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  1. Martins, Layla Farage; Antunes, Luciana Principal; Pascon, Renata C.; de Oliveira, Julio Cezar Franco; Digiampietri, Luciano A.; Barbosa, Deibs; Peixoto, Bruno Malveira; Vallim, Marcelo A.; Viana-Niero, Cristina; Ostroski, Eric H.; Telles, Guilherme P.; Dias, Zanoni; da Cruz, João Batista; Juliano, Luiz; Verjovski-Almeida, Sergio; da Silva, Aline Maria; Setubal, João Carlos

    Metagenomic Analysis of a Tropical Composting Operation at the São Paulo Zoo Park Reveals Diversity of Biomass Degradation Functions and Organisms

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    Public Library of Science (PLoS), 2013

    Published in: PLoS ONE

  2. Justo Arevalo, Santiago; Zapata Sifuentes, Daniela; Cuba Portocarrero, Andrea; Brescia Reátegui, Michella; Monge Pimentel, Claudia; Farage Martins, Layla; Marques Pierry, Paulo; Morais Piroupo, Carlos; Guerra Santa Cruz, Alcides; Quiñones Aguilar, Mauro; Shaker Farah, Chuck; Setubal, João Carlos; da Silva, Aline Maria

    Genomic Characterization of Bacillus safensis Isolated from Mine Tailings in Peru and Evaluation of Its Cyanide-Degrading Enzyme CynD

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    American Society for Microbiology, 2022

    Published in: Applied and Environmental Microbiology

  3. Ferreira, Lucas Salomão de Sousa; Butarelli, Ana Carolina de Araújo; Sousa, Raissa da Costa; Oliveira, Mariene Amorim de; Moraes, Pablo Henrique Gonçalves; Ribeiro, Igor Santana; Sousa, Pedro Felipe Rodrigues; Dall'Agnol, Hivana Melo Barbosa; Lima, Alex Ranieri Jerônimo; Gonçalves, Evonnildo Costa; Sivonen, Kaarina; Fewer, David; Riyuzo, Raquel; Piroupo, Carlos Morais; da Silva, Aline Maria; Setubal, João Carlos; Dall'Agnol, Leonardo Teixeira

    High-Quality Draft Genome Sequence of Pantanalinema sp. GBBB05, a Cyanobacterium From Cerrado Biome

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    Frontiers Media SA, 2021

    Published in: Frontiers in Ecology and Evolution

  4. Teixeira, André Azevedo Reis; Carnero, Luis Rodriguez; Kuramoto, Andréia; Tang, Fenny Hui Fen; Gomes, Carlos Hernique; Pereira, Natalia Bueno; de Oliveira, Léa Campos; Garrini, Regina; Monteiro, Jhonatas Sirino; Setubal, João Carlos; Sabino, Ester Cerdeira; Pasqualini, Renata; Colli, Walter; Arap, Wadih; Alves, Maria Júlia Manso; Cunha-Neto, Edécio; Giordano, Ricardo José

    A refined genome phage display methodology delineates the human antibody response in patients with Chagas disease

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    Elsevier BV, 2021

    Published in: iScience

  5. Silva, Natalia Maria; de Oliveira, Aline Márcia Silva Araújo; Pegorin, Stefania; Giusti, Camila Escandura; Ferrari, Vitor Batista; Barbosa, Deibs; Martins, Layla Farage; Morais, Carlos; Setubal, João Carlos; Vasconcellos, Suzan Pantaroto; da Silva, Aline Maria; de Oliveira, Julio Cezar Franco; Pascon, Renata Castiglioni; Viana-Niero, Cristina

    Characterization of novel hydrocarbon-degrading Gordonia paraffinivorans and Gordonia sihwensis strains isolated from composting

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    Public Library of Science (PLoS), 2019

    Published in: PLOS ONE

  6. Pessoa, Diogo de Oliveira; Rius, Flávia Eichemberger; Papaiz, Debora D'Angelo; Ayub, Ana Luísa Pedroso; Morais, Alice Santana; de Souza, Camila Ferreira; da Paixão, Vinicius Ferreira; Setubal, João Carlos; Newton-Bishop, Julia; Nsengimana, Jérémie; Azevedo, Hatylas; Reis, Eduardo Moraes; Jasiulionis, Miriam Galvonas

    Transcriptional signatures underlying dynamic phenotypic switching and novel disease biomarkers in a linear cellular model of melanoma progression

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    Elsevier BV, 2021

    Published in: Neoplasia

  7. Zimpel, Cristina Kraemer; Patané, José Salvatore L.; Guedes, Aureliano Coelho Proença; de Souza, Robson F.; Silva-Pereira, Taiana T.; Camargo, Naila C. Soler; de Souza Filho, Antônio F.; Ikuta, Cássia Y.; Neto, José Soares Ferreira; Setubal, João Carlos; Heinemann, Marcos Bryan; Guimaraes, Ana Marcia Sa

    Global Distribution and Evolution of Mycobacterium bovis Lineages

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    Frontiers Media SA, 2020

    Published in: Frontiers in Microbiology

  8. Al Assal, Karina; Prifti, Edi; Belda, Eugeni; Sala, Priscila; Clément, Karine; Dao, Maria-Carlota; Doré, Joel; Levenez, Florence; Taddei, Carla R.; Fonseca, Danielle Cristina; Rocha, Ilanna Marques; Balmant, Bianca Depieri; Thomas, Andrew Maltez; Santo, Marco A.; Dias-Neto, Emmanuel; Setubal, João Carlos; Zucker, Jean-Daniel; Belarmino, Giliane; Torrinhas, Raquel Susana; Waitzberg, Dan L.

    Gut Microbiota Profile of Obese Diabetic Women Submitted to Roux-en-Y Gastric Bypass and Its Association with Food Intake and Postoperative Diabetes Remission

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    MDPI AG, 2020

    Published in: Nutrients

  9. Sato, Fabio Takeo; Yap, Yu Anne; Crisma, Amanda Rabello; Portovedo, Mariana; Murata, Gilson Masahiro; Hirabara, Sandro Massao; Ribeiro, Willian Rodrigues; Marcantonio Ferreira, Caroline; Cruz, Maysa Mariana; Pereira, Joice Naiara Bertaglia; Payolla, Tanyara Baliani; Guima, Suzana Eiko Sato; Thomas, Andrew Maltez; Setubal, João Carlos; Alonso-Vale, Maria Isabel Cardoso; Santos, Marinilce Fagundes; Curi, Rui; Marino, Eliana; Vinolo, Marco A. R.

    Tributyrin Attenuates Metabolic and Inflammatory Changes Associated with Obesity through a GPR109A-Dependent Mechanism

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    MDPI AG, 2020

    Published in: Cells

  10. Lima-Junior, James Daltro; Viana-Niero, Cristina; Conde Oliveira, Daniel V.; Machado, Gabriel Esquitini; Rabello, Michelle Cristiane da Silva; Martins-Junior, Joaquim; Martins, Layla Farage; Digiampietri, Luciano Antonio; da Silva, Aline Maria; Setubal, João Carlos; Russell, Daniel A.; Jacobs-Sera, Deborah; Pope, Welkin H.; Hatfull, Graham F.; Leão, Sylvia Cardoso

    Characterization of mycobacteria and mycobacteriophages isolated from compost at the São Paulo Zoo Park Foundation in Brazil and creation of the new mycobacteriophage Cluster U

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    Springer Science and Business Media LLC, 2016

    Published in: BMC Microbiology

  11. Almeida, Nalvo F.; Yan, Shuangchun; Lindeberg, Magdalen; Studholme, David J.; Schneider, David J.; Condon, Bradford; Liu, Haijie; Viana, Carlos J.; Warren, Andrew; Evans, Clive; Kemen, Eric; MacLean, Dan; Angot, Aurelie; Martin, Gregory B.; Jones, Jonathan D.; Collmer, Alan; Setubal, Joao C.; Vinatzer, Boris A.

    A Draft Genome Sequence of Pseudomonas syringae pv. tomato T1 Reveals a Type III Effector Repertoire Significantly Divergent from That of Pseudomonas syringae pv. tomato DC3000

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    Scientific Societies, 2009

    Published in: Molecular Plant-Microbe Interactions®

  12. DeMarco, Ricardo; Kowaltowski, Andre T.; Machado, Abimael A.; Soares, M. Bento; Gargioni, Cybele; Kawano, Toshie; Rodrigues, Vanderlei; Madeira, Alda M. B. N.; Wilson, R. Alan; Menck, Carlos F. M.; Setubal, João C.; Dias-Neto, Emmanuel; Leite, Luciana C. C.; Verjovski-Almeida, Sergio

    Saci-1, -2, and -3 and Perere, Four Novel Retrotransposons with High Transcriptional Activities from the Human Parasite Schistosoma mansoni

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    American Society for Microbiology, 2004

    Published in: Journal of Virology

  13. DeMarco, Ricardo; Kowaltowski, Andre T.; Machado, Abimael A.; Soares, M. Bento; Gargioni, Cybele; Kawano, Toshie; Rodrigues, Vanderlei; Madeira, Alda M. B. N.; Wilson, R. Alan; Menck, Carlos F. M.; Setubal, João C.; Dias-Neto, Emmanuel; Leite, Luciana C. C.; Verjovski-Almeida, Sergio

    Saci-1, -2, and -3 and Perere, Four Novel Retrotransposons with High Transcriptional Activities from the Human Parasite Schistosoma mansoni

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    American Society for Microbiology, 2004

    Published in: Journal of Virology

  14. de Souza Xavier Costa, Natália; Ribeiro Júnior, Gabriel; do Nascimento, Ellen Caroline Toledo; de Brito, Jôse Mara; Antonangelo, Leila; Faria, Caroline Silvério; Monteiro, Jhonatas Sirino; Setubal, João Carlos; Pinho, João Renato Rebello; Pereira, Roberta Verciano; Seelaender, Marilia; de Castro, Gabriela Salim; Lima, Joanna D. C. C.; de Almeida Monteiro, Renata Aparecida; Duarte-Neto, Amaro Nunes; Saldiva, Paulo Hilário Nascimento; Ferraz da Silva, Luiz Fernando; Dolhnikoff, Marisa; Mauad, Thais

    COVID-19 induces more pronounced extracellular matrix deposition than other causes of ARDS

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    Springer Science and Business Media LLC, 2023

    Published in: Respiratory Research

  15. da Paixão, Vinicius Ferreira; Sosa, Omar Julio; da Silva Pellegrina, Diogo Vieira; Dazzani, Bianca; Corrêa, Thalita Bueno; Risério Bertoldi, Ester; da Cruz e Alves-de-Moraes, Luís Bruno; de Oliveira Pessoa, Diogo; de Paiva Oliveira, Victoria; Alberto Chiong Zevallos, Ricardo; Russo, Lilian Cristina; Forti, Fabio Luis; Eduardo Ferreira, João; Carioca Freitas, Helano; Jukemura, José; Machado, Marcel Cerqueira César; Dirlei Begnami, Maria; Setubal, João Carlos; Bassères, Daniela Sanchez; Moraes Reis, Eduardo

    Annotation and functional characterization of long noncoding RNAs deregulated in pancreatic adenocarcinoma

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    Springer Science and Business Media LLC, 2022

    Published in: Cellular Oncology

  16. Pierry, Paulo Marques; de Santana, Wesley Oliveira; Kitajima, João Paulo; Martins-Junior, Joaquim; Zaini, Paulo Adriano; Uceda-Campos, Guillermo; Feitosa-Junior, Oseias R.; Pessoa, Patrícia Isabela Silva; Coletta-Filho, Helvécio Della; de Souza, Alessandra Alves; Machado, Marcos Antonio; Gesteira, Abelmon da Silva; Martins, Layla Farage; Amaral, Murilo Sena; Beckedorff, Felipe Cesar; de Almeida, Luiz Gonzaga Paula; de Vasconcelos, Ana Tereza Ribeiro; Verjovski-Almeida, Sergio; Setubal, João Carlos; da Silva, Aline Maria

    High-Quality Draft Genome Sequence Resources of Eight Xylella fastidiosa Strains Isolated from Citrus, Coffee, Plum, and Hibiscus in South America

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    Scientific Societies, 2020

    Published in: Phytopathology®

  17. Fabro, Alexandre Todorovic; Machado-Rugolo, Juliana; Baldavira, Camila Machado; Prieto, Tabatha Gutierrez; Farhat, Cecília; Rotea ManGone, Flavia Regina; Batah, Sabrina Setembre; Cruvinel, Heloísa Resende; Aldá, Maiara Almeida; Monteiro, Jhonatas Sirino; Pádua, Adriana Inacio; Morais, Sirlei Siani; Antônio de Oliveira, Rogério; Santos, Marcel Koenigkam; Baddini-Martinez, José Antônio; Setubal, João Carlos; Rainho, Claudia Aparecida; Yoo, Hugo Hyung Bok; Silva, Pedro Leme; Nagai, Maria Aparecida; Capelozzi, Vera Luiza

    Circulating Plasma miRNA and Clinical/Hemodynamic Characteristics Provide Additional Predictive Information About Acute Pulmonary Thromboembolism, Chronic Thromboembolic Pulmonary Hypertension and Idiopathic Pulmonary Hypertension

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    Frontiers Media SA, 2021

    Published in: Frontiers in Pharmacology

  18. Felestrino, Érica Barbosa; Sanchez, Angélica Bianchini; Caneschi, Washington Luiz; Lemes, Camila Gracyelle de Carvalho; Assis, Renata de Almeida Barbosa; Cordeiro, Isabella Ferreira; Fonseca, Natasha Peixoto; Villa, Morghana Marina; Vieira, Izadora Tabuso; Kamino, Luciana Hiromi Yoshino; do Carmo, Flávio Fonseca; da Silva, Aline Maria; Thomas, Andrew Maltez; Patané, José Salvatore Leister; Ferreira, Fernanda Carla; de Freitas, Leandro Grassi; Varani, Alessandro de Mello; Ferro, Jesus Aparecido; Silva, Robson Soares; Almeida, Nalvo Franco; Garcia, Camila Carrião Machado; Setubal, João Carlos; Moreira, Leandro Marcio

    Complete genome sequence and analysis of Alcaligenes faecalis strain Mc250, a new potential plant bioinoculant

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    Public Library of Science (PLoS), 2020

    Published in: PLOS ONE

  19. Thomas, Andrew Maltez; Manghi, Paolo; Asnicar, Francesco; Pasolli, Edoardo; Armanini, Federica; Zolfo, Moreno; Beghini, Francesco; Manara, Serena; Karcher, Nicolai; Pozzi, Chiara; Gandini, Sara; Serrano, Davide; Tarallo, Sonia; Francavilla, Antonio; Gallo, Gaetano; Trompetto, Mario; Ferrero, Giulio; Mizutani, Sayaka; Shiroma, Hirotsugu; Shiba, Satoshi; Shibata, Tatsuhiro; Yachida, Shinichi; Yamada, Takuji; Wirbel, Jakob; [...]

    Author Correction: Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation

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    Springer Science and Business Media LLC, 2019

    Published in: Nature Medicine

  20. Fachi, José Luís; Felipe, Jaqueline de Souza; Pral, Laís Passariello; da Silva, Bruna Karadi; Corrêa, Renan Oliveira; de Andrade, Mirella Cristiny Pereira; da Fonseca, Denise Morais; Basso, Paulo José; Câmara, Niels Olsen Saraiva; de Sales e Souza, Éricka Lorenna; dos Santos Martins, Flaviano; Guima, Suzana Eiko Sato; Thomas, Andrew Maltez; Setubal, João Carlos; Magalhães, Yuli Thamires; Forti, Fábio Luis; Candreva, Thamiris; Rodrigues, Hosana Gomes; de Jesus, Marcelo Bispo; Consonni, Sílvio Roberto; Farias, Alessandro dos Santos; Varga-Weisz, Patrick; Vinolo, Marco Aurélio Ramirez

    Butyrate Protects Mice from Clostridium difficile-Induced Colitis through an HIF-1-Dependent Mechanism

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    Elsevier BV, 2019

    Published in: Cell Reports