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Results 1 - 19 de 19

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1.

Evaluation of individual and ensemble probabilistic forecasts of COVID-19 mortality in the United States.

Cramer, Estee Y; Ray, Evan L; Lopez, Velma K; Bracher, Johannes; Brennen, Andrea; Castro Rivadeneira, Alvaro J; Gerding, Aaron; Gneiting, Tilmann; House, Katie H; Huang, Yuxin; Jayawardena, Dasuni; Kanji, Abdul H; Khandelwal, Ayush; Le, Khoa; Mühlemann, Anja; Niemi, Jarad; Shah, Apurv; Stark, Ariane; Wang, Yijin; Wattanachit, Nutcha; Zorn, Martha W; Gu, Youyang; Jain, Sansiddh; Bannur, Nayana; Deva, Ayush; Kulkarni, Mihir; Merugu, Srujana; Raval, Alpan; Shingi, Siddhant; Tiwari, Avtansh; White, Jerome; Abernethy, Neil F; Woody, Spencer; Dahan, Maytal; Fox, Spencer; Gaither, Kelly; Lachmann, Michael; Meyers, Lauren Ancel; Scott, James G; Tec, Mauricio; Srivastava, Ajitesh; George, Glover E; Cegan, Jeffrey C; Dettwiller, Ian D; England, William P; Farthing, Matthew W; Hunter, Robert H; Lafferty, Brandon; Linkov, Igor; Mayo, Michael L.

Proc Natl Acad Sci U S A ; 119(15): e2113561119, 2022 04 12.

Article in English | MEDLINE | ID: mdl-35394862

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https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9169655
https://dx.doi.org/10.1073/pnas.2113561119

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2.

A genome wide dosage suppressor network reveals genomic robustness.

Patra, Biranchi; Kon, Yoshiko; Yadav, Gitanjali; Sevold, Anthony W; Frumkin, Jesse P; Vallabhajosyula, Ravishankar R; Hintze, Arend; Østman, Bjørn; Schossau, Jory; Bhan, Ashish; Marzolf, Bruz; Tamashiro, Jenna K; Kaur, Amardeep; Baliga, Nitin S; Grayhack, Elizabeth J; Adami, Christoph; Galas, David J; Raval, Alpan; Phizicky, Eric M; Ray, Animesh.

Nucleic Acids Res ; 45(1): 255-270, 2017 Jan 09.

Article in English | MEDLINE | ID: mdl-27899637

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https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5224485
https://dx.doi.org/10.1093/nar/gkw1148

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3.

Differential hepatic protein tyrosine nitration of mouse due to aging - effect on mitochondrial energy metabolism, quality control machinery of the endoplasmic reticulum and metabolism of drugs.

Marshall, Adrienne; Lutfeali, Reshma; Raval, Alpan; Chakravarti, Deb N; Chakravarti, Bulbul.

Biochem Biophys Res Commun ; 430(1): 231-5, 2013 Jan 04.

Article in English | MEDLINE | ID: mdl-23159622

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4.

Refinement of protein structure homology models via long, all-atom molecular dynamics simulations.

Raval, Alpan; Piana, Stefano; Eastwood, Michael P; Dror, Ron O; Shaw, David E.

Proteins ; 80(8): 2071-9, 2012 Aug.

Article in English | MEDLINE | ID: mdl-22513870

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5.

Detection of genomic islands via segmental genome heterogeneity.

Arvey, Aaron J; Azad, Rajeev K; Raval, Alpan; Lawrence, Jeffrey G.

Nucleic Acids Res ; 37(16): 5255-66, 2009 Sep.

Article in English | MEDLINE | ID: mdl-19589805

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https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2760805
https://dx.doi.org/10.1093/nar/gkp576

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6.

Proteome profiling of aging in mouse models: differential expression of proteins involved in metabolism, transport, and stress response in kidney.

Chakravarti, Bulbul; Seshi, Beerelli; Ratanaprayul, Wongrat; Dalal, Neville; Lin, Lawrence; Raval, Alpan; Chakravarti, Deb N.

Proteomics ; 9(3): 580-97, 2009 Feb.

Article in English | MEDLINE | ID: mdl-19184973

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7.

A highly uniform UV transillumination imaging system for quantitative analysis of nucleic acids and proteins.

Chakravarti, Bulbul; Louie, Melissa; Ratanaprayul, Wongrat; Raval, Alpan; Gallagher, Sean; Chakravarti, Deb N.

Proteomics ; 8(9): 1789-97, 2008 May.

Article in English | MEDLINE | ID: mdl-18398876

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8.

Mining protein networks for synthetic genetic interactions.

Paladugu, Sri R; Zhao, Shan; Ray, Animesh; Raval, Alpan.

BMC Bioinformatics ; 9: 426, 2008 Oct 09.

Article in English | MEDLINE | ID: mdl-18844977

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https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2577120
https://dx.doi.org/10.1186/1471-2105-9-426

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9.

Thermodynamics of neutral protein evolution.

Bloom, Jesse D; Raval, Alpan; Wilke, Claus O.

Genetics ; 175(1): 255-66, 2007 Jan.

Article in English | MEDLINE | ID: mdl-17110496

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10.

Proteomic profiling of aging in the mouse heart: Altered expression of mitochondrial proteins.

Chakravarti, Bulbul; Oseguera, Melva; Dalal, Neville; Fathy, Pamela; Mallik, Buddhadeb; Raval, Alpan; Chakravarti, Deb N.

Arch Biochem Biophys ; 474(1): 22-31, 2008 Jun 01.

Article in English | MEDLINE | ID: mdl-18284913

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11.

Evolution favors protein mutational robustness in sufficiently large populations.

Bloom, Jesse D; Lu, Zhongyi; Chen, David; Raval, Alpan; Venturelli, Ophelia S; Arnold, Frances H.

BMC Biol ; 5: 29, 2007 Jul 17.

Article in English | MEDLINE | ID: mdl-17640347

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12.

PathSys: integrating molecular interaction graphs for systems biology.

Baitaluk, Michael; Qian, Xufei; Godbole, Shubhada; Raval, Alpan; Ray, Animesh; Gupta, Amarnath.

BMC Bioinformatics ; 7: 55, 2006 Feb 07.

Article in English | MEDLINE | ID: mdl-16464251

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13.

Assessment of the utility of contact-based restraints in accelerating the prediction of protein structure using molecular dynamics simulations.

Raval, Alpan; Piana, Stefano; Eastwood, Michael P; Shaw, David E.

Protein Sci ; 25(1): 19-29, 2016 Jan.

Article in English | MEDLINE | ID: mdl-26266489

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https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4815320
https://dx.doi.org/10.1002/pro.2770

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14.

Some asymptotic properties of duplication graphs.

Raval, Alpan.

Phys Rev E Stat Nonlin Soft Matter Phys ; 68(6 Pt 2): 066119, 2003 Dec.

Article in English | MEDLINE | ID: mdl-14754281

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15.

Computational modeling in systems biology.

Vallabhajosyula, Ravishankar R; Raval, Alpan.

Methods Mol Biol ; 662: 97-120, 2010.

Article in English | MEDLINE | ID: mdl-20824468

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16.

Identifying hubs in protein interaction networks.

Vallabhajosyula, Ravishankar R; Chakravarti, Deboki; Lutfeali, Samina; Ray, Animesh; Raval, Alpan.

PLoS One ; 4(4): e5344, 2009.

Article in English | MEDLINE | ID: mdl-19399170

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https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2670494
https://dx.doi.org/10.1371/journal.pone.0005344

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17.

Molecular clock on a neutral network.

Raval, Alpan.

Phys Rev Lett ; 99(13): 138104, 2007 Sep 28.

Article in English | MEDLINE | ID: mdl-17930643

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18.

A single determinant dominates the rate of yeast protein evolution.

Drummond, D Allan; Raval, Alpan; Wilke, Claus O.

Mol Biol Evol ; 23(2): 327-37, 2006 Feb.

Article in English | MEDLINE | ID: mdl-16237209

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19.

Predicting the tolerance of proteins to random amino acid substitution.

Wilke, Claus O; Bloom, Jesse D; Drummond, D Allan; Raval, Alpan.

Biophys J ; 89(6): 3714-20, 2005 Dec.

Article in English | MEDLINE | ID: mdl-16150971

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