Search Results - Anne‐Ruxandra Carvunis

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  1. 1
    Biological factors and statistical limitations prevent detection of most noncanonical proteins by mass spectrometry

    Biological factors and statistical limitations prevent detection of most noncanonical proteins by mass spectrometry by Aaron Wacholder, Anne‐Ruxandra Carvunis

    Published 2023
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  2. 2
    De novo gene birth

    De novo gene birth by S. Branden Van Oss, Anne‐Ruxandra Carvunis

    Published 2019
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  3. 3
    Synteny-based analyses indicate that sequence divergence is not the main source of orphan genes

    Synteny-based analyses indicate that sequence divergence is not the main source of orphan genes by Nikolaos Vakirlis, Anne‐Ruxandra Carvunis, Aoife McLysaght

    Published 2020
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  4. 4
    Integrative approaches for finding modular structure in biological networks

    Integrative approaches for finding modular structure in biological networks by Koyel Mitra, Anne‐Ruxandra Carvunis, Sanath Kumar Ramesh, Trey Ideker

    Published 2013
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  5. 5
    The meanings of 'function' in biology and the problematic case of de novo gene emergence

    The meanings of 'function' in biology and the problematic case of de novo gene emergence by Diane Marie Keeling, Patricia Garza, Charisse M. Nartey, Anne‐Ruxandra Carvunis

    Published 2019
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  6. 6
    Genome-Wide Identification of Pseudomonas aeruginosa Virulence-Related Genes Using a Caenorhabditis elegans Infection Model

    Genome-Wide Identification of Pseudomonas aeruginosa Virulence-Related Genes Using a Caenorhabditis elegans Infection Model by Rhonda Feinbaum, Jonathan M. Urbach, Nicole T. Liberati, Slavica Djonović, Allison Adonizio, Anne‐Ruxandra Carvunis, Frederick M. Ausubel

    Published 2012
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  7. 7
    A vast evolutionarily transient translatome contributes to phenotype and fitness

    A vast evolutionarily transient translatome contributes to phenotype and fitness by Aaron Wacholder, Saurin Bipin Parikh, Nelson Castilho Coelho, Omer Acar, Carly Houghton, Lin Chou, Anne‐Ruxandra Carvunis

    Published 2023
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  8. 8
    No evidence for phylostratigraphic bias impacting inferences on patterns of gene emergence and evolution

    No evidence for phylostratigraphic bias impacting inferences on patterns of gene emergence and evolution by Tomislav Domazet‐Lošo, Anne‐Ruxandra Carvunis, M. Mar Albà, Martin Sebastijan Šestak, Robert Bakarić, Rafik Neme, Diethard Tautz

    Published 2016
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  9. 9
    Quantitative Translation of Dog-to-Human Aging by Conserved Remodeling of the DNA Methylome

    Quantitative Translation of Dog-to-Human Aging by Conserved Remodeling of the DNA Methylome by Tina Wang, Jianzhu Ma, Andrew N. Hogan, Samson Fong, Katherine Licon, Brian Tsui, Jason F. Kreisberg, Peter D. Adams, Anne‐Ruxandra Carvunis, Danika L. Bannasch, Elaine A. Ostrander, Trey Ideker

    Published 2020
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  10. 10
    Proto-genes and de novo gene birth

    Proto-genes and de novo gene birth by Anne‐Ruxandra Carvunis, Thomas Rolland, Ilan Wapinski, Michael A. Calderwood, Muhammed A. Yıldırım, Nicolas Simonis, Benoît Charloteaux, César A. Hidalgo, Justin Barbette, Balaji Santhanam, Gloria A. Brar, Jonathan S. Weissman, Aviv Regev, Nicolas Thierry‐Mieg, Michael E. Cusick, Marc Vidal

    Published 2012
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  11. 11
    Literature-curated protein interaction datasets

    Literature-curated protein interaction datasets by Michael E. Cusick, Haiyuan Yu, Alex Smolyar, K. Venkatesan, Anne‐Ruxandra Carvunis, Nicolas Simonis, Jean‐François Rual, Heather Borick, Pascal Braun, Matija Dreze, Jean Vandenhaute, Mary Galli, Junshi Yazaki, David E. Hill, Joseph R. Ecker, Frederick P. Roth, Marc Vidal

    Published 2008
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  12. 12
    De novo emergence of adaptive membrane proteins from thymine-rich genomic sequences

    De novo emergence of adaptive membrane proteins from thymine-rich genomic sequences by Nikolaos Vakirlis, Omer Acar, Brian Hsu, Nelson Castilho Coelho, S. Branden Van Oss, Aaron Wacholder, Kate Medetgul-Ernar, Ray W. Bowman, Cameron P. Hines, John Iannotta, Saurin Bipin Parikh, Aoife McLysaght, Carlos J. Camacho, Allyson F. O’Donnell, Trey Ideker, Anne‐Ruxandra Carvunis

    Published 2020
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  13. 13
    Mapping transcription factor interactome networks using HaloTag protein arrays

    Mapping transcription factor interactome networks using HaloTag protein arrays by Junshi Yazaki, Mary Galli, Alice Y. Kim, Kazumasa Nito, Fernando Alemán, Katherine Noelani Chang, Anne‐Ruxandra Carvunis, Rosa Quan, Hien P. Nguyen, Liang Song, José M. Álvarez, Shao‐shan Carol Huang, Huaming Chen, Niroshan Ramachandran, Stefan Altmann, Rodrigo A. Gutiérrez, David E. Hill, Julian I. Schroeder, Joanne Chory, Joshua LaBaer, Marc Vidal, Pascal Braun, Joseph R. Ecker

    Published 2016
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  14. 14
    Empirically controlled mapping of the Caenorhabditis elegans protein-protein interactome network

    Empirically controlled mapping of the Caenorhabditis elegans protein-protein interactome network by Nicolas Simonis, Jean‐François Rual, Anne‐Ruxandra Carvunis, Murat Taşan, Irma Lemmens, Tomoko Hirozane-Kishikawa, Tong Hao, Julie M. Sahalie, K. Venkatesan, Fana Gebreab, Sebiha Cevik, Niels Klitgord, Changyu Fan, Pascal Braun, Ning Li, Nono Ayivi-Guedehoussou, Elizabeth Dann, Nicolas Bertin, David Szeto, Amélie Dricot, Muhammed A. Yıldırım, Chenwei Lin, Anne-Sophie de Smet, Huey-Ling Kao, Christophe Simon, Alex Smolyar, Jin Sook Ahn, Muneesh Tewari, Mike Boxem, Stuart Milstein, Haiyuan Yu, Matija Dreze, Jean Vandenhaute, Kristin C. Gunsalus, Michael E. Cusick, David E. Hill, Jan Tavernier, Frederick P. Roth, Marc Vidal

    Published 2008
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  15. 15
    Detection of human unannotated microproteins by mass spectrometry-based proteomics: a community assessment

    Detection of human unannotated microproteins by mass spectrometry-based proteomics: a community assessment by Aaron Wacholder, Eric W. Deutsch, Leron W. Kok, Jip T. van Dinter, Jiwon Lee, James C. Wright, Sébastien Leblanc, Ayodya H Jayatissa, Kevin Jiang, Ihor Arefiev, Kevin Cao, Francis Bourassa, Félix-Antoine Trifiro, Michal Bassani‐Sternberg, Pavel V. Baranov, Annelies Bogaert, Sonia Chothani, Ivo Fierro-Monti, Daria Fijałkowska, Kris Gevaert, Norbert Hübner, Jonathan M. Mudge, Jorge Ruiz‐Orera, Jana Felicitas Schulz, Juan Antonio Vizcaíno, John R. Prensner, Marie A. Brunet, Thomas F. Martínez, Sarah A. Slavoff, Xavier Roucou, Jyoti S. Choudhary, Sebastiaan van Heesch, Robert L. Moritz, Anne‐Ruxandra Carvunis

    Published 2025
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  16. 16
    High-quality peptide evidence for annotating non-canonical open reading frames as human proteins

    High-quality peptide evidence for annotating non-canonical open reading frames as human proteins by Eric W. Deutsch, Leron W. Kok, Jonathan M. Mudge, Jorge Ruiz‐Orera, Ivo Fierro-Monti, Zhi Sun, Jennifer G. Abelin, M. Mar Albà, Julie L. Aspden, Ariel Bazzini, Elspeth A. Bruford, Marie A. Brunet, Lorenzo Calviello, Steven A. Carr, Anne‐Ruxandra Carvunis, Sonia Chothani, Jim Clauwaert, Kellie Dean, Pouya Faridi, Adam Frankish, Norbert Hübner, Nicholas T. Ingolia, Michele Magrane, María Martin, Thomas F. Martínez, Gerben Menschaert, Uwe Ohler, Sandra Orchard, Owen J. L. Rackham, Xavier Roucou, Sarah A. Slavoff, Eivind Valen, Aaron Wacholder, Jonathan S. Weissman, Wei Wu, Zhi Xie, Jyoti S. Choudhary, Michal Bassani‐Sternberg, Juan Antonio Vizcaíno, Nicola Ternette, Robert L. Moritz, John R. Prensner, Sebastiaan van Heesch

    Published 2024
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  17. 17
    Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins

    Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins by Orit Rozenblatt–Rosen, Rahul C. Deo, Megha Padi, Guillaume Adelmant, Michael A. Calderwood, Thomas Rolland, Miranda Grace, Amélie Dricot, Manor Askenazi, Maria Tavares, Samuel J. Pevzner, Fieda Abderazzaq, Danielle Byrdsong, Anne‐Ruxandra Carvunis, Alyce A. Chen, Jingwei Cheng, Mick Correll, Melissa Duarte, Changyu Fan, Mariet C.W. Feltkamp, Scott B. Ficarro, Rachel Franchi, Brijesh K. Garg, Natali Gulbahce, Tong Hao, Amy M. Holthaus, Robert James, Anna Korkhin, Larisa Litovchick, Jessica C. Mar, Theodore R. Pak, Sabrina Rabello, Renee Rubio, Yun Shen, Saurav Raj Singh, Jennifer M. Spangle, Murat Taşan, Shelly A. Wanamaker, James T. Webber, Jennifer Roecklein‐Canfield, Eric Johannsen, Albert‐László Barabási, Rameen Beroukhim, Elliott Kieff, Michael E. Cusick, David E. Hill, Karl Münger, Jarrod A. Marto, John Quackenbush, Frederick P. Roth, James A. DeCaprio, Marc Vidal

    Published 2012
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  18. 18
    A Proteome-Scale Map of the Human Interactome Network

    A Proteome-Scale Map of the Human Interactome Network by Thomas Rolland, Murat Taşan, Benoît Charloteaux, Samuel Pevzner, Quan Zhong, Nidhi Sahni, S. Stephen Yi, Irma Lemmens, Celia Fontanillo, Roberto Mosca, Atanas Kamburov, Susan Dina Ghiassian, Xinping Yang, Lila Ghamsari, Dawit Balcha, Bridget E. Begg, Pascal Braun, Marc Brehme, Martin Broly, Anne‐Ruxandra Carvunis, Dan Convery-Zupan, Roser Corominas, Jasmin Coulombe‐Huntington, Elizabeth Dann, Matija Dreze, Amélie Dricot, Changyu Fan, Eric A. Franzosa, Fana Gebreab, Bryan J. Gutierrez, Madeleine F. Hardy, Mike Jin, Shuli Kang, Ruth Kiros, Guan Ning Lin, Katja Luck, Andrew MacWilliams, Jörg Menche, Ryan R. Murray, Alexandre Palagi, Matthew M. Poulin, Xavier Rambout, John Rasla, Patrick Reichert, Viviana Romero, Elien Ruyssinck, Julie M. Sahalie, Annemarie Scholz, Akash Shah, Amitabh Sharma, Yun Shen, Kerstin Spirohn, Stanley Tam, Alexander O. Tejeda, Shelly A. Wanamaker, Jean‐Claude Twizere, Kerwin Vega, Jennifer Walsh, Michael E. Cusick, Yu Xia, Albert‐László Barabási, Lilia M. Iakoucheva, Patrick Aloy, Javier De Las Rivas, Jan Tavernier, Michael A. Calderwood, David E. Hill, Tong Hao, Frederick P. Roth, Marc Vidal

    Published 2014
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  19. 19
    Evidence for Network Evolution in an <i>Arabidopsis</i> Interactome Map

    Evidence for Network Evolution in an <i>Arabidopsis</i> Interactome Map by Matija Dreze, Anne‐Ruxandra Carvunis, Benoît Charloteaux, Mary Galli, Samuel J. Pevzner, Murat Taşan, Yong‐Yeol Ahn, Padmavathi Balumuri, Albert‐László Barabási, Vanessa Bautista, Pascal Braun, Danielle Byrdsong, Huaming Chen, Jonathan D. Chesnut, Michael E. Cusick, Jeffery L. Dangl, Chris de los Reyes, Amélie Dricot, Melissa Duarte, Joseph R. Ecker, Changyu Fan, Lantian Gai, Fana Gebreab, Gourab Ghoshal, Patrick N. Gilles, Bryan J. Gutierrez, Tong Hao, David E. Hill, Christopher J. Kim, Rosa Cheuk Kim, Claire Lurin, Andrew MacWilliams, Uday Matrubutham, Tijana Milenković, Jyotika Mirchandani, Dario Monachello, Jonathan D. Moore, M. Shahid Mukhtar, Eric Olivares, Suswapna Patnaik, Matthew M. Poulin, Nataša Pržulj, Rosa Quan, Sabrina Rabello, Gopalakrishna Ramaswamy, Patrick Reichert, Edward A. Rietman, Thomas Rolland, Viviana Romero, Frederick P. Roth, Balaji Santhanam, Robert J. Schmitz, Paul Shinn, William Spooner, Joshua C. Stein, Geetha M. Swamilingiah, Stanley Tam, Jean Vandenhaute, Marc Vidal, Selma Waaijers, Doreen Ware, Evan M. Weiner, Stacy Wu, Junshi Yazaki

    Published 2011
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