequence-Specific Conformational and Phase Behaviors of Disordered Proteins Biophysical Journal. 116: 161a. DOI: 10.1016/J.Bpj.2018.11.895  0.405
2019 Michnick S, Bergeron-Sandoval L, Pappu R, François P, Hendricks AG, Ehrlicher AJ, Khadivi Heris H. A Protein Condensate Drives Actin-Independent Endocytosis Biophysical Journal. 116: 161a. DOI: 10.1016/J.Bpj.2018.11.894  0.304
2019 Lalmansingh JM, Choi J, Pappu RV. Comparison of Forcefields in the Prediction of Intrinsic Residue-Specific Backbone Dihedral Angle Distributions of Blocked Amino Acids Biophysical Journal. 116: 145a. DOI: 10.1016/J.Bpj.2018.11.806  0.676
2019 Dar F, Choi J, Pappu RV. Computational Studies of the Phase Transitions and Network Structure of Dense Liquids Formed by Linear Multivalent Proteins Biophysical Journal. 116: 349a. DOI: 10.1016/J.Bpj.2018.11.1900  0.683
2019 Choi J, Mitrea DM, Stanley CB, Ruff KM, Holehouse AS, Kriwacki RW, Pappu RV. Internal Structure of Network Fluid Condensates Formed by Liquid-Liquid Phase Separation of a Multivalent Oligomeric Protein and a Disordered Linear Peptide Biophysical Journal. 116: 349a. DOI: 10.1016/J.Bpj.2018.11.1899  0.695
2019 Fossat MJ, Posey AE, Pappu RV. Introducing a Novel Multi-Level Method for Simulating the pH Dependence of Charge State Fluctuations and Conformational Ensembles of Intrinsically Disordered Proteins Biophysical Journal. 116: 287a. DOI: 10.1016/J.Bpj.2018.11.1549  0.384
2019 Cohan M, Holehouse AS, Pappu RV. Measures Adapted from Information Theory and Energy Landscape Theory for Quantifying Sequence-To-Conformation Relationships of Intrinsically Disordered Regions Biophysical Journal. 116: 200a. DOI: 10.1016/J.Bpj.2018.11.1107  0.312
2019 Holehouse AS, Peran I, Stenzoski NE, Zou J, Piserchio A, Ghose R, Carrico IS, Bilsel O, Raleigh DP, Pappu RV. Protein Unfolded States are Characterized by the Duality of Sequence-Specific Conformational Preferences and Ensemble-Averaged Features of Canonical Random Coils Biophysical Journal. 116: 199a-200a. DOI: 10.1016/J.Bpj.2018.11.1104  0.394
2019 Ruff KM, Posey AE, Pappu RV. Modeling the Effects of Ligand Binding on the Phase Behavior of Aggregation-Prone Proteins Biophysical Journal. 116: 199a. DOI: 10.1016/J.Bpj.2018.11.1100  0.329
2019 Martin EW, Holehouse AS, Peran I, Bremer A, Pappu RV, Mittag T. Correlating Amino Acid Sequence and Solvation to Disordered Protein Collapse Transitions and Phase Separation Biophysical Journal. 116: 194a. DOI: 10.1016/J.Bpj.2018.11.1076  0.376
2018 Choi JM, Pappu RV. Experimentally derived and computationally optimized backbone conformational statistics for blocked amino acids. Journal of Chemical Theory and Computation. PMID 30516982 DOI: 10.1021/Acs.Jctc.8B00572  0.716
2018 Posey AE, Holehouse AS, Pappu RV. Phase Separation of Intrinsically Disordered Proteins. Methods in Enzymology. 611: 1-30. PMID 30471685 DOI: 10.1016/Bs.Mie.2018.09.035  0.403
2018 Ruff KM, Pappu RV, Holehouse AS. Conformational preferences and phase behavior of intrinsically disordered low complexity sequences: insights from multiscale simulations. Current Opinion in Structural Biology. 56: 1-10. PMID 30439585 DOI: 10.1016/J.Sbi.2018.10.003  0.422
2018 Roberts S, Harmon TS, Schaal J, Miao V, Li KJ, Hunt A, Wen Y, Oas TG, Collier JH, Pappu RV, Chilkoti A. Injectable tissue integrating networks from recombinant polypeptides with tunable order. Nature Materials. PMID 30323334 DOI: 10.1038/S41563-018-0182-6  0.376
2018 Fuertes G, Banterle N, Ruff KM, Chowdhury A, Pappu RV, Svergun DI, Lemke EA. Comment on "Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water". Science (New York, N.Y.). 361. PMID 30166461 DOI: 10.1126/Science.Aau8230  0.355
2018 Yoo TY, Choi JM, Conway W, Yu CH, Pappu RV, Needleman DJ. Measuring NDC80 binding reveals the molecular basis of tension-dependent kinetochore-microtubule attachments. Elife. 7. PMID 30044223 DOI: 10.7554/Elife.36392  0.668
2018 Mirbaha H, Chen D, Morazova OA, Ruff KM, Sharma AM, Liu X, Goodarzi M, Pappu RV, Colby DW, Mirzaei H, Joachimiak LA, Diamond MI. Inert and seed-competent tau monomers suggest structural origins of aggregation. Elife. 7. PMID 29988016 DOI: 10.7554/Elife.36584  0.321
2018 Posey AE, Pappu RV. A First Glimpse of Nucleation of Phase Transitions in Living Cells. Molecular Cell. 71: 1-3. PMID 29979961 DOI: 10.1016/J.Molcel.2018.06.028  0.325
2018 Wang J, Choi JM, Holehouse AS, Lee HO, Zhang X, Jahnel M, Maharana S, Lemaitre R, Pozniakovsky A, Drechsel D, Poser I, Pappu RV, Alberti S, Hyman AA. A Molecular Grammar Governing the Driving Forces for Phase Separation of Prion-like RNA Binding Proteins. Cell. PMID 29961577 DOI: 10.1016/J.Cell.2018.06.006  0.727
2018 Ruff KM, Roberts S, Chilkoti A, Pappu RV. Advances in Understanding Stimulus Responsive Phase Behavior of Intrinsically Disordered Protein Polymers. Journal of Molecular Biology. PMID 29949750 DOI: 10.1016/J.Jmb.2018.06.031  0.385
2018 Mittal A, Holehouse AS, Cohan MC, Pappu RV. Equation Chapter 1 Section 1Sequence-To-Conformation Relationships of Disordered Regions Tethered to Folded Domains of Proteins. Journal of Molecular Biology. PMID 29763584 DOI: 10.1016/J.Jmb.2018.05.012  0.428
2018 Newcombe EA, Ruff KM, Sethi A, Ormsby AR, Ramdzan YM, Fox A, Purcell AW, Gooley PR, Pappu RV, Hatters DM. Tadpole-like conformations of huntingtin exon 1 are characterized by conformational heterogeneity that persists regardless of polyglutamine length. Journal of Molecular Biology. PMID 29627459 DOI: 10.1016/J.Jmb.2018.03.031  0.394
2018 Staller MV, Holehouse AS, Swain-Lenz D, Das RK, Pappu RV, Cohen BA. A High-Throughput Mutational Scan of an Intrinsically Disordered Acidic Transcriptional Activation Domain. Cell Systems. PMID 29525204 DOI: 10.1016/J.Cels.2018.01.015  0.377
2018 Garai K, Posey AE, Li X, Buxbaum JN, Pappu RV. Inhibition of Amyloid Beta Fibril Formation by Monomeric Human Transthyretin. Protein Science : a Publication of the Protein Society. PMID 29498118 DOI: 10.1002/Pro.3396  0.332
2018 Posey AE, Ruff KM, Harmon TS, Crick SL, Li A, Diamond MI, Pappu RV. Profilin reduces aggregation and phase separation of huntingtin N-terminal fragments by preferentially binding to soluble monomers and oligomers. The Journal of Biological Chemistry. PMID 29358329 DOI: 10.1074/Jbc.Ra117.000357  0.754
2018 Holehouse AS, Pappu RV. Collapse Transitions of Proteins and the Interplay Among Backbone, Sidechain, and Solvent Interactions. Annual Review of Biophysics. PMID 29345991 DOI: 10.1146/Annurev-Biophys-070317-032838  0.456
2018 Holehouse AS, Pappu RV. Functional Implications of Intracellular Phase Transitions. Biochemistry. PMID 29323488 DOI: 10.1021/Acs.Biochem.7B01136  0.309
2018 Franzmann TM, Jahnel M, Pozniakovsky A, Mahamid J, Holehouse AS, Nüske E, Richter D, Baumeister W, Grill SW, Pappu RV, Hyman AA, Alberti S. Phase separation of a yeast prion protein promotes cellular fitness. Science (New York, N.Y.). 359. PMID 29301985 DOI: 10.1126/Science.Aao5654  0.327
2018 Pappu RV, Hatters DM. Decision letter: A first order phase transition mechanism underlies protein aggregation in mammalian cells Elife. DOI: 10.7554/Elife.39695.018  0.332
2018 Yoo TY, Choi J, Conway W, Yu C, Pappu RV, Needleman DJ. Author response: Measuring NDC80 binding reveals the molecular basis of tension-dependent kinetochore-microtubule attachments Elife. DOI: 10.7554/Elife.36392.025  0.663
2018 Harmon TS, Holehouse AS, Pappu RV. Differential solvation of intrinsically disordered linkers drives the formation of spatially organized droplets in ternary systems of linear multivalent proteins New Journal of Physics. 20: 045002. DOI: 10.1088/1367-2630/Aab8D9  0.355
2018 Richardson MO, Holehouse AS, Langstein I, Korber P, Pappu RV. Large-Scale Analysis of the Evolution of Functions Mediated by Intrinsically Disordered Regions Biophysical Journal. 114: 79a. DOI: 10.1016/J.Bpj.2017.11.480  0.301
2018 Cohan M, Posey A, Mittal A, Grigsby S, Holehouse A, Buske PJ, Levin PA, Pappu RV. Sequence-Encoded Charge Patterning of the Intrinsically Disordered Tail of FtsZ Impacts Polymerization and Bacterial Cell Division Biophysical Journal. 114: 590a. DOI: 10.1016/J.Bpj.2017.11.3226  0.317
2018 Posey AE, Kandola T, Pappu RV, Halfmann R. Advances in Quantitative Analysis of Intracellular Protein Phase Separation Kinetics and its Modulation by Cellular Interactions Biophysical Journal. 114: 588a. DOI: 10.1016/J.Bpj.2017.11.3219  0.336
2018 Choi J, Wang J, Holehouse AS, Alberti S, Hyman AA, Pappu RV. Molecular Grammar Governing Phase Behavior of Intrinsically Disordered Proteins with Prion-like Domains Biophysical Journal. 114: 561a. DOI: 10.1016/J.Bpj.2017.11.3067  0.715
2018 Fossat MJ, Harmon TS, Posey AE, Choi J, Pappu RV. Increasing the Accuracy in All-Atom Simulations of Intrinsically Disordered Proteins based on the Absinth Model Biophysical Journal. 114: 432a. DOI: 10.1016/J.Bpj.2017.11.2392  0.706
2018 Ruff KM, Fuertes G, Banterle N, Svergun DI, Lemke EA, Pappu RV. Sequence-Encoded Heterogeneity of Interactions Decouples Different Measures of Protein Sizes and Reconciles the Discrepant Inferences from Saxs versus Fret Experiments Biophysical Journal. 114: 368a. DOI: 10.1016/J.Bpj.2017.11.2039  0.346
2018 Holehouse AS, Pappu RV. A General Framework for Predicting and Understanding Sequence-Encoded Phase Diagrams of Intrinsically Disordered Proteins Biophysical Journal. 114: 4a. DOI: 10.1016/J.Bpj.2017.11.051  0.383
2017 Harmon TS, Holehouse AS, Rosen MK, Pappu RV. Intrinsically disordered linkers determine the interplay between phase separation and gelation in multivalent proteins. Elife. 6. PMID 29091028 DOI: 10.7554/Elife.30294  0.409
2017 Sherry KP, Das RK, Pappu RV, Barrick D. Control of transcriptional activity by design of charge patterning in the intrinsically disordered RAM region of the Notch receptor. Proceedings of the National Academy of Sciences of the United States of America. PMID 29078291 DOI: 10.1073/Pnas.1706083114  0.365
2017 Wei MT, Elbaum-Garfinkle S, Holehouse AS, Chen CC, Feric M, Arnold CB, Priestley RD, Pappu RV, Brangwynne CP. Phase behaviour of disordered proteins underlying low density and high permeability of liquid organelles. Nature Chemistry. 9: 1118-1125. PMID 29064502 DOI: 10.1038/Nchem.2803  0.405
2017 Holehouse AS, Pappu RV. FUS Zigzags Its Way to Cross Beta. Cell. 171: 499-500. PMID 29053965 DOI: 10.1016/J.Cell.2017.10.007  0.322
2017 Warner JB, Ruff K, Tan PS, Lemke EA, Pappu RV, Lashuel HA. Monomeric huntingtin exon 1 has similar overall structural features for wild type and pathological polyglutamine lengths. Journal of the American Chemical Society. PMID 28937758 DOI: 10.1021/Jacs.7B06659  0.404
2017 Fuertes G, Banterle N, Ruff KM, Chowdhury A, Mercadante D, Koehler C, Kachala M, Estrada Girona G, Milles S, Mishra A, Onck PR, Gräter F, Esteban-Martín S, Pappu RV, Svergun DI, et al. Decoupling of size and shape fluctuations in heteropolymeric sequences reconciles discrepancies in SAXS vs. FRET measurements. Proceedings of the National Academy of Sciences of the United States of America. PMID 28716919 DOI: 10.1073/Pnas.1704692114  0.385
2017 Sormanni P, Piovesan D, Heller GT, Bonomi M, Kukic P, Camilloni C, Fuxreiter M, Dosztanyi Z, Pappu RV, Babu MM, Longhi S, Tompa P, Dunker AK, Uversky VN, Tosatto SC, et al. Simultaneous quantification of protein order and disorder. Nature Chemical Biology. 13: 339-342. PMID 28328918 DOI: 10.1038/Nchembio.2331  0.386
2017 Kalas V, Pinkner JS, Hannan TJ, Hibbing ME, Dodson KW, Holehouse AS, Zhang H, Tolia NH, Gross ML, Pappu RV, Janetka J, Hultgren SJ. Evolutionary fine-tuning of conformational ensembles in FimH during host-pathogen interactions. Science Advances. 3: e1601944. PMID 28246638 DOI: 10.1126/Sciadv.1601944  0.321
2017 Holehouse AS, Das RK, Ahad JN, Richardson MO, Pappu RV. CIDER: Resources to Analyze Sequence-Ensemble Relationships of Intrinsically Disordered Proteins. Biophysical Journal. 112: 16-21. PMID 28076807 DOI: 10.1016/J.Bpj.2016.11.3200  0.403
2017 Harmon TS, Holehouse AS, Rosen MK, Pappu RV. Author response: Intrinsically disordered linkers determine the interplay between phase separation and gelation in multivalent proteins Elife. DOI: 10.7554/Elife.30294.022  0.351
2017 Cohan MC, Posey A, Grigsby S, Holehouse AS, Mittal A, Buske PJ, Levin P, Pappu RV. The Intrinsically Disordered Tail of FtsZ Impacts Polymerization and Bacterial Cell Division Through Sequence-Encoded Charge Patterning Biophysical Journal. 112: 510a-511a. DOI: 10.1016/J.Bpj.2016.11.2760  0.317
2017 Holehouse AS, Perana I, Carrico IS, Bilsel O, Raleigh DP, Pappu RV. Simulations and Experiments Provide a Convergent View of Protein Unfolded States under Folding Conditions Biophysical Journal. 112: 315a. DOI: 10.1016/J.Bpj.2016.11.1709  0.474
2017 Choi J, Pappu RV. Lattice Models for Modeling Sequence-Specific Phase Behavior of Low Complexity Domains Biophysical Journal. 112: 208a. DOI: 10.1016/J.Bpj.2016.11.1151  0.739
2017 Harmon TS, Roberts S, Chilkoti A, Pappu RV. A Model for Hysteresis Observed in Phase Transitions of Thermally Responsive Intrinsically Disordered Protein Polymers Biophysical Journal. 112: 207a. DOI: 10.1016/J.Bpj.2016.11.1143  0.383
2016 Martin EW, Holehouse AS, Grace CR, Hughes A, Pappu RV, Mittag T. Sequence determinants of the conformational properties of an intrinsically disordered protein prior to and upon multisite phosphorylation. Journal of the American Chemical Society. PMID 27807972 DOI: 10.1021/Jacs.6B10272  0.423
2016 Harmon TS, Crabtree MD, Shammas SL, Posey AE, Clarke J, Pappu RV. GADIS: Algorithm for designing sequences to achieve target secondary structure profiles of intrinsically disordered proteins. Protein Engineering, Design & Selection : Peds. PMID 27503953 DOI: 10.1093/Protein/Gzw034  0.389
2016 Pak CW, Kosno M, Holehouse AS, Padrick SB, Mittal A, Ali R, Yunus AA, Liu DR, Pappu RV, Rosen MK. Sequence Determinants of Intracellular Phase Separation by Complex Coacervation of a Disordered Protein. Molecular Cell. 63: 72-85. PMID 27392146 DOI: 10.1016/J.Molcel.2016.05.042  0.409
2016 Feric M, Vaidya N, Harmon TS, Mitrea DM, Zhu L, Richardson TM, Kriwacki RW, Pappu RV, Brangwynne CP. Coexisting Liquid Phases Underlie Nucleolar Subcompartments. Cell. PMID 27212236 DOI: 10.1016/J.Cell.2016.04.047  0.306
2016 Das RK, Huang Y, Phillips AH, Kriwacki RW, Pappu RV. Cryptic sequence features within the disordered protein p27Kip1 regulate cell cycle signaling. Proceedings of the National Academy of Sciences of the United States of America. PMID 27140628 DOI: 10.1073/Pnas.1516277113  0.355
2016 Holehouse AS, Harmon TS, Pappu RV. Physical Principles that Govern the Sequence-Encoded Phase Behavior of Intrinsically Disordered Block-Copolymeric Proteins Biophysical Journal. 110: 37a. DOI: 10.1016/J.Bpj.2015.11.268  0.408
2016 Posey AE, Ruff KM, Harmon TS, Holehouse AS, Pappu RV. Profilin Binding Modulates the Aggregation and Phase Separation of Huntingtin N-Terminal Fragments via Polyphasic Linkage Biophysical Journal. 110: 399a. DOI: 10.1016/J.Bpj.2015.11.2156  0.41
2016 Harmon TS, Pappu RV. Charge Patterned Sequences form Helical Structures through Charge Neutralization Biophysical Journal. 110: 358a. DOI: 10.1016/J.Bpj.2015.11.1931  0.385
2016 Kalas V, Pinkner JS, Holehouse AS, Zhang H, Gross ML, Pappu RV, Hultgren SJ. Dynamic Sampling of Multiple Conformations in FimH Modulates Bacterial Adhesion Biophysical Journal. 110: 12a-13a. DOI: 10.1016/J.Bpj.2015.11.125  0.385
2016 Pappu RV. Impacts of Charge Patterning on Intrinsically Disordered Proteins and Mechanisms of Disorder-To-Order Transitions Biophysical Journal. 110: 196a. DOI: 10.1016/J.Bpj.2015.11.1094  0.401
2015 Ruff KM, Harmon TS, Pappu RV. CAMELOT: A machine learning approach for coarse-grained simulations of aggregation of block-copolymeric protein sequences. The Journal of Chemical Physics. 143: 243123. PMID 26723608 DOI: 10.1063/1.4935066  0.41
2015 Banjade S, Wu Q, Mittal A, Peeples WB, Pappu RV, Rosen MK. Conserved interdomain linker promotes phase separation of the multivalent adaptor protein Nck. Proceedings of the National Academy of Sciences of the United States of America. PMID 26553976 DOI: 10.1073/Pnas.1508778112  0.376
2015 Holehouse AS, Pappu RV. Protein polymers: Encoding phase transitions. Nature Materials. 14: 1083-4. PMID 26490213 DOI: 10.1038/Nmat4459  0.337
2015 Das RK, Ruff KM, Pappu RV. Relating sequence encoded information to form and function of intrinsically disordered proteins. Current Opinion in Structural Biology. 32: 102-12. PMID 25863585 DOI: 10.1016/J.Sbi.2015.03.008  0.427
2015 Pappu RV. Cell signaling, division, and organization mediated by intrinsically disordered proteins. Seminars in Cell & Developmental Biology. 37: 1-2. PMID 25703796 DOI: 10.1016/J.Semcdb.2015.01.003  0.315
2015 Diamond MI, Cai S, Boudreau A, Carey CJ, Lyle N, Pappu RV, Swamidass SJ, Bissell M, Piwnica-Worms H, Shao J. Subcellular localization and Ser-137 phosphorylation regulate tumor-suppressive activity of profilin-1. The Journal of Biological Chemistry. 290: 9075-86. PMID 25681442 DOI: 10.1074/Jbc.M114.619874  0.718
2015 Holehouse AS, Garai K, Lyle N, Vitalis A, Pappu RV. Quantitative assessments of the distinct contributions of polypeptide backbone amides versus side chain groups to chain expansion via chemical denaturation. Journal of the American Chemical Society. 137: 2984-95. PMID 25664638 DOI: 10.1021/Ja512062H  0.817
2015 Buske PJ, Mittal A, Pappu RV, Levin PA. An intrinsically disordered linker plays a critical role in bacterial cell division. Seminars in Cell & Developmental Biology. 37: 3-10. PMID 25305578 DOI: 10.1016/J.Semcdb.2014.09.017  0.371
2015 Brangwynne CP, Tompa P, Pappu RV. Polymer physics of intracellular phase transitions Nature Physics. 11: 899-904. DOI: 10.1038/Nphys3532  0.303
2015 Ruff KM, Pappu RV. Multiscale Simulations Provide Mechanistic Insights into the Effects of Sequence Contexts on Early-Stage Polyglutamine-Mediated Aggregation Biophysical Journal. 108: 495a. DOI: 10.1016/J.Bpj.2014.11.2710  0.408
2015 Holehouse AS, Ahad J, Das RK, Pappu RV. CIDER: Classification of Intrinsically Disordered Ensemble Regions Biophysical Journal. 108: 228a. DOI: 10.1016/J.Bpj.2014.11.1260  0.422
2015 Harmon TS, Pappu RV. An Evolutionary Algorithm for the Design of Different Degrees of Secondary Structure in Intrinsically Disordered Proteins (IDPs) Biophysical Journal. 108: 228a. DOI: 10.1016/J.Bpj.2014.11.1259  0.412
2015 Sherry K, Das R, Pappu R, Barrick D. Effects of Charge Interactions and Transient Secondary Structure Elements on the Function of the Disordered RAM Region of the Notch Receptor Biophysical Journal. 108: 193a-194a. DOI: 10.1016/J.Bpj.2014.11.1071  0.35
2014 Ripaud L, Chumakova V, Antonin M, Hastie AR, Pinkert S, Körner R, Ruff KM, Pappu RV, Hornburg D, Mann M, Hartl FU, Hipp MS. Overexpression of Q-rich prion-like proteins suppresses polyQ cytotoxicity and alters the polyQ interactome. Proceedings of the National Academy of Sciences of the United States of America. 111: 18219-24. PMID 25489109 DOI: 10.1073/Pnas.1421313111  0.42
2014 Ruff KM, Khan SJ, Pappu RV. A coarse-grained model for polyglutamine aggregation modulated by amphipathic flanking sequences. Biophysical Journal. 107: 1226-35. PMID 25185558 DOI: 10.1016/J.Bpj.2014.07.019  0.411
2014 Pappu RV. Frozen in beta. Biophysical Journal. 107: 795-7. PMID 25140412 DOI: 10.1016/J.Bpj.2014.07.007  0.415
2014 Mittal A, Lyle N, Harmon TS, Pappu RV. Hamiltonian Switch Metropolis Monte Carlo Simulations for Improved Conformational Sampling of Intrinsically Disordered Regions Tethered to Ordered Domains of Proteins. Journal of Chemical Theory and Computation. 10: 3550-3562. PMID 25136274 DOI: 10.1021/Ct5002297  0.787
2014 Vitalis A, Pappu RV. A simple molecular mechanics integrator in mixed rigid body and dihedral angle space. The Journal of Chemical Physics. 141: 034105. PMID 25053299 DOI: 10.1063/1.4887339  0.645
2014 van der Lee R, Buljan M, Lang B, Weatheritt RJ, Daughdrill GW, Dunker AK, Fuxreiter M, Gough J, Gsponer J, Jones DT, Kim PM, Kriwacki RW, Oldfield CJ, Pappu RV, Tompa P, et al. Classification of intrinsically disordered regions and proteins. Chemical Reviews. 114: 6589-631. PMID 24773235 DOI: 10.1021/Cr400525M  0.376
2014 Luan B, Lyle N, Pappu RV, Raleigh DP. Denatured state ensembles with the same radii of gyration can form significantly different long-range contacts. Biochemistry. 53: 39-47. PMID 24280003 DOI: 10.1021/Bi4008337  0.775
2014 Holehouse AS, Lyle N, Vitalis A, Thirumalai D, Pappu RV. Parsing the Contributions of Polypeptide Backbones and Sidechains to Denaturation in Concentrated Aqueous Solutions of Urea and Guanidinium Chloride Biophysical Journal. 106: 484a. DOI: 10.1016/J.Bpj.2013.11.2731  0.801
2014 Ruff KM, Garai K, Pappu RV. Role of Intrinsic Helicity Within N-Terminal Flanking Sequences on Huntingtin Aggregation Mechanisms Biophysical Journal. 106: 483a. DOI: 10.1016/J.Bpj.2013.11.2727  0.368
2014 Harmon TS, Rosen MK, Pappu RV. Coarse Grain Models Highlight the Importance of Flexible Disordered Linkers as Determinants of the Phase Behavior in Polyvalent Proteins Biophysical Journal. 106: 481a. DOI: 10.1016/J.Bpj.2013.11.2718  0.395
2014 Mittal A, Garai K, Pappu RV. How Do Interactions in Cis with Ordered Domains Influence Sequence-Ensemble Relationships of Intrinsically Disordered Regions? Biophysical Journal. 106: 425a-426a. DOI: 10.1016/J.Bpj.2013.11.2398  0.388
2014 Garai K, Li X, Powers EM, Buxbaum J, Pappu R. Transthyretin Interacts with Amyloid-β Oligomers to Delay Amyloid Aggregation Biophysical Journal. 106: 270a. DOI: 10.1016/J.Bpj.2013.11.1581  0.338
2014 Pappu R. Decoding Sequence-Ensemble Relationships of IDPS Biophysical Journal. 106: 5a. DOI: 10.1016/J.Bpj.2013.11.063  0.398
2013 Crick SL, Ruff KM, Garai K, Frieden C, Pappu RV. Unmasking the roles of N- and C-terminal flanking sequences from exon 1 of huntingtin as modulators of polyglutamine aggregation. Proceedings of the National Academy of Sciences of the United States of America. 110: 20075-80. PMID 24282292 DOI: 10.1073/Pnas.1320626110  0.782
2013 Lyle N, Das RK, Pappu RV. A quantitative measure for protein conformational heterogeneity. The Journal of Chemical Physics. 139: 121907. PMID 24089719 DOI: 10.1063/1.4812791  0.787
2013 Das RK, Pappu RV. Conformations of intrinsically disordered proteins are influenced by linear sequence distributions of oppositely charged residues. Proceedings of the National Academy of Sciences of the United States of America. 110: 13392-7. PMID 23901099 DOI: 10.1073/Pnas.1304749110  0.416
2013 Meng W, Luan B, Lyle N, Pappu RV, Raleigh DP. The denatured state ensemble contains significant local and long-range structure under native conditions: analysis of the N-terminal domain of ribosomal protein L9. Biochemistry. 52: 2662-71. PMID 23480024 DOI: 10.1021/Bi301667U  0.78
2013 Meng W, Lyle N, Luan B, Raleigh DP, Pappu RV. Experiments and simulations show how long-range contacts can form in expanded unfolded proteins with negligible secondary structure. Proceedings of the National Academy of Sciences of the United States of America. 110: 2123-8. PMID 23341588 DOI: 10.1073/Pnas.1216979110  0.787
2013 Mao AH, Lyle N, Pappu RV. Describing sequence-ensemble relationships for intrinsically disordered proteins. The Biochemical Journal. 449: 307-18. PMID 23240611 DOI: 10.1042/Bj20121346  0.811
2013 Das RK, Mittal A, Pappu RV. How is functional specificity achieved through disordered regions of proteins? Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 35: 17-22. PMID 23138868 DOI: 10.1002/Bies.201200115  0.372
2013 Crick SL, Ruff KM, Garai K, Frieden C, Pappu RV. Unmasking the roles of N- and C-terminal flanking sequences from exon 1 of huntingtin as modulators of polyglutamine aggregation Proceedings of the National Academy of Sciences of the United States of America. 110: 20075-20080. DOI: 10.1073/pnas.1320626110  0.765
2013 Lyle NJ, Pappu RV. Quantifying Disorder using Simulated Ensembles for Different Classes of Polypeptides Biophysical Journal. 104: 53a. DOI: 10.1016/J.Bpj.2012.11.335  0.796
2013 Das RK, Ruff K, Pappu RV. Functional Implications of Intrinsic Helicities within Basic Regions of bZIP Transcription Factors Biophysical Journal. 104: 53a. DOI: 10.1016/J.Bpj.2012.11.334  0.374
2013 Mittal A, Das RK, Pappu RV. Assessing the Coupling in cis between Disordered Regions and Ordered Domains Biophysical Journal. 104: 53a. DOI: 10.1016/J.Bpj.2012.11.333  0.386
2013 Khan S, Lyle N, Pappu RV. Coarse Grain Simulations Providing a Unifying Framework for Explaining Polyglutamine Aggregation Mechanism Biophysical Journal. 104: 388a-389a. DOI: 10.1016/J.Bpj.2012.11.2166  0.778
2013 Pappu RV. Connecting Sequence to Conformational Properties of Intrinsically Disordered Proteins: A Charged Relationship Biophysical Journal. 104: 355a. DOI: 10.1016/J.Bpj.2012.11.1969  0.427
2013 Ruff K, Lyle N, Pappu RV. Modulation of Polyglutamine Conformations and Associations by C-Terminal Proline Rich Regions from Exon 1 of Huntingtin Biophysical Journal. 104: 233a. DOI: 10.1016/J.Bpj.2012.11.1317  0.774
2012 Babu MM, Kriwacki RW, Pappu RV. Structural biology. Versatility from protein disorder. Science (New York, N.Y.). 337: 1460-1. PMID 22997313 DOI: 10.1126/Science.1228775  0.393
2012 Mao AH, Pappu RV. Crystal lattice properties fully determine short-range interaction parameters for alkali and halide ions. The Journal of Chemical Physics. 137: 064104. PMID 22897252 DOI: 10.1063/1.4742068  0.71
2012 Das RK, Mao AH, Pappu RV. Unmasking functional motifs within disordered regions of proteins. Science Signaling. 5: pe17. PMID 22510467 DOI: 10.1126/Scisignal.2003091  0.743
2012 Radhakrishnan A, Vitalis A, Mao AH, Steffen AT, Pappu RV. Improved atomistic Monte Carlo simulations demonstrate that poly-L-proline adopts heterogeneous ensembles of conformations of semi-rigid segments interrupted by kinks. The Journal of Physical Chemistry. B. 116: 6862-71. PMID 22329658 DOI: 10.1021/Jp212637R  0.803
2012 Das RK, Crick SL, Pappu RV. N-terminal segments modulate the α-helical propensities of the intrinsically disordered basic regions of bZIP proteins. Journal of Molecular Biology. 416: 287-99. PMID 22226835 DOI: 10.1016/J.Jmb.2011.12.043  0.779
2012 Lyle NJ, Meng W, Raleigh DP, Pappu RV. Simulations of Denatured Protein Ensembles Reproduce and Rationalize Experimental Observations of Persistent Contacts Between Residues Distal in Protein Sequence Biophysical Journal. 102: 630a. DOI: 10.1016/J.Bpj.2011.11.3433  0.798
2012 Das RK, Pappu RV. Conformational Ensembles of Intrinsically Disordered Proteins are Determined by Charge Patterning Biophysical Journal. 102: 630a. DOI: 10.1016/J.Bpj.2011.11.3432  0.445
2012 Ruff K, Lyle N, Pappu RV. Implications Of Cis Interactions Between Expanded Polyglutamine and the Proline Rich C-Terminal Domain of Huntingtin Exon 1 For the Loss- Versus Gain-Of-Function Models of Huntington's Disease Biophysical Journal. 102: 256a. DOI: 10.1016/J.Bpj.2011.11.1411  0.774
2012 Crick SL, Mao AH, Pappu RV. Inferring Aggregation Mechanisms of Polyglutamine Through Quantitative Studies of Phase Behavior Biophysical Journal. 102: 11a. DOI: 10.1016/J.Bpj.2011.11.081  0.816
2012 Crick SL, Pappu RV. Thermodynamic and Kinetic Models for Aggregation of Intrinsically Disordered Proteins Protein and Peptide Folding, Misfolding, and Non-Folding. 413-440. DOI: 10.1002/9781118183373.ch14  0.75
2011 Halfmann R, Alberti S, Krishnan R, Lyle N, O'Donnell CW, King OD, Berger B, Pappu RV, Lindquist S. Opposing effects of glutamine and asparagine govern prion formation by intrinsically disordered proteins. Molecular Cell. 43: 72-84. PMID 21726811 DOI: 10.1016/J.Molcel.2011.05.013  0.79
2011 Vitalis A, Pappu RV. Assessing the contribution of heterogeneous distributions of oligomers to aggregation mechanisms of polyglutamine peptides. Biophysical Chemistry. 159: 14-23. PMID 21530061 DOI: 10.1016/J.Bpc.2011.04.006  0.695
2011 Mao AH, Pappu RV. Exact recording of metropolis-hastings-class Monte Carlo simulations using one bit per sample Computer Physics Communications. 182: 1452-1454. DOI: 10.1016/J.Cpc.2011.03.013  0.709
2011 Das RK, Crick SL, Pappu RV. Intrinsic Helicity of Disordered Basic Regions of Bzip Transcription Factors: Implications For Mechanisms of DNA Binding Biophysical Journal. 100: 63a. DOI: 10.1016/J.Bpj.2010.12.544  0.745
2011 Lyle NJ, Crick SL, Pappu RV. Alterations to the Conformational Ensemble and Intermolecular Associations of Polyglutamine Due to Charged Side Chains at the N- and C-Termini Biophysical Journal. 100: 63a. DOI: 10.1016/J.Bpj.2010.12.543  0.816
2011 Das RK, Crick SL, Pappu RV. Intrinsic Disorder in the Basic Regions of bZIP Transcription Factors: What it Means to Be Disordered and Why it Might Matter! Biophysical Journal. 100: 519a. DOI: 10.1016/J.Bpj.2010.12.3033  0.738
2011 Das RK, Barrick D, Pappu RV. Conformational Fluctuations within the Intrinsically Disordered RAM Domain of the Notch Receptor are Governed by the Patterning of Charged Residues within the Primary Sequence Biophysical Journal. 100: 13a. DOI: 10.1016/J.Bpj.2010.12.282  0.389
2011 Radhakrishnan A, Vitalis A, Mao AH, Steffen AT, Pappu RV. Accurate Atomistic Modeling of Conformational Equilibria of Proline-Rich Sequences Biophysical Journal. 100: 378a-379a. DOI: 10.1016/J.Bpj.2010.12.2254  0.807
2011 Mao AH, Pappu RV. Intrinsically Disordered Protein Regions Modeled as Isolated Entities Commonly Adopt Ensembles of Collapsed, Globular Conformations Biophysical Journal. 100: 228a. DOI: 10.1016/J.Bpj.2010.12.1461  0.774
2011 Crick SL, Pappu RV. Establishing a Reference State for Studying the Aggregation Kinetics of Polyglutamine Containing Systems Biophysical Journal. 100: 201a. DOI: 10.1016/J.Bpj.2010.12.1310  0.756
2010 Wyczalkowski MA, Vitalis A, Pappu RV. New estimators for calculating solvation entropy and enthalpy and comparative assessments of their accuracy and precision. The Journal of Physical Chemistry. B. 114: 8166-80. PMID 20503993 DOI: 10.1021/Jp103050U  0.754
2010 Mao AH, Crick SL, Vitalis A, Chicoine CL, Pappu RV. Net charge per residue modulates conformational ensembles of intrinsically disordered proteins. Proceedings of the National Academy of Sciences of the United States of America. 107: 8183-8. PMID 20404210 DOI: 10.1073/Pnas.0911107107  0.823
2010 Williamson TE, Vitalis A, Crick SL, Pappu RV. Modulation of polyglutamine conformations and dimer formation by the N-terminus of huntingtin. Journal of Molecular Biology. 396: 1295-309. PMID 20026071 DOI: 10.1016/J.Jmb.2009.12.017  0.825
2010 Lyle NJ, Pappu RV. Parameter Refinement, Optimization, and Extension of the Absinth Implicit Solvation Model Biophysical Journal. 98: 574a. DOI: 10.1016/J.Bpj.2009.12.3118  0.778
2010 Crick S, Pappu RV. Probing the Conformational Ensemble of Polyglutamine During the Initial Stages of Aggregation Biophysical Journal. 98: 424a. DOI: 10.1016/J.Bpj.2009.12.2297  0.775
2010 Mao AH, Crick SL, Chicoine CL, Pappu RV. Effects of pH on Conformational Equilibria of Intrinsically Disordered Proteins Biophysical Journal. 98: 256a. DOI: 10.1016/J.Bpj.2009.12.1390  0.818
2009 Chen AA, Marucho M, Baker NA, Pappu RV. Simulations of RNA interactions with monovalent ions. Methods in Enzymology. 469: 411-32. PMID 20946801 DOI: 10.1016/S0076-6879(09)69020-0  0.555
2009 Vitalis A, Pappu RV. Methods for Monte Carlo simulations of biomacromolecules. Annual Reports in Computational Chemistry. 5: 49-76. PMID 20428473 DOI: 10.1016/S1574-1400(09)00503-9  0.666
2009 Hu X, Crick SL, Bu G, Frieden C, Pappu RV, Lee JM. Amyloid seeds formed by cellular uptake, concentration, and aggregation of the amyloid-beta peptide Proceedings of the National Academy of Sciences of the United States of America. 106: 20324-20329. PMID 19910533 DOI: 10.1073/Pnas.0911281106  0.762
2009 Lashuel HA, Pappu RV. Amyloids go genomic: insights regarding the sequence determinants of prion formation from genome-wide studies. Chembiochem : a European Journal of Chemical Biology. 10: 1951-4. PMID 19598186 DOI: 10.1002/Cbic.200900373  0.305
2009 Vitalis A, Lyle N, Pappu RV. Thermodynamics of beta-sheet formation in polyglutamine. Biophysical Journal. 97: 303-11. PMID 19580768 DOI: 10.1016/J.Bpj.2009.05.003  0.795
2009 Chen AA, Draper DE, Pappu RV. Molecular simulation studies of monovalent counterion-mediated interactions in a model RNA kissing loop. Journal of Molecular Biology. 390: 805-19. PMID 19482035 DOI: 10.1016/J.Jmb.2009.05.071  0.573
2009 Vitalis A, Pappu RV. ABSINTH: a new continuum solvation model for simulations of polypeptides in aqueous solutions. Journal of Computational Chemistry. 30: 673-99. PMID 18506808 DOI: 10.1002/Jcc.21005  0.717
2009 Lee J, Crick S, Pappu R, Frieden C, Hu X. P1-004: Amyloid seeds formed by cellular uptake, concentration, and aggergation of the Abeta1-42 peptide Alzheimer's & Dementia. 5: P173-P173. DOI: 10.1016/J.Jalz.2009.04.007  0.758
2009 Chen AA, Draper DE, Pappu RV. Mechanism Of Monovalent Counterion Specificity In A RNA Kissing Loop Complex Biophysical Journal. 96: 576a. DOI: 10.1016/J.Bpj.2008.12.3008  0.556
2009 Pappu R. Effects Of Sequence And Conformational Contexts In Polyglutamine Aggregation Biophysical Journal. 96: 552a. DOI: 10.1016/J.Bpj.2008.12.2993  0.461
2009 Mao A, Vitalis A, Pappu RV. How Does Charge Content Modulate Conformational Equilibria of Intrinsically Disordered Proteins? An Illustration Using Protamines Biophysical Journal. 96: 220a. DOI: 10.1016/J.Bpj.2008.12.1920  0.825
2009 Vitalis A, Pappu RV. Introducing A Software Package For The Simulation Of Biomacromolecules Using The ABSINTH Implicit Solvation Model Biophysical Journal. 96: 303a. DOI: 10.1016/J.Bpj.2008.12.1508  0.679
2009 Wyczalkowski MA, Pappu RV. Assessing the Driving Forces for Collapse of Archetypal Intrinsically Disordered Polypeptides Biophysical Journal. 96: 301a. DOI: 10.1016/J.Bpj.2008.12.1495  0.69
2008 Vitalis A, Wang X, Pappu RV. Atomistic simulations of the effects of polyglutamine chain length and solvent quality on conformational equilibria and spontaneous homodimerization. Journal of Molecular Biology. 384: 279-97. PMID 18824003 DOI: 10.1016/J.Jmb.2008.09.026  0.73
2008 Tran HT, Mao A, Pappu RV. Role of backbone-solvent interactions in determining conformational equilibria of intrinsically disordered proteins. Journal of the American Chemical Society. 130: 7380-92. PMID 18481860 DOI: 10.1021/Ja710446S  0.784
2008 Wyczalkowski MA, Pappu RV. Satisfying the fluctuation theorem in free-energy calculations with Hamiltonian replica exchange. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 77: 026104. PMID 18352087 DOI: 10.1103/Physreve.77.026104  0.633
2008 Pappu RV, Wang X, Vitalis A, Crick SL. A polymer physics perspective on driving forces and mechanisms for protein aggregation. Archives of Biochemistry and Biophysics. 469: 132-41. PMID 17931593 DOI: 10.1016/J.Abb.2007.08.033  0.799
2008 Wyczalkowski MA, Pappu RV. Publisher's Note: Satisfying the fluctuation theorem in free-energy calculations with Hamiltonian replica exchange (Physical Review e (2008) 77 (026104)) Physical Review E - Statistical, Nonlinear, and Soft Matter Physics. 77. DOI: 10.1103/Physreve.77.029905  0.618
2007 Chen AA, Pappu RV. Parameters of monovalent ions in the AMBER-99 forcefield: assessment of inaccuracies and proposed improvements. The Journal of Physical Chemistry. B. 111: 11884-7. PMID 17887792 DOI: 10.1021/Jp0765392  0.535
2007 Vitalis A, Wang X, Pappu RV. Quantitative characterization of intrinsic disorder in polyglutamine: insights from analysis based on polymer theories. Biophysical Journal. 93: 1923-37. PMID 17526581 DOI: 10.1529/Biophysj.107.110080  0.735
2007 Chen AA, Pappu RV. Quantitative characterization of ion pairing and cluster formation in strong 1:1 electrolytes. The Journal of Physical Chemistry. B. 111: 6469-78. PMID 17518490 DOI: 10.1021/Jp0708547  0.533
2006 Crick SL, Jayaraman M, Frieden C, Wetzel R, Pappu RV. Fluorescence correlation spectroscopy shows that monomeric polyglutamine molecules form collapsed structures in aqueous solutions Proceedings of the National Academy of Sciences of the United States of America. 103: 16764-16769. PMID 17075061 DOI: 10.1073/Pnas.0608175103  0.79
2006 Tran HT, Pappu RV. Toward an accurate theoretical framework for describing ensembles for proteins under strongly denaturing conditions. Biophysical Journal. 91: 1868-86. PMID 16766618 DOI: 10.1529/Biophysj.106.086264  0.44
2006 Wang X, Vitalis A, Wyczalkowski MA, Pappu RV. Characterizing the conformational ensemble of monomeric polyglutamine. Proteins. 63: 297-311. PMID 16299774 DOI: 10.1002/Prot.20761  0.81
2006 Lee J, Hu X, Crick S, Song H, Yin K, Cirrito J, Bateman R, Hsu CY, Xu J, Hsu FF, Turk J, Pappu R, Holtzman DM, Yan P. O4-06-07: MMP-9 degrades fibrilllar abeta in vitro and compact plaques In situ Alzheimer's & Dementia. 2: S89-S89. DOI: 10.1016/J.Jalz.2006.05.342  0.701
2005 Tran HT, Wang X, Pappu RV. Reconciling observations of sequence-specific conformational propensities with the generic polymeric behavior of denatured proteins. Biochemistry. 44: 11369-80. PMID 16114874 DOI: 10.1021/Bi050196L  0.45
2004 Patriciu A, Chirikjian GS, Pappu RV. Analysis of the conformational dependence of mass-metric tensor determinants in serial polymers with constraints. The Journal of Chemical Physics. 121: 12708-20. PMID 15606297 DOI: 10.1063/1.1821492  0.324
2004 Drozdov AN, Grossfield A, Pappu RV. Role of solvent in determining conformational preferences of alanine dipeptide in water. Journal of the American Chemical Society. 126: 2574-81. PMID 14982467 DOI: 10.1021/Ja039051X  0.35
2002 Pappu RV, Rose GD. A simple model for polyproline II structure in unfolded states of alanine-based peptides. Protein Science : a Publication of the Protein Society. 11: 2437-55. PMID 12237465 DOI: 10.1110/Ps.0217402  0.647
2000 Pappu RV, Srinivasan R, Rose GD. The Flory isolated-pair hypothesis is not valid for polypeptide chains: Implications for protein folding Proceedings of the National Academy of Sciences of the United States of America. 97: 12565-12570. PMID 11070081 DOI: 10.1073/Pnas.97.23.12565  0.656
2000 Hart RK, Pappu RV, Ponder JW. Exploring the Similarities between Potential Smoothing and Simulated Annealing Journal of Computational Chemistry. 21: 531-552. DOI: 10.1002/(Sici)1096-987X(200005)21:7<531::Aid-Jcc3>3.0.Co;2-C  0.652
1999 Pappu RV. Review of the Fourth Johns Hopkins Protein Folding Meeting Proteins: Structure, Function and Genetics. 36: 263-269. PMID 10409820 DOI: 10.1002/(Sici)1097-0134(19990815)36:3<263::Aid-Prot1>3.0.Co;2-Q  0.318
1999 Pappu RV, Marshall GR, Ponder JW. A potential smoothing algorithm accurately predicts transmembrane helix packing. Nature Structural Biology. 6: 50-5. PMID 9886292 DOI: 10.1038/4922  0.642
1998 Huang ES, Koehl P, Levitt M, Pappu RV, Ponder JW. Accuracy of side-chain prediction upon near-native protein backbones generated by Ab initio folding methods. Proteins. 33: 204-17. PMID 9779788 DOI: 10.1002/(Sici)1097-0134(19981101)33:2<204::Aid-Prot5>3.0.Co;2-I  0.673
1998 Pappu RV, Weaver DL. The early folding kinetics of apomyoglobin Protein Science. 7: 480-490. PMID 9521125 DOI: 10.1002/Pro.5560070229  0.572
1998 Pappu RV, Hart RK, Ponder JW. Analysis and application of potential energy smoothing and search methods for global optimization Journal of Physical Chemistry B. 102: 9725-9742. DOI: 10.1021/Jp982255T  0.613
1996 Pappu RV, Schneller WJ, Weaver DL. Electrostatic multipole representation of a polypeptide chain: An algorithm for simulation of polypeptide properties Journal of Computational Chemistry. 17: 1033-1055. DOI: 10.1002/(Sici)1096-987X(199606)17:8<1033::Aid-Jcc12>3.0.Co;2-F  0.609
Low-probability matches (unlikely to be authored by this person)
2017 Boothby TC, Piszkiewicz S, Mehta A, Brozena A, Tapia H, Koshland D, Holehouse A, Pappu R, Goldstein B, Pielak G. Tardigrade Disordered Proteins Mediate Desiccation Tolerance Biophysical Journal. 112: 480a. DOI: 10.1016/J.Bpj.2016.11.2600  0.297
2016 Ruff KM, Holehouse AS, Richardson MG, Pappu RV. Proteomic and Biophysical Analysis of Polar Tracts Biophysical Journal. 110: 556a. DOI: 10.1016/J.Bpj.2015.11.2975  0.296
2015 Kozlov AG, Weiland E, Mittal A, Waldman V, Antony E, Fazio N, Pappu RV, Lohman TM. Intrinsically disordered C-terminal tails of E. coli single-stranded DNA binding protein regulate cooperative binding to single-stranded DNA. Journal of Molecular Biology. 427: 763-74. PMID 25562210 DOI: 10.1016/J.Jmb.2014.12.020  0.295
2022 González-Foutel NS, Glavina J, Borcherds WM, Safranchik M, Barrera-Vilarmau S, Sagar A, Estaña A, Barozet A, Garrone NA, Fernandez-Ballester G, Blanes-Mira C, Sánchez IE, de Prat-Gay G, Cortés J, Bernadó P, ... Pappu RV, et al. Conformational buffering underlies functional selection in intrinsically disordered protein regions. Nature Structural & Molecular Biology. 29: 781-790. PMID 35948766 DOI: 10.1038/s41594-022-00811-w  0.295
2017 Clarke J, Pappu RV. Editorial overview: Protein Folding and Binding, Complexity Comes of Age. Current Opinion in Structural Biology. 42: v-vii. PMID 28351535 DOI: 10.1016/J.Sbi.2017.03.004  0.294
2017 Fei J, Jadaliha M, Harmon TS, Li ITS, Hua B, Hao Q, Holehouse AS, Reyer M, Sun Q, Freier SM, Pappu RV, Prasanth KV, Ha T. Quantitative analysis of multilayer organization of proteins and RNA in nuclear speckles at super resolution. Journal of Cell Science. PMID 29133588 DOI: 10.1242/Jcs.206854  0.293
2018 Mirbaha H, Chen D, Morazova OA, Ruff KM, Sharma AM, Liu X, Goodarzi M, Pappu RV, Colby DW, Mirzaei H, Joachimiak LA, Diamond MI. Author response: Inert and seed-competent tau monomers suggest structural origins of aggregation Elife. DOI: 10.7554/Elife.36584.035  0.292
2023 Pappu R, Farag M, Borcherds W, Bremer A, Mittag T. Phase Separation in Mixtures of Prion-Like Low Complexity Domains is Driven by the Interplay of Homotypic and Heterotypic Interactions. Research Square. PMID 37205474 DOI: 10.21203/rs.3.rs-2870258/v1  0.291
2023 Farag M, Borcherds WM, Bremer A, Mittag T, Pappu RV. Phase Separation in Mixtures of Prion-Like Low Complexity Domains is Driven by the Interplay of Homotypic and Heterotypic Interactions. Biorxiv : the Preprint Server For Biology. PMID 36993212 DOI: 10.1101/2023.03.15.532828  0.291
2022 Farag M, Cohen SR, Borcherds WM, Bremer A, Mittag T, Pappu RV. Condensates formed by prion-like low-complexity domains have small-world network structures and interfaces defined by expanded conformations. Nature Communications. 13: 7722. PMID 36513655 DOI: 10.1038/s41467-022-35370-7  0.289
2023 Patil A, Strom AR, Paulo JA, Collings CK, Ruff KM, Shinn MK, Sankar A, Cervantes KS, Wauer T, St Laurent JD, Xu G, Becker LA, Gygi SP, Pappu RV, Brangwynne CP, et al. A disordered region controls cBAF activity via condensation and partner recruitment. Cell. 186: 4936-4955.e26. PMID 37788668 DOI: 10.1016/j.cell.2023.08.032  0.287
2017 Chatterjee S, Luthra P, Esaulova E, Agapov E, Yen BC, Borek DM, Edwards MR, Mittal A, Jordan DS, Ramanan P, Moore ML, Pappu RV, Holtzman MJ, Artyomov MN, Basler CF, et al. Structural basis for human respiratory syncytial virus NS1-mediated modulation of host responses. Nature Microbiology. 2: 17101. PMID 28665409 DOI: 10.1038/Nmicrobiol.2017.101  0.286
2017 Posey AE, Harmon TS, Pappu RV. Charge Neutralization, Not Salt Bridges, Stabilizes Alpha Helices in Repeating Blocks of Acidic and Basic Residues Biophysical Journal. 112: 345a-346a. DOI: 10.1016/J.Bpj.2016.11.1874  0.284
2019 Zeng X, Fossat MJ, Tang N, Chilkoti A, Pappu RV. A High Throughput Method for Exploring the Sequence Space of Polypeptides That Exhibit Thermoresponsive Phase Behavior Biophysical Journal. 116: 200a. DOI: 10.1016/J.Bpj.2018.11.1105  0.279
2020 Lalmansingh JM, Posey AE, Kandola T, Halfmann R, Pappu RV. Basin Mapping Method for Extracting Comparative Assessments of Protein Phase Behavior from In Vivo Measurements Biophysical Journal. 118: 538a. DOI: 10.1016/J.Bpj.2019.11.2949  0.273
2021 Ruff KM, Pappu RV. AlphaFold and implications for intrinsically disordered proteins. Journal of Molecular Biology. 167208. PMID 34418423 DOI: 10.1016/j.jmb.2021.167208  0.27
2021 Kar M, Posey AE, Dar F, Hyman AA, Pappu RV. Glycine-Rich Peptides from FUS Have an Intrinsic Ability to Self-Assemble into Fibers and Networked Fibrils. Biochemistry. PMID 34648275 DOI: 10.1021/acs.biochem.1c00501  0.269
2009 Pappu RV, Nussinov R. Protein folding: lessons learned and new frontiers. Preface. Physical Biology. 6: 010301. PMID 19208944 DOI: 10.1088/1478-3975/6/1/010301  0.268
2017 Harmon TS, Holehouse AS, Pappu RV. To Mix, or To Demix, That Is the Question. Biophysical Journal. 112: 565-567. PMID 28256216 DOI: 10.1016/J.Bpj.2016.12.031  0.258
2023 Farag M, Holehouse AS, Zeng X, Pappu RV. FIREBALL: A tool to fit protein phase diagrams based on mean-field theories for polymer solutions. Biophysical Journal. PMID 37161095 DOI: 10.1016/j.bpj.2023.05.007  0.257
2017 Ruff KM, Warner JB, Posey AE, Siong Tan P, Lemke EA, Pappu RV, Lashuel HA. Polyglutamine Length Dependent Structural Properties and Phase Behavior of Huntingtin Exon 1 Biophysical Journal. 112: 511a. DOI: 10.1016/J.Bpj.2016.11.2762  0.254
2019 Posey AE, Holehouse AS, Ruff KM, Pappu RV. Experimental and Theoretical Methods for Mapping Coexistence Curves of Phase-Separating Biological Macromolecules Biophysical Journal. 116: 349a. DOI: 10.1016/J.Bpj.2018.11.1901  0.253
2013 Dunker AK, Babu MM, Barbar E, Blackledge M, Bondos SE, Dosztányi Z, Dyson HJ, Forman-Kay J, Fuxreiter M, Gsponer J, Han KH, Jones DT, Longhi S, Metallo SJ, Nishikawa K, ... ... Pappu RV, et al. What's in a name? Why these proteins are intrinsically disordered: Why these proteins are intrinsically disordered. Intrinsically Disordered Proteins. 1: e24157. PMID 28516007 DOI: 10.4161/idp.24157  0.253
2014 Tubbs AT, Dorsett Y, Chan E, Helmink B, Lee BS, Hung P, George R, Bredemeyer AL, Mittal A, Pappu RV, Chowdhury D, Mosammaparast N, Krangel MS, Sleckman BP. KAP-1 promotes resection of broken DNA ends not protected by γ-H2AX and 53BP1 in G₁-phase lymphocytes. Molecular and Cellular Biology. 34: 2811-21. PMID 24842905 DOI: 10.1128/Mcb.00441-14  0.251
2022 Shinn MK, Cohan MC, Bullock JL, Ruff KM, Levin PA, Pappu RV. Connecting sequence features within the disordered C-terminal linker of FtsZ to functions and bacterial cell division. Proceedings of the National Academy of Sciences of the United States of America. 119: e2211178119. PMID 36215496 DOI: 10.1073/pnas.2211178119  0.25
2023 Farag M, Holehouse AS, Zeng X, Pappu RV. FIREBALL: A tool to fit protein phase diagrams based on mean-field theories for polymer solutions. Biorxiv : the Preprint Server For Biology. PMID 36993371 DOI: 10.1101/2023.03.19.533322  0.249
2021 Posey AE, Ruff KM, Lalmansingh JM, Kandola TS, Lange JJ, Halfmann R, Pappu RV. Mechanistic inferences from analysis of measurements of protein phase transitions in live cells. Journal of Molecular Biology. 166848. PMID 33539877 DOI: 10.1016/j.jmb.2021.166848  0.244
2023 Fossat MJ, Posey AE, Pappu RV. Uncovering the Contributions of Charge Regulation to the Stability of Single Alpha Helices. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. e202200746. PMID 36599672 DOI: 10.1002/cphc.202200746  0.236
2020 Lazar T, Martínez-Pérez E, Quaglia F, Hatos A, Chemes LB, Iserte JA, Méndez NA, Garrone NA, Saldaño TE, Marchetti J, Rueda AJV, Bernadó P, Blackledge M, Cordeiro TN, Fagerberg E, ... ... Pappu RV, et al. PED in 2021: a major update of the protein ensemble database for intrinsically disordered proteins. Nucleic Acids Research. PMID 33305318 DOI: 10.1093/nar/gkaa1021  0.234
2020 Ruff KM, Dar F, Posey AE, Pappu RV. Principles of Ligand Modulation of Phase Behavior in Multicomponent Systems Biophysical Journal. 118: 371a. DOI: 10.1016/J.Bpj.2019.11.2126  0.231
2022 Seim I, Posey AE, Snead WT, Stormo BM, Klotsa D, Pappu RV, Gladfelter AS. Dilute phase oligomerization can oppose phase separation and modulate material properties of a ribonucleoprotein condensate. Proceedings of the National Academy of Sciences of the United States of America. 119: e2120799119. PMID 35333653 DOI: 10.1073/pnas.2120799119  0.229
2021 Fossat MJ, Zeng X, Pappu RV. Uncovering Differences in Hydration Free Energies and Structures for Model Compound Mimics of Charged Side Chains of Amino Acids. The Journal of Physical Chemistry. B. 125: 4148-4161. PMID 33877835 DOI: 10.1021/acs.jpcb.1c01073  0.228
2023 Pappu RV, Cohen SR, Dar F, Farag M, Kar M. Phase Transitions of Associative Biomacromolecules. Chemical Reviews. PMID 36881934 DOI: 10.1021/acs.chemrev.2c00814  0.228
2014 Xu W, Edwards MR, Borek DM, Feagins AR, Mittal A, Alinger JB, Berry KN, Yen B, Hamilton J, Brett TJ, Pappu RV, Leung DW, Basler CF, Amarasinghe GK. Ebola virus VP24 targets a unique NLS binding site on karyopherin alpha 5 to selectively compete with nuclear import of phosphorylated STAT1. Cell Host & Microbe. 16: 187-200. PMID 25121748 DOI: 10.1016/J.Chom.2014.07.008  0.227
2021 Cohan MC, Shinn MK, Lalmansingh JM, Pappu RV. Uncovering Non-random Binary Patterns Within Sequences of Intrinsically Disordered Proteins. Journal of Molecular Biology. 434: 167373. PMID 34863777 DOI: 10.1016/j.jmb.2021.167373  0.223
2011 Thomas DG, Pappu RV, Baker NA. NanoParticle Ontology for cancer nanotechnology research. Journal of Biomedical Informatics. 44: 59-74. PMID 20211274 DOI: 10.1016/J.Jbi.2010.03.001  0.221
2018 Boothby TC, Piszkiewicz S, Mehta A, Brozena A, Tapia H, Koshland D, Holehouse A, Pappu R, Goldstein B, Pielak G. Gelation and Vitrification of Tardigrade IDPs Biophysical Journal. 114: 560a-561a. DOI: 10.1016/J.Bpj.2017.11.3065  0.219
2023 Zeng X, Pappu RV. Developments in describing equilibrium phase transitions of multivalent associative macromolecules. Current Opinion in Structural Biology. 79: 102540. PMID 36804705 DOI: 10.1016/j.sbi.2023.102540  0.218
2021 Bremer A, Farag M, Borcherds WM, Peran I, Martin EW, Pappu RV, Mittag T. Deciphering how naturally occurring sequence features impact the phase behaviours of disordered prion-like domains. Nature Chemistry. 14: 196-207. PMID 34931046 DOI: 10.1038/s41557-021-00840-w  0.217
2019 Pappu RV. Decision letter: Ion counting demonstrates a high electrostatic field generated by the nucleosome Elife. DOI: 10.7554/Elife.44993.019  0.212
2023 Kar M, Vogel LT, Chauhan G, Ausserwöger H, Welsh TJ, Kamath AR, Knowles TPJ, Hyman AA, Seidel CAM, Pappu RV. Glutamate helps unmask the differences in driving forces for phase separation versus clustering of FET family proteins in sub-saturated solutions. Research Square. PMID 37790538 DOI: 10.21203/rs.3.rs-3252197/v1  0.211
2023 Kar M, Vogel LT, Chauhan G, Ausserwöger H, Welsh TJ, Kamath AR, Knowles TPJ, Hyman AA, Seidel CAM, Pappu RV. Glutamate helps unmask the differences in driving forces for phase separation versus clustering of FET family proteins in sub-saturated solutions. Biorxiv : the Preprint Server For Biology. PMID 37609232 DOI: 10.1101/2023.08.11.552963  0.211
2021 Fossat MJ, Posey AE, Pappu RV. Quantifying charge state heterogeneity for proteins with multiple ionizable residues. Biophysical Journal. 120: 5438-5453. PMID 34826385 DOI: 10.1016/j.bpj.2021.11.2886  0.208
2018 Roberts S, Harmon TS, Schaal JL, Miao V, Li KJ, Hunt A, Wen Y, Oas TG, Collier JH, Pappu RV, Chilkoti A. Author Correction: Injectable tissue integrating networks from recombinant polypeptides with tunable order. Nature Materials. PMID 30382194 DOI: 10.1038/S41563-018-0233-Z  0.201
2022 Kar M, Dar F, Welsh TJ, Vogel LT, Kühnemuth R, Majumdar A, Krainer G, Franzmann TM, Alberti S, Seidel CAM, Knowles TPJ, Hyman AA, Pappu RV. Phase-separating RNA-binding proteins form heterogeneous distributions of clusters in subsaturated solutions. Proceedings of the National Academy of Sciences of the United States of America. 119: e2202222119. PMID 35787038 DOI: 10.1073/pnas.2202222119  0.198
2023 Dai Y, Farag M, Lee D, Zeng X, Kim K, Son HI, Guo X, Su J, Peterson N, Mohammed J, Ney M, Shapiro DM, Pappu RV, Chilkoti A, You L. Programmable synthetic biomolecular condensates for cellular control. Nature Chemical Biology. PMID 36747054 DOI: 10.1038/s41589-022-01252-8  0.194
2021 Bergeron-Sandoval LP, Kumar S, Heris HK, Chang CLA, Cornell CE, Keller SL, François P, Hendricks AG, Ehrlicher AJ, Pappu RV, Michnick SW. Endocytic proteins with prion-like domains form viscoelastic condensates that enable membrane remodeling. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 34887356 DOI: 10.1073/pnas.2113789118  0.19
2023 Chauhan G, Bremer A, Dar F, Mittag T, Pappu RV. Crowder titrations enable the quantification of driving forces for macromolecular phase separation. Biophysical Journal. PMID 37717144 DOI: 10.1016/j.bpj.2023.09.006  0.179
2022 Mittag T, Pappu RV. A conceptual framework for understanding phase separation and addressing open questions and challenges. Molecular Cell. 82: 2201-2214. PMID 35675815 DOI: 10.1016/j.molcel.2022.05.018  0.178
2023 Chauhan G, Bremer A, Dar F, Mittag T, Pappu RV. Crowder titrations enable the quantification of driving forces for macromolecular phase separation. Biorxiv : the Preprint Server For Biology. PMID 37461587 DOI: 10.1101/2023.07.03.547544  0.177
2009 Thomas D, Pappu R, Baker N. NPO: Ontology for Cancer Nanotechnology Research Nature Precedings. 4: 1-1. DOI: 10.1038/Npre.2009.3514.1  0.169
2020 Mathieu C, Pappu RV, Taylor JP. Beyond aggregation: Pathological phase transitions in neurodegenerative disease. Science (New York, N.Y.). 370: 56-60. PMID 33004511 DOI: 10.1126/science.abb8032  0.168
2022 Staller MV, Ramirez E, Kotha SR, Holehouse AS, Pappu RV, Cohen BA. Directed mutational scanning reveals a balance between acidic and hydrophobic residues in strong human activation domains. Cell Systems. PMID 35120642 DOI: 10.1016/j.cels.2022.01.002  0.166
2023 Pappu R, Lin A, Ruff K, Jalihal A, Dar F, King M, Lalmansingh J, Posey A, Seim I, Gladfelter A. Dynamical control enables the formation of demixed biomolecular condensates. Research Square. PMID 36798397 DOI: 10.21203/rs.3.rs-2440278/v1  0.16
2023 Lin AZ, Ruff KM, Jalihal A, Dar F, King MR, Lalmansingh JM, Posey AE, Seim I, Gladfelter AS, Pappu RV. Dynamical control enables the formation of demixed biomolecular condensates. Biorxiv : the Preprint Server For Biology. PMID 36711465 DOI: 10.1101/2023.01.04.522702  0.16
2022 Bremer A, Posey AE, Borgia MB, Borcherds WM, Farag M, Pappu RV, Mittag T. Quantifying Coexistence Concentrations in Multi-Component Phase-Separating Systems Using Analytical HPLC. Biomolecules. 12. PMID 36291688 DOI: 10.3390/biom12101480  0.158
2022 Feric M, Sarfallah A, Dar F, Temiakov D, Pappu RV, Misteli T. Mesoscale structure-function relationships in mitochondrial transcriptional condensates. Proceedings of the National Academy of Sciences of the United States of America. 119: e2207303119. PMID 36191226 DOI: 10.1073/pnas.2207303119  0.156
2023 Alshareedah I, Borcherds WM, Cohen SR, Farag M, Singh A, Bremer A, Pappu RV, Mittag T, Banerjee PR. Sequence-encoded grammars determine material properties and physical aging of protein condensates. Biorxiv : the Preprint Server For Biology. PMID 37066350 DOI: 10.1101/2023.04.06.535902  0.149
2023 Wu T, King MR, Farag M, Pappu RV, Lew MD. Single fluorogen imaging reveals spatial inhomogeneities within biomolecular condensates. Biorxiv : the Preprint Server For Biology. PMID 36747818 DOI: 10.1101/2023.01.26.525727  0.145
2021 Ruff KM, Dar F, Pappu RV. Ligand effects on phase separation of multivalent macromolecules. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33653957 DOI: 10.1073/pnas.2017184118  0.143
2021 Kahn JD, Lemke EA, Pappu RV. Faces, facets, and functions of biomolecular condensates driven by multivalent proteins and nucleic acids. Biophysical Journal. PMID 33730551 DOI: 10.1016/j.bpj.2021.03.003  0.136
2023 Wadsworth GM, Zahurancik WJ, Zeng X, Pullara P, Lai LB, Sidharthan V, Pappu RV, Gopalan V, Banerjee PR. RNAs undergo phase transitions with lower critical solution temperatures. Nature Chemistry. PMID 37932412 DOI: 10.1038/s41557-023-01353-4  0.132
2021 Ruff KM, Dar F, Pappu RV. Polyphasic linkage and the impact of ligand binding on the regulation of biomolecular condensates. Biophysics Reviews. 2: 021302. PMID 34179888 DOI: 10.1063/5.0050059  0.121
2024 Das T, Zaidi F, Farag M, Ruff KM, Messing J, Taylor JP, Pappu RV, Mittag T. Metastable condensates suppress conversion to amyloid fibrils. Biorxiv : the Preprint Server For Biology. PMID 38464104 DOI: 10.1101/2024.02.28.582569  0.12
2024 King MR, Ruff KM, Pappu RV. Emergent microenvironments of nucleoli. Nucleus (Austin, Tex.). 15: 2319957. PMID 38443761 DOI: 10.1080/19491034.2024.2319957  0.12
2024 Aguilar Pérez G, Pappu RV, Milovanovic D. Tear down this wall: phosphorylation regulates the internal interfaces of postsynaptic condensates. Trends in Cell Biology. PMID 38429121 DOI: 10.1016/j.tcb.2024.02.007  0.12
2023 Lin AZ, Ruff KM, Dar F, Jalihal A, King MR, Lalmansingh JM, Posey AE, Erkamp NA, Seim I, Gladfelter AS, Pappu RV. Dynamical control enables the formation of demixed biomolecular condensates. Nature Communications. 14: 7678. PMID 37996438 DOI: 10.1038/s41467-023-43489-4  0.11
2020 Pappu RV. Phase Separation-A Physical Mechanism for Organizing Information and Biochemical Reactions. Developmental Cell. 55: 1-3. PMID 33049210 DOI: 10.1016/j.devcel.2020.09.023  0.083
2021 Keating CD, Pappu RV. Liquid-Liquid Phase Separation: A Widespread and Versatile Way to Organize Aqueous Solutions. The Journal of Physical Chemistry Letters. 12: 10994-10995. PMID 34788997 DOI: 10.1021/acs.jpclett.1c03352  0.079
2021 Keating CD, Pappu RV. Liquid-Liquid Phase Separation: A Widespread and Versatile Way to Organize Aqueous Solutions. The Journal of Physical Chemistry. B. 125: 12399-12400. PMID 34788996 DOI: 10.1021/acs.jpcb.1c08831  0.079
2023 Shinn MK, Pappu RV. Soaping up transcriptional condensates. Developmental Cell. 58: 915-916. PMID 37279696 DOI: 10.1016/j.devcel.2023.05.002  0.062
2009 Thomas DG, Pappu RV, Baker NA. Ontologies for cancer nanotechnology research. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2009: 4158-61. PMID 19964619 DOI: 10.1109/IEMBS.2009.5333941  0.06
2021 Lorenzini M, Burel S, Lesage A, Wagner E, Charrière C, Chevillard PM, Evrard B, Maloney D, Ruff KM, Pappu RV, Wagner S, Nerbonne JM, Silva JR, Townsend RR, Maier LS, et al. Proteomic and functional mapping of cardiac NaV1.5 channel phosphorylation sites. The Journal of General Physiology. 153. PMID 33410863 DOI: 10.1085/jgp.202012646  0.047
1973 Pappu RV, Boothroyd AR. Memory behavior of metal-plasma-anodized Al2O3 and SiO2-semiconductor (MAOS) capacitors Applied Physics Letters. 22: 72-74. DOI: 10.1063/1.1654561  0.036
1978 Pappu RV, Harris E, Yates M. Screening methods and experience with MOS memory Microelectronics Reliability. 17: 193-199. DOI: 10.1016/0026-2714(78)91154-X  0.034
Hide low-probability matches.