Search Results - "Singer, Benjamin D."

Molecular and physiological manifestations and measurement of aging in humans by Khan, Sadiya S., Singer, Benjamin D., Vaughan, Douglas E.

“…Summary Biological aging is associated with a reduction in the reparative and regenerative potential in tissues and organs. This reduction manifests as a…”
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Differential roles of regulatory T cells in acute respiratory infections by Jovisic, Milica, Mambetsariev, Nurbek, Singer, Benjamin D, Morales-Nebreda, Luisa

“…Acute respiratory infections trigger an inflammatory immune response with the goal of pathogen clearance; however, overexuberant inflammation causes tissue…”
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Technology dictates algorithms: recent developments in read alignment by Alser, Mohammed, Rotman, Jeremy, Deshpande, Dhrithi, Taraszka, Kodi, Shi, Huwenbo, Baykal, Pelin Icer, Yang, Harry Taegyun, Xue, Victor, Knyazev, Sergey, Singer, Benjamin D, Balliu, Brunilda, Koslicki, David, Skums, Pavel, Zelikovsky, Alex, Alkan, Can, Mutlu, Onur, Mangul, Serghei

“…Aligning sequencing reads onto a reference is an essential step of the majority of genomic analysis pipelines. Computational algorithms for read alignment have…”
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Cancer-specific CTCF binding facilitates oncogenic transcriptional dysregulation by Fang, Celestia, Wang, Zhenjia, Han, Cuijuan, Safgren, Stephanie L, Helmin, Kathryn A, Adelman, Emmalee R, Serafin, Valentina, Basso, Giuseppe, Eagen, Kyle P, Gaspar-Maia, Alexandre, Figueroa, Maria E, Singer, Benjamin D, Ratan, Aakrosh, Ntziachristos, Panagiotis, Zang, Chongzhi

“…The three-dimensional genome organization is critical for gene regulation and can malfunction in diseases like cancer. As a key regulator of genome…”
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Uncoupling histone H3K4 trimethylation from developmental gene expression via an equilibrium of COMPASS, Polycomb and DNA methylation by Douillet, Delphine, Sze, Christie C., Ryan, Caila, Piunti, Andrea, Shah, Avani P., Ugarenko, Michal, Marshall, Stacy A., Rendleman, Emily J., Zha, Didi, Helmin, Kathryn A., Zhao, Zibo, Cao, Kaixiang, Morgan, Marc A., Singer, Benjamin D., Bartom, Elizabeth T., Smith, Edwin R., Shilatifard, Ali

“…The COMPASS protein family catalyzes histone H3 Lys 4 (H3K4) methylation and its members are essential for regulating gene expression. MLL2/COMPASS methylates…”
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Retinotopic Organization of Human Ventral Visual Cortex by Arcaro, Michael J, McMains, Stephanie A, Singer, Benjamin D, Kastner, Sabine

“…Functional magnetic resonance imaging studies have shown that human ventral visual cortex anterior to human visual area V4 contains two visual field maps, VO-1…”
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Epigenetic Control of Regulatory T Cell Stability and Function: Implications for Translation by Joudi, Anthony M, Reyes Flores, Carla P, Singer, Benjamin D

“…FoxP3 regulatory T (Treg) cells maintain immune homeostasis, promote self-tolerance, and have an emerging role in resolving acute inflammation, providing…”
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Machine learning links unresolving secondary pneumonia to mortality in patients with severe pneumonia, including COVID-19 by Gao, Catherine A, Markov, Nikolay S, Stoeger, Thomas, Pawlowski, Anna, Kang, Mengjia, Nannapaneni, Prasanth, Grant, Rogan A, Pickens, Chiagozie, Walter, James M, Kruser, Jacqueline M, Rasmussen, Luke, Schneider, Daniel, Starren, Justin, Donnelly, Helen K, Donayre, Alvaro, Luo, Yuan, Budinger, G R Scott, Wunderink, Richard G, Misharin, Alexander V, Singer, Benjamin D

“…BACKGROUNDDespite guidelines promoting the prevention and aggressive treatment of ventilator-associated pneumonia (VAP), the importance of VAP as a driver of…”
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Inter-subject alignment of human cortical anatomy using functional connectivity by Conroy, Bryan R., Singer, Benjamin D., Guntupalli, J. Swaroop, Ramadge, Peter J., Haxby, James V.

“…Inter-subject alignment of functional MRI (fMRI) data is necessary for group analyses. The standard approach to this problem matches anatomical features of the…”
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DNA methyltransferase inhibition induces dynamic gene expression changes in lung CD4+ T cells of neonatal mice with E. coli pneumonia by Michki, Nigel S., Ndeh, Roland, Helmin, Kathryn A., Singer, Benjamin D., McGrath-Morrow, Sharon A.

“…Bacterial pulmonary infections are a major cause of morbidity and mortality in neonates, with less severity in older children. Previous studies demonstrated…”
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Flow-cytometric method for simultaneous analysis of mouse lung epithelial, endothelial, and hematopoietic lineage cells by Singer, Benjamin D, Mock, Jason R, D'Alessio, Franco R, Aggarwal, Neil R, Mandke, Pooja, Johnston, Laura, Damarla, Mahendra

“…Flow cytometry is a powerful tool capable of simultaneously analyzing multiple parameters on a cell-by-cell basis. Lung tissue preparation for flow cytometry…”
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Function-based Intersubject Alignment of Human Cortical Anatomy by Sabuncu, Mert R., Singer, Benjamin D., Conroy, Bryan, Bryan, Ronald E., Ramadge, Peter J., Haxby, James V.

“…Making conclusions about the functional neuroanatomical organization of the human brain requires methods for relating the functional anatomy of an individual's…”
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A Practical Guide to the Measurement and Analysis of DNA Methylation by Singer, Benjamin D

“…DNA methylation represents a fundamental epigenetic mark that is associated with transcriptional repression during development, maintenance of homeostasis, and…”
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mTORC1 stimulates cell growth through SAM synthesis and m6A mRNA-dependent control of protein synthesis by Villa, Elodie, Sahu, Umakant, O’Hara, Brendan P., Ali, Eunus S., Helmin, Kathryn A., Asara, John M., Gao, Peng, Singer, Benjamin D., Ben-Sahra, Issam

“…The mechanistic target of rapamycin complex 1 (mTORC1) regulates metabolism and cell growth in response to nutrient, growth, and oncogenic signals. We found…”
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Reduced expression of mitochondrial complex I subunit Ndufs2 does not impact healthspan in mice by McElroy, Gregory S., Chakrabarty, Ram P., D’Alessandro, Karis B., Hu, Yuan-Shih, Vasan, Karthik, Tan, Jerica, Stoolman, Joshua S., Weinberg, Samuel E., Steinert, Elizabeth M., Reyfman, Paul A., Singer, Benjamin D., Ladiges, Warren C., Gao, Lin, Lopéz-Barneo, José, Ridge, Karen, Budinger, G. R. Scott, Chandel, Navdeep S.

“…Aging in mammals leads to reduction in genes encoding the 45-subunit mitochondrial electron transport chain complex I. It has been hypothesized that normal…”
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Inflammation and transcriptional responses of peripheral blood mononuclear cells in classic ataxia telangiectasia by McGrath-Morrow, Sharon A, Ndeh, Roland, Collaco, Joseph M, Rothblum-Oviatt, Cynthia, Wright, Jennifer, O'Reilly, Michael A, Singer, Benjamin D, Lederman, Howard M

“…Classic ataxia telangiectasia (A-T) is an autosomal recessive disease characterized by early onset ataxia, immune deficiency, sino-pulmonary disease,…”
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Transcriptional profiling of peripheral blood mononuclear cells identifies inflammatory phenotypes in Ataxia Telangiectasia by Michki, Nigel S, Singer, Benjamin D, Perez, Javier V, Thomas, Aaron J, Natale, Valerie, Helmin, Kathryn A, Wright, Jennifer, Cheng, Leon, Young, Lisa R, Lederman, Howard M, McGrath-Morrow, Sharon A

“…Ataxia telangiectasia (A-T) is an autosomal recessive neurodegenerative disease with widespread systemic manifestations and marked variability in clinical…”
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TET2 coactivates gene expression through demethylation of enhancers by Wang, Lu, Ozark, Patrick A, Smith, Edwin R, Zhao, Zibo, Marshall, Stacy A, Rendleman, Emily J, Piunti, Andrea, Ryan, Caila, Whelan, Anna L, Helmin, Kathryn A, Morgan, Marc Alard, Zou, Lihua, Singer, Benjamin D, Shilatifard, Ali

“…The tet methylcytosine dioxygenase 2 (TET2) enzyme catalyzes the conversion of the modified DNA base 5-methylcytosine to 5-hydroxymethylcytosine. TET2 is…”
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Author Correction: Reduced expression of mitochondrial complex I subunit Ndufs2 does not impact healthspan in mice by McElroy, Gregory S., Chakrabarty, Ram P., D’Alessandro, Karis B., Hu, Yuan-Shih, Vasan, Karthik, Tan, Jerica, Stoolman, Joshua S., Weinberg, Samuel E., Steinert, Elizabeth M., Reyfman, Paul A., Singer, Benjamin D., Ladiges, Warren C., Gao, Lin, Lopéz‑Barneo, José, Ridge, Karen, Budinger, G. R. Scott, Chandel, Navdeep S.

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Pathogenesis of COVID-19-induced ARDS: implications for an ageing population by Torres Acosta, Manuel A, Singer, Benjamin D

“…The coronavirus disease 2019 (COVID-19) pandemic has elicited a swift response by the scientific community to elucidate the pathogenesis of severe acute…”
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