Search Results - "Gosai, Sager J."

Global analysis of ribosome-associated noncoding RNAs unveils new modes of translational regulation by Bazin, Jérémie, Baerenfaller, Katja, Gosai, Sager J., Gregory, Brian D., Crespi, Martin, Bailey-Serres, Julia

“…Eukaryotic transcriptomes contain a major non–protein-coding component that includes precursors of small RNAs as well as long noncoding RNA (lncRNAs). Here, we…”
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Loss of NAD Homeostasis Leads to Progressive and Reversible Degeneration of Skeletal Muscle by Frederick, David W., Loro, Emanuele, Liu, Ling, Davila, Antonio, Chellappa, Karthikeyani, Silverman, Ian M., Quinn, William J., Gosai, Sager J., Tichy, Elisia D., Davis, James G., Mourkioti, Foteini, Gregory, Brian D., Dellinger, Ryan W., Redpath, Philip, Migaud, Marie E., Nakamaru-Ogiso, Eiko, Rabinowitz, Joshua D., Khurana, Tejvir S., Baur, Joseph A.

“…NAD is an obligate co-factor for the catabolism of metabolic fuels in all cell types. However, the availability of NAD in several tissues can become limited…”
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Dysregulation of the epigenetic landscape of normal aging in Alzheimer’s disease by Nativio, Raffaella, Donahue, Greg, Berson, Amit, Lan, Yemin, Amlie-Wolf, Alexandre, Tuzer, Ferit, Toledo, Jon B., Gosai, Sager J., Gregory, Brian D., Torres, Claudio, Trojanowski, John Q., Wang, Li-San, Johnson, F. Brad, Bonini, Nancy M., Berger, Shelley L.

“…Aging is the strongest risk factor for Alzheimer’s disease (AD), although the underlying mechanisms remain unclear. The chromatin state, in particular through…”
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Global Analysis of the RNA-Protein Interaction and RNA Secondary Structure Landscapes of the Arabidopsis Nucleus by Gosai, Sager J., Foley, Shawn W., Wang, Dongxue, Silverman, Ian M., Selamoglu, Nur, Nelson, Andrew D.L., Beilstein, Mark A., Daldal, Fevzi, Deal, Roger B., Gregory, Brian D.

“…Posttranscriptional regulation in eukaryotes requires cis- and trans-acting features and factors including RNA secondary structure and RNA-binding proteins…”
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Automated high-content live animal drug screening using C. elegans expressing the aggregation prone serpin α1-antitrypsin Z by Gosai, Sager J, Kwak, Joon Hyeok, Luke, Cliff J, Long, Olivia S, King, Dale E, Kovatch, Kevin J, Johnston, Paul A, Shun, Tong Ying, Lazo, John S, Perlmutter, David H, Silverman, Gary A, Pak, Stephen C

“…The development of preclinical models amenable to live animal bioactive compound screening is an attractive approach to discovering effective pharmacological…”
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The long noncoding RNA landscape in hypoxic and inflammatory renal epithelial injury by Lin, Jennie, Zhang, Xuan, Xue, Chenyi, Zhang, Hanrui, Shashaty, Michael G S, Gosai, Sager J, Meyer, Nuala, Grazioli, Alison, Hinkle, Christine, Caughey, Jennifer, Li, Wenjun, Susztak, Katalin, Gregory, Brian D, Li, Mingyao, Reilly, Muredach P

“…Long noncoding RNAs (lncRNAs) are emerging as key species-specific regulators of cellular and disease processes. To identify potential lncRNAs relevant to…”
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Genome-wide TOP2A DNA cleavage is biased toward translocated and highly transcribed loci by Yu, Xiang, Davenport, James W, Urtishak, Karen A, Carillo, Marie L, Gosai, Sager J, Kolaris, Christos P, Byl, Jo Ann W, Rappaport, Eric F, Osheroff, Neil, Gregory, Brian D, Felix, Carolyn A

“…Type II topoisomerases orchestrate proper DNA topology, and they are the targets of anti-cancer drugs that cause treatment-related leukemias with balanced…”
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A Global View of RNA-Protein Interactions Identifies Post-transcriptional Regulators of Root Hair Cell Fate by Foley, Shawn W., Gosai, Sager J., Wang, Dongxue, Selamoglu, Nur, Sollitti, Amelia C., Köster, Tino, Steffen, Alexander, Lyons, Eric, Daldal, Fevzi, Garcia, Benjamin A., Staiger, Dorothee, Deal, Roger B., Gregory, Brian D.

“…The Arabidopsis thaliana root epidermis is comprised of two cell types, hair and nonhair cells, which differentiate from the same precursor. Although the…”
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Tissue-Specific RNA-Seq in Human Evoked Inflammation Identifies Blood and Adipose LincRNA Signatures of Cardiometabolic Diseases by Liu, Yichuan, Ferguson, Jane F, Xue, Chenyi, Ballantyne, Rachel L, Silverman, Ian M, Gosai, Sager J, Serfecz, Jacquelyn, Morley, Michael P, Gregory, Brian D, Li, Mingyao, Reilly, Muredach P

“…OBJECTIVE—Inappropriate transcriptional activation of innate immunity is a pathological feature of several cardiometabolic disorders, but little is known about…”
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Changes in the Transcriptome of Human Astrocytes Accompanying Oxidative Stress-Induced Senescence by Crowe, Elizabeth P, Tuzer, Ferit, Gregory, Brian D, Donahue, Greg, Gosai, Sager J, Cohen, Justin, Leung, Yuk Y, Yetkin, Emre, Nativio, Raffaella, Wang, Li-San, Sell, Christian, Bonini, Nancy M, Berger, Shelley L, Johnson, F Brad, Torres, Claudio

“…Aging is a major risk factor for many neurodegenerative disorders. A key feature of aging biology that may underlie these diseases is cellular senescence…”
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N6-Methyladenosine Inhibits Local Ribonucleolytic Cleavage to Stabilize mRNAs in Arabidopsis by Anderson, Stephen J., Kramer, Marianne C., Gosai, Sager J., Yu, Xiang, Vandivier, Lee E., Nelson, Andrew D.L., Anderson, Zachary D., Beilstein, Mark A., Fray, Rupert G., Lyons, Eric, Gregory, Brian D.

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N 6 -Methyladenosine Inhibits Local Ribonucleolytic Cleavage to Stabilize mRNAs in Arabidopsis by Anderson, Stephen J, Kramer, Marianne C, Gosai, Sager J, Yu, Xiang, Vandivier, Lee E, Nelson, Andrew D L, Anderson, Zachary D, Beilstein, Mark A, Fray, Rupert G, Lyons, Eric, Gregory, Brian D

“…N -methyladenosine (m A) is a dynamic, reversible, covalently modified ribonucleotide that occurs predominantly toward 3' ends of eukaryotic mRNAs and is…”
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Direct characterization of cis-regulatory elements and functional dissection of complex genetic associations using HCR–FlowFISH by Reilly, Steven K., Gosai, Sager J., Gutierrez, Alan, Mackay-Smith, Ava, Ulirsch, Jacob C., Kanai, Masahiro, Mouri, Kousuke, Berenzy, Daniel, Kales, Susan, Butler, Gina M., Gladden-Young, Adrianne, Bhuiyan, Redwan M., Stitzel, Michael L., Finucane, Hilary K., Sabeti, Pardis C., Tewhey, Ryan

“…Effective interpretation of genome function and genetic variation requires a shift from epigenetic mapping of cis -regulatory elements (CREs) to…”
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Machine-guided design of cell-type-targeting cis-regulatory elements by Gosai, Sager J., Castro, Rodrigo I., Fuentes, Natalia, Butts, John C., Mouri, Kousuke, Alasoadura, Michael, Kales, Susan, Nguyen, Thanh Thanh L., Noche, Ramil R., Rao, Arya S., Joy, Mary T., Sabeti, Pardis C., Reilly, Steven K., Tewhey, Ryan

“…Cis -regulatory elements (CREs) control gene expression, orchestrating tissue identity, developmental timing and stimulus responses, which collectively define…”
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Functional Analysis and Transcriptomic Profiling of iPSC-Derived Macrophages and Their Application in Modeling Mendelian Disease by Zhang, Hanrui, Xue, Chenyi, Shah, Rhia, Bermingham, Kate, Hinkle, Christine C, Li, Wenjun, Rodrigues, Amrith, Tabita-Martinez, Jennifer, Millar, John S, Cuchel, Marina, Pashos, Evanthia E, Liu, Ying, Yan, Ruilan, Yang, Wenli, Gosai, Sager J, VanDorn, Daniel, Chou, Stella T, Gregory, Brian D, Morrisey, Edward E, Li, Mingyao, Rader, Daniel J, Reilly, Muredach P

“…RATIONALE:An efficient and reproducible source of genotype-specific human macrophages is essential for study of human macrophage biology and related diseases…”
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Multicenter integrated analysis of noncoding CRISPRi screens by Yao, David, Tycko, Josh, Oh, Jin Woo, Bounds, Lexi R., Gosai, Sager J., Lataniotis, Lazaros, Mackay-Smith, Ava, Doughty, Benjamin R., Gabdank, Idan, Schmidt, Henri, Guerrero-Altamirano, Tania, Siklenka, Keith, Guo, Katherine, White, Alexander D., Youngworth, Ingrid, Andreeva, Kalina, Ren, Xingjie, Barrera, Alejandro, Luo, Yunhai, Yardımcı, Galip Gürkan, Tewhey, Ryan, Kundaje, Anshul, Greenleaf, William J., Sabeti, Pardis C., Leslie, Christina, Pritykin, Yuri, Moore, Jill E., Beer, Michael A., Gersbach, Charles A., Reddy, Timothy E., Shen, Yin, Engreitz, Jesse M., Bassik, Michael C., Reilly, Steven K.

“…The ENCODE Consortium’s efforts to annotate noncoding cis -regulatory elements (CREs) have advanced our understanding of gene regulatory landscapes. Pooled,…”
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Author Correction: Direct characterization of cis-regulatory elements and functional dissection of complex genetic associations using HCR–FlowFISH by Reilly, Steven K., Gosai, Sager J., Gutierrez, Alan, Mackay-Smith, Ava, Ulirsch, Jacob C., Kanai, Masahiro, Mouri, Kousuke, Berenzy, Daniel, Kales, Susan, Butler, Gina M., Gladden-Young, Adrianne, Bhuiyan, Redwan M., Stitzel, Michael L., Finucane, Hilary K., Sabeti, Pardis C., Tewhey, Ryan

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Terpene metabolic engineering via nuclear or chloroplast genomes profoundly and globally impacts off‐target pathways through metabolite signalling by Pasoreck, Elise K., Su, Jin, Silverman, Ian M., Gosai, Sager J., Gregory, Brian D., Yuan, Joshua S., Daniell, Henry

“…Summary The impact of metabolic engineering on nontarget pathways and outcomes of metabolic engineering from different genomes are poorly understood questions…”
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Genome-Wide Approaches for RNA Structure Probing by Silverman, Ian M, Berkowitz, Nathan D, Gosai, Sager J, Gregory, Brian D

“…RNA molecules of all types fold into complex secondary and tertiary structures that are important for their function and regulation. Structural and catalytic…”
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Publisher Correction: Dysregulation of the epigenetic landscape of normal aging in Alzheimer’s disease by Nativio, Raffaella, Donahue, Greg, Berson, Amit, Lan, Yemin, Amlie-Wolf, Alexandre, Tuzer, Ferit, Toledo, Jon B., Gosai, Sager J., Gregory, Brian D., Torres, Claudio, Trojanowski, John Q., Wang, Li-San, Johnson, F. Brad, Bonini, Nancy M., Berger, Shelley L.

“…In the version of this article initially published online, the fifth author’s name was given as Alexander Amlie-Wolf. The correct name is Alexandre Amlie-Wolf…”
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