Search Results - "Silva, Israel T."

HIV-1 Integration Landscape during Latent and Active Infection by Cohn, Lillian B., Silva, Israel T., Oliveira, Thiago Y., Rosales, Rafael A., Parrish, Erica H., Learn, Gerald H., Hahn, Beatrice H., Czartoski, Julie L., McElrath, M. Juliana, Lehmann, Clara, Klein, Florian, Caskey, Marina, Walker, Bruce D., Siliciano, Janet D., Siliciano, Robert F., Jankovic, Mila, Nussenzweig, Michel C.

“…The barrier to curing HIV-1 is thought to reside primarily in CD4+ T cells containing silent proviruses. To characterize these latently infected cells, we…”
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Plasmodium Infection Promotes Genomic Instability and AID-Dependent B Cell Lymphoma by Robbiani, Davide F., Deroubaix, Stephanie, Feldhahn, Niklas, Oliveira, Thiago Y., Callen, Elsa, Wang, Qiao, Jankovic, Mila, Silva, Israel T., Rommel, Philipp C., Bosque, David, Eisenreich, Tom, Nussenzweig, André, Nussenzweig, Michel C.

“…Chronic infection with Plasmodium falciparum was epidemiologically associated with endemic Burkitt’s lymphoma, a mature B cell cancer characterized…”
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signeR: an empirical Bayesian approach to mutational signature discovery by Rosales, Rafael A, Drummond, Rodrigo D, Valieris, Renan, Dias-Neto, Emmanuel, da Silva, Israel T

“…Mutational signatures can be used to understand cancer origins and provide a unique opportunity to group tumor types that share the same origins and result…”
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APOBEC‐mediated DNA alterations: A possible new mechanism of carcinogenesis in EBV‐positive gastric cancer by Bobrovnitchaia, Irina, Valieris, Renan, Drummond, Rodrigo D., Lima, Joao P., Freitas, Helano C., Bartelli, Thais F., Amorim, Maria G., Nunes, Diana N., Dias‐Neto, Emmanuel, Silva, Israel T.

“…Mechanisms of viral oncogenesis are diverse and include the off‐target activity of enzymes expressed by the infected cells, which evolved to target viral…”
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Tissue-Associated Bacterial Alterations in Rectal Carcinoma Patients Revealed by 16S rRNA Community Profiling by Thomas, Andrew M, Jesus, Eliane C, Lopes, Ademar, Aguiar, Jr, Samuel, Begnami, Maria D, Rocha, Rafael M, Carpinetti, Paola Avelar, Camargo, Anamaria A, Hoffmann, Christian, Freitas, Helano C, Silva, Israel T, Nunes, Diana N, Setubal, João C, Dias-Neto, Emmanuel

“…Sporadic and inflammatory forms of colorectal cancer (CRC) account for more than 80% of cases. Recent publications have shown mechanistic evidence for the…”
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Epigenetic targeting of activation-induced cytidine deaminase by Wang, Qiao, Oliveira, Thiago, Jankovic, Mila, Silva, Israel T., Hakim, Ofir, Yao, Kaihui, Gazumyan, Anna, Mayer, Christian T., Pavri, Rushad, Casellas, Rafael, Nussenzweig, Michel C., Robbiani, Davide F.

“…Significance Activation-induced cytidine deaminase (AID) is a DNA modifying enzyme crucial for the generation of efficacious antibodies. AID also promiscuously…”
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Cross-reactive antibody response to Monkeypox virus surface proteins in a small proportion of individuals with and without Chinese smallpox vaccination history by Xia, Anqi, Wang, Xiaojie, He, Jiaying, Wu, Wei, Jiang, Weiyu, Xue, Song, Zhang, Qianqian, Gao, Yidan, Han, Yuru, Li, Yaming, Peng, Xiaofang, Xie, Minxiang, Mayer, Christian T, Liu, Jie, Hua, Chen, Sha, Yiou, Xu, Wei, Huang, Jinghe, Ying, Tianlei, Jiang, Shibo, Xie, Youhua, Cai, Qiliang, Lu, Lu, Silva, Israel T, Yuan, Zhenghong, Zhang, Yixiao, Wang, Qiao

“…Abstract Background After the eradication of smallpox in China in 1979, vaccination with the vaccinia virus (VACV) Tiantan strain for the general population…”
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53BP1 Alters the Landscape of DNA Rearrangements and Suppresses AID-Induced B Cell Lymphoma by Jankovic, Mila, Feldhahn, Niklas, Oliveira, Thiago Y., Silva, Israel T., Kieffer-Kwon, Kyong-Rim, Yamane, Arito, Resch, Wolfgang, Klein, Isaac, Robbiani, Davide F., Casellas, Rafael, Nussenzweig, Michel C.

“…Deficiencies in factors that regulate the DNA damage response enhance the incidence of malignancy by destabilizing the genome. However, the precise influence…”
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Dysregulation of the PRUNE2/PCA3 genetic axis in human prostate cancer: from experimental discovery to validation in two independent patient cohorts by Lauer, Richard C, Barry, Marc, Smith, Tracey L, Thomas, Andrew Maltez, Wu, Jin, Du, Ruofei, Lee, Ji-Hyun, Rao, Arpit, Dobroff, Andrey S, Arap, Marco A, Nunes, Diana N, Silva, Israel T, Dias-Neto, Emmanuel, Chen, Isan, McCance, Dennis J, Cavenee, Webster K, Pasqualini, Renata, Arap, Wadih

“…We have previously shown that the long non-coding (lnc)RNA ( ; formerly ) functions as a trans-dominant negative oncogene by targeting the previously…”
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Enhancement versus neutralization by SARS-CoV-2 antibodies from a convalescent donor associates with distinct epitopes on the RBD by Zhou, Yunjiao, Liu, Zezhong, Li, Shibo, Xu, Wei, Zhang, Qianqian, Silva, Israel T., Li, Cheng, Wu, Yanling, Jiang, Qingling, Liu, Zhenmi, Wang, Qiujing, Guo, Yu, Wu, Jianbo, Gu, Chengjian, Cai, Xia, Qu, Di, Mayer, Christian T., Wang, Xiangxi, Jiang, Shibo, Ying, Tianlei, Yuan, Zhenghong, Xie, Youhua, Wen, Yumei, Lu, Lu, Wang, Qiao

“…Several potent neutralizing antibodies against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus have been identified. However,…”
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Technical challenges of working with extracellular vesicles by Ramirez, Marcel I, Amorim, Maria G, Gadelha, Catarina, Milic, Ivana, Welsh, Joshua A, Freitas, Vanessa M, Nawaz, Muhammad, Akbar, Naveed, Couch, Yvonne, Makin, Laura, Cooke, Fiona, Vettore, Andre L, Batista, Patricia X, Freezor, Roberta, Pezuk, Julia A, Rosa-Fernandes, Lívia, Carreira, Ana Claudia O, Devitt, Andrew, Jacobs, Laura, Silva, Israel T, Coakley, Gillian, Nunes, Diana N, Carter, Dave, Palmisano, Giuseppe, Dias-Neto, Emmanuel

“…Extracellular Vesicles (EVs) are gaining interest as central players in liquid biopsies, with potential applications in diagnosis, prognosis and therapeutic…”
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Going viral? Linking the etiology of human prostate cancer to the PCA3 long noncoding RNA and oncogenic viruses by Teixeira, Andre A, Marchiò, Serena, Dias‐Neto, Emmanuel, Nunes, Diana N, da Silva, Israel T, Chackerian, Bryce, Barry, Marc, Lauer, Richard C, Giordano, Ricardo J, Sidman, Richard L, Wheeler, Cosette M, Cavenee, Webster K, Pasqualini, Renata, Arap, Wadih

“…Graphical Abstract The hypothesis is discussed that prostate cancer marker lncRNA PCA3 was introduced into the human genome by an oncogenic virus, and that…”
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Clonal CD4+ T cells in the HIV-1 latent reservoir display a distinct gene profile upon reactivation by Cohn, Lillian B., da Silva, Israel T., Valieris, Renan, Huang, Amy S., Lorenzi, Julio C. C., Cohen, Yehuda Z., Pai, Joy A., Butler, Allison L., Caskey, Marina, Jankovic, Mila, Nussenzweig, Michel C.

“…Despite suppressive combination antiretroviral therapy (ART), latent HIV-1 proviruses persist in patients. This latent reservoir is established within 48–72 h…”
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A total transcriptome profiling method for plasma-derived extracellular vesicles: applications for liquid biopsies by Amorim, Maria G., Valieris, Renan, Drummond, Rodrigo D., Pizzi, Melissa P., Freitas, Vanessa M., Sinigaglia-Coimbra, Rita, Calin, George A., Pasqualini, Renata, Arap, Wadih, Silva, Israel T., Dias-Neto, Emmanuel, Nunes, Diana N.

“…Extracellular vesicles (EVs) are key mediators of intercellular communication. Part of their biological effects can be attributed to the transfer of cargos of…”
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Zinc finger transcription factor zDC is a negative regulator required to prevent activation of classical dendritic cells in the steady state by Meredith, Matthew M, Liu, Kang, Kamphorst, Alice O, Idoyaga, Juliana, Yamane, Arito, Guermonprez, Pierre, Rihn, Suzannah, Yao, Kai-Hui, Silva, Israel T, Oliveira, Thiago Y, Skokos, Dimitris, Casellas, Rafael, Nussenzweig, Michel C

“…Classical dendritic cells (cDCs) process and present antigens to T cells. Under steady-state conditions, antigen presentation by cDCs induces tolerance. In…”
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A Systems-level Characterization of the Differentiation of Human Embryonic Stem Cells into Mesenchymal Stem Cells[S] by Billing, Anja M., Dib, Shaima S., Bhagwat, Aditya M., da Silva, Israel T., Drummond, Rodrigo D., Hayat, Shahina, Al-Mismar, Rasha, Ben-Hamidane, Hisham, Goswami, Neha, Engholm-Keller, Kasper, Larsen, Martin R., Suhre, Karsten, Rafii, Arash, Graumann, Johannes

“…In this integrative, multi-omics study we characterized the differentiation of human embryonic stem cells into mesenchymal stem cells using transcriptomics,…”
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ProbFAST: Probabilistic functional analysis system tool by Silva, Israel T, Vêncio, Ricardo Z N, Oliveira, Thiago Y K, Molfetta, Greice A, Silva, Jr, Wilson A

“…The post-genomic era has brought new challenges regarding the understanding of the organization and function of the human genome. Many of these challenges are…”
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Identification of chromosomal translocation hotspots via scan statistics by Silva, Israel T, Rosales, Rafael A, Holanda, Adriano J, Nussenzweig, Michel C, Jankovic, Mila

“…The detection of genomic regions unusually rich in a given pattern is an important undertaking in the analysis of next-generation sequencing data. Recent…”
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Targeting a cell surface vitamin D receptor on tumor-associated macrophages in triple-negative breast cancer by Staquicini, Fernanda I, Hajitou, Amin, Driessen, Wouter Hp, Proneth, Bettina, Cardó-Vila, Marina, Staquicini, Daniela I, Markosian, Christopher, Hoh, Maria, Cortez, Mauro, Hooda-Nehra, Anupama, Jaloudi, Mohammed, Silva, Israel T, Buttura, Jaqueline, Nunes, Diana N, Dias-Neto, Emmanuel, Eckhardt, Bedrich, Ruiz-Ramírez, Javier, Dogra, Prashant, Wang, Zhihui, Cristini, Vittorio, Trepel, Martin, Anderson, Robin, Sidman, Richard L, Gelovani, Juri G, Cristofanilli, Massimo, Hortobagyi, Gabriel N, Bhujwalla, Zaver M, Burley, Stephen K, Arap, Wadih, Pasqualini, Renata

“…Triple-negative breast cancer (TNBC) is an aggressive tumor with limited treatment options and poor prognosis. We applied the in vivo phage display technology…”
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Human endogenous retrovirus and multiple sclerosis: A review and transcriptome findings by Nali, Luiz H., Olival, Guilherme S., Montenegro, Horácio, da Silva, Israel T., Dias-Neto, Emmanuel, Naya, Hugo, Spangenberg, Lucia, Penalva-de-Oliveira, Augusto C., Romano, Camila M.

“…•HERVs may play a role in MS pathogenesis.•MS patients with higher EDSS or under relapsing conditions presents more HERV-W active loci.•Nineteen HERV families…”
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