Search Results - "DELANEY, Allen"

Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma by Morin, Ryan D., Mendez-Lago, Maria, Mungall, Andrew J., Goya, Rodrigo, Mungall, Karen L., Corbett, Richard D., Johnson, Nathalie A., Severson, Tesa M., Chiu, Readman, Field, Matthew, Jackman, Shaun, Krzywinski, Martin, Scott, David W., Trinh, Diane L., Tamura-Wells, Jessica, Li, Sa, Firme, Marlo R., Rogic, Sanja, Griffith, Malachi, Chan, Susanna, Yakovenko, Oleksandr, Meyer, Irmtraud M., Zhao, Eric Y., Smailus, Duane, Moksa, Michelle, Chittaranjan, Suganthi, Rimsza, Lisa, Brooks-Wilson, Angela, Spinelli, John J., Ben-Neriah, Susana, Meissner, Barbara, Woolcock, Bruce, Boyle, Merrill, McDonald, Helen, Tam, Angela, Zhao, Yongjun, Delaney, Allen, Zeng, Thomas, Tse, Kane, Butterfield, Yaron, Birol, Inanç, Holt, Rob, Schein, Jacqueline, Horsman, Douglas E., Moore, Richard, Jones, Steven J. M., Connors, Joseph M., Hirst, Martin, Gascoyne, Randy D., Marra, Marco A.

“…Follicular lymphoma (FL) and diffuse large B-cell lymphoma (DLBCL) are the two most common non-Hodgkin lymphomas (NHLs). Here we sequenced tumour and matched…”
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Somatic mutations altering EZH2 (Tyr641) in follicular and diffuse large B-cell lymphomas of germinal-center origin by Marra, Marco A, Morin, Ryan D, Johnson, Nathalie A, Severson, Tesa M, Mungall, Andrew J, An, Jianghong, Goya, Rodrigo, Paul, Jessica E, Boyle, Merrill, Woolcock, Bruce W, Kuchenbauer, Florian, Yap, Damian, Humphries, R Keith, Griffith, Obi L, Shah, Sohrab, Zhu, Henry, Kimbara, Michelle, Shashkin, Pavel, Charlot, Jean F, Tcherpakov, Marianna, Corbett, Richard, Tam, Angela, Varhol, Richard, Smailus, Duane, Moksa, Michelle, Zhao, Yongjun, Delaney, Allen, Qian, Hong, Birol, Inanc, Schein, Jacqueline, Moore, Richard, Holt, Robert, Horsman, Doug E, Connors, Joseph M, Jones, Steven, Aparicio, Samuel, Hirst, Martin, Gascoyne, Randy D

“…Follicular lymphoma (FL) and the GCB subtype of diffuse large B-cell lymphoma (DLBCL) derive from germinal center B cells. Targeted resequencing studies have…”
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Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells by Morin, Ryan D, O'Connor, Michael D, Griffith, Malachi, Kuchenbauer, Florian, Delaney, Allen, Prabhu, Anna-Liisa, Zhao, Yongjun, McDonald, Helen, Zeng, Thomas, Hirst, Martin, Eaves, Connie J, Marra, Marco A

“…MicroRNAs (miRNAs) are emerging as important, albeit poorly characterized, regulators of biological processes. Key to further elucidation of their roles is the…”
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ARID1A Mutations in Endometriosis-Associated Ovarian Carcinomas by Wiegand, Kimberly C, Shah, Sohrab P, Al-Agha, Osama M, Zhao, Yongjun, Tse, Kane, Zeng, Thomas, Senz, Janine, McConechy, Melissa K, Anglesio, Michael S, Kalloger, Steve E, Yang, Winnie, Heravi-Moussavi, Alireza, Giuliany, Ryan, Chow, Christine, Fee, John, Zayed, Abdalnasser, Prentice, Leah, Melnyk, Nataliya, Turashvili, Gulisa, Delaney, Allen D, Madore, Jason, Yip, Stephen, McPherson, Andrew W, Ha, Gavin, Bell, Lynda, Fereday, Sian, Tam, Angela, Galletta, Laura, Tonin, Patricia N, Provencher, Diane, Miller, Dianne, Jones, Steven J.M, Moore, Richard A, Morin, Gregg B, Oloumi, Arusha, Boyd, Niki, Aparicio, Samuel A, Shih, Ie-Ming, Mes-Masson, Anne-Marie, Bowtell, David D, Hirst, Martin, Gilks, Blake, Marra, Marco A, Huntsman, David G

“…In this study of ovarian clear-cell or endometrioid tumors, nearly half the samples had mutations in the ARID1A gene, which encodes a component of the SWI–SNF…”
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Conserved role of intragenic DNA methylation in regulating alternative promoters by Maunakea, Alika K., Nagarajan, Raman P., Bilenky, Mikhail, Ballinger, Tracy J., D’Souza, Cletus, Fouse, Shaun D., Johnson, Brett E., Hong, Chibo, Nielsen, Cydney, Zhao, Yongjun, Turecki, Gustavo, Delaney, Allen, Varhol, Richard, Thiessen, Nina, Shchors, Ksenya, Heine, Vivi M., Rowitch, David H., Xing, Xiaoyun, Fiore, Chris, Schillebeeckx, Maximiliaan, Jones, Steven J. M., Haussler, David, Marra, Marco A., Hirst, Martin, Wang, Ting, Costello, Joseph F.

“…Methylation in the genes DNA methylation plays an important role in the maintenance of cell identity through its effect on gene expression. Methylation of 5′…”
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Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing by Jones, Steven, Robertson, Gordon, Hirst, Martin, Bainbridge, Matthew, Bilenky, Misha, Zhao, Yongjun, Zeng, Thomas, Euskirchen, Ghia, Bernier, Bridget, Varhol, Richard, Delaney, Allen, Thiessen, Nina, Griffith, Obi L, He, Ann, Marra, Marco, Snyder, Michael

“…We developed a method, ChIP-sequencing (ChIP-seq), combining chromatin immunoprecipitation (ChIP) and massively parallel sequencing to identify mammalian DNA…”
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Next-generation tag sequencing for cancer gene expression profiling by Morrissy, A Sorana, Morin, Ryan D, Delaney, Allen, Zeng, Thomas, McDonald, Helen, Jones, Steven, Zhao, Yongjun, Hirst, Martin, Marra, Marco A

“…We describe a new method, Tag-seq, which employs ultra high-throughput sequencing of 21 base pair cDNA tags for sensitive and cost-effective gene expression…”
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Tumor-Associated Macrophages and Survival in Classic Hodgkin's Lymphoma by Steidl, Christian, Lee, Tang, Shah, Sohrab P, Farinha, Pedro, Han, Guangming, Nayar, Tarun, Delaney, Allen, Jones, Steven J, Iqbal, Javeed, Weisenburger, Dennis D, Bast, Martin A, Rosenwald, Andreas, Muller-Hermelink, Hans-Konrad, Rimsza, Lisa M, Campo, Elias, Delabie, Jan, Braziel, Rita M, Cook, James R, Tubbs, Ray R, Jaffe, Elaine S, Lenz, Georg, Connors, Joseph M, Staudt, Louis M, Chan, Wing C, Gascoyne, Randy D

“…Clinically relevant biomarkers for predicting the outcome of treatment in patients with Hodgkin's disease have not been established. In this study, gene…”
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Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications by Costello, Joseph F, Harris, R Alan, Wang, Ting, Coarfa, Cristian, Nagarajan, Raman P, Hong, Chibo, Downey, Sara L, Johnson, Brett E, Fouse, Shaun D, Delaney, Allen, Zhao, Yongjun, Olshen, Adam, Ballinger, Tracy, Zhou, Xin, Forsberg, Kevin J, Gu, Junchen, Echipare, Lorigail, O'Geen, Henriette, Lister, Ryan, Pelizzola, Mattia, Xi, Yuanxin, Epstein, Charles B, Bernstein, Bradley E, Hawkins, R David, Ren, Bing, Chung, Wen-Yu, Gu, Hongcang, Bock, Christoph, Gnirke, Andreas, Zhang, Michael Q, Haussler, David, Ecker, Joseph R, Li, Wei, Farnham, Peggy J, Waterland, Robert A, Meissner, Alexander, Marra, Marco A, Hirst, Martin, Milosavljevic, Aleksandar

“…Methods for profiling DNA methylation differ in the physical principles used to detect modified cytosines. Harris et al . compare the performances of four…”
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Transcriptome analysis of the normal human mammary cell commitment and differentiation process by Raouf, Afshin, Zhao, Yun, To, Karen, Stingl, John, Delaney, Allen, Barbara, Mary, Iscove, Norman, Jones, Steven, McKinney, Steven, Emerman, Joanne, Aparicio, Samuel, Marra, Marco, Eaves, Connie

“…Mature mammary epithelial cells are generated from undifferentiated precursors through a hierarchical process, but the molecular mechanisms involved,…”
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Epigenetic and transcriptional determinants of the human breast by Gascard, Philippe, Bilenky, Misha, Sigaroudinia, Mahvash, Zhao, Jianxin, Li, Luolan, Carles, Annaick, Delaney, Allen, Tam, Angela, Kamoh, Baljit, Cho, Stephanie, Griffith, Malachi, Chu, Andy, Robertson, Gordon, Cheung, Dorothy, Li, Irene, Heravi-Moussavi, Alireza, Moksa, Michelle, Mingay, Matthew, Hussainkhel, Angela, Davis, Brad, Nagarajan, Raman P., Hong, Chibo, Echipare, Lorigail, O’Geen, Henriette, Hangauer, Matthew J., Cheng, Jeffrey B., Neel, Dana, Hu, Donglei, McManus, Michael T., Moore, Richard, Mungall, Andrew, Ma, Yussanne, Plettner, Patrick, Ziv, Elad, Wang, Ting, Farnham, Peggy J., Jones, Steven J.M., Marra, Marco A., Tlsty, Thea D., Costello, Joseph F., Hirst, Martin

“…While significant effort has been dedicated to the characterization of epigenetic changes associated with prenatal differentiation, relatively little is known…”
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In-depth characterization of the microRNA transcriptome in a leukemia progression model by Kuchenbauer, Florian, Morin, Ryan D, Argiropoulos, Bob, Petriv, Oleh I, Griffith, Malachi, Heuser, Michael, Yung, Eric, Piper, Jessica, Delaney, Allen, Prabhu, Anna-Liisa, Zhao, Yongjun, McDonald, Helen, Zeng, Thomas, Hirst, Martin, Hansen, Carl L, Marra, Marco A, Humphries, R Keith

“…MicroRNAs (miRNAs) have been shown to play important roles in physiological as well as multiple malignant processes, including acute myeloid leukemia (AML). In…”
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Global analysis of in vivo Foxa2-binding sites in mouse adult liver using massively parallel sequencing by Wederell, Elizabeth D, Bilenky, Mikhail, Cullum, Rebecca, Thiessen, Nina, Dagpinar, Melis, Delaney, Allen, Varhol, Richard, Zhao, YongJun, Zeng, Thomas, Bernier, Bridget, Ingham, Matthew, Hirst, Martin, Robertson, Gordon, Marra, Marco A, Jones, Steven, Hoodless, Pamela A

“…Foxa2 (HNF3β) is a one of three, closely related transcription factors that are critical to the development and function of the mouse liver. We have used…”
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LNCaP Atlas: gene expression associated with in vivo progression to castration-recurrent prostate cancer by Romanuik, Tammy L, Wang, Gang, Morozova, Olena, Delaney, Allen, Marra, Marco A, Sadar, Marianne D

“…There is no cure for castration-recurrent prostate cancer (CRPC) and the mechanisms underlying this stage of the disease are unknown. We analyzed the…”
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Oligonucleotide Microarray Analysis of Genomic Imbalance in Children with Mental Retardation by Friedman, J.M., Baross, Ágnes, Delaney, Allen D., Ally, Adrian, Arbour, Laura, Asano, Jennifer, Bailey, Dione K., Barber, Sarah, Birch, Patricia, Brown-John, Mabel, Cao, Manqiu, Chan, Susanna, Charest, David L., Farnoud, Noushin, Fernandes, Nicole, Flibotte, Stephane, Go, Anne, Gibson, William T., Holt, Robert A., Jones, Steven J.M., Kennedy, Giulia C., Krzywinski, Martin, Langlois, Sylvie, Li, Haiyan I., McGillivray, Barbara C., Nayar, Tarun, Pugh, Trevor J., Rajcan-Separovic, Evica, Schein, Jacqueline E., Schnerch, Angelique, Siddiqui, Asim, Van Allen, Margot I., Wilson, Gary, Yong, Siu-Li, Zahir, Farah, Eydoux, Patrice, Marra, Marco A.

“…The cause of mental retardation in one-third to one-half of all affected individuals is unknown. Microscopically detectable chromosomal abnormalities are the…”
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Single exon-resolution targeted chromosomal microarray analysis of known and candidate intellectual disability genes by Tucker, Tracy, Zahir, Farah R, Griffith, Malachi, Delaney, Allen, Chai, David, Tsang, Erica, Lemyre, Emmanuelle, Dobrzeniecka, Sylvia, Marra, Marco, Eydoux, Patrice, Langlois, Sylvie, Hamdan, Fadi F, Michaud, Jacques L, Friedman, Jan M

“…Intellectual disability affects about 3% of individuals globally, with∼50% idiopathic. We designed an exonic-resolution array targeting all known…”
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Assessment of algorithms for high throughput detection of genomic copy number variation in oligonucleotide microarray data by Baross, Agnes, Delaney, Allen D, Li, H Irene, Nayar, Tarun, Flibotte, Stephane, Qian, Hong, Chan, Susanna Y, Asano, Jennifer, Ally, Adrian, Cao, Manqiu, Birch, Patricia, Brown-John, Mabel, Fernandes, Nicole, Go, Anne, Kennedy, Giulia, Langlois, Sylvie, Eydoux, Patrice, Friedman, J M, Marra, Marco A

“…Genomic deletions and duplications are important in the pathogenesis of diseases, such as cancer and mental retardation, and have recently been shown to occur…”
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Analysis of the prostate cancer cell line LNCaP transcriptome using a sequencing-by-synthesis approach by Bainbridge, Matthew N, Warren, René L, Hirst, Martin, Romanuik, Tammy, Zeng, Thomas, Go, Anne, Delaney, Allen, Griffith, Malachi, Hickenbotham, Matthew, Magrini, Vincent, Mardis, Elaine R, Sadar, Marianne D, Siddiqui, Asim S, Marra, Marco A, Jones, Steven J M

“…High throughput sequencing-by-synthesis is an emerging technology that allows the rapid production of millions of bases of data. Although the sequence reads…”
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BMPER variants associated with a novel, attenuated subtype of diaphanospondylodysostosis by Zong, Zheyuan, Tees, Susan, Miyanji, Firoz, Fauth, Clarissa, Reilly, Christopher, Lopez, Elena, Tredwell, Stephen, Paul Goldberg, Yigal, Delaney, Allen, Eydoux, Patrice, Van Allen, Margot, Lehman, Anna

“…Diaphanospondylodysostosis (DSD), caused by loss of bone morphogenetic protein-binding endothelial regulator (BMPER), has been considered a lethal skeletal…”
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Detection of pathogenic copy number variants in children with idiopathic intellectual disability using 500 K SNP array genomic hybridization by Friedman, Jm, Adam, Shelin, Arbour, Laura, Armstrong, Linlea, Baross, Agnes, Birch, Patricia, Boerkoel, Cornelius, Chan, Susanna, Chai, David, Delaney, Allen D, Flibotte, Stephane, Gibson, William T, Langlois, Sylvie, Lemyre, Emmanuelle, Li, H Irene, MacLeod, Patrick, Mathers, Joan, Michaud, Jacques L, McGillivray, Barbara C, Patel, Millan S, Qian, Hong, Rouleau, Guy A, Van Allen, Margot I, Yong, Siu-Li, Zahir, Farah R, Eydoux, Patrice, Marra, Marco A

“…Array genomic hybridization is being used clinically to detect pathogenic copy number variants in children with intellectual disability and other birth…”
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