Search Results - "Shoura, Massa J."

Recompleting the Caenorhabditis elegans genome by Yoshimura, Jun, Ichikawa, Kazuki, Shoura, Massa J, Artiles, Karen L, Gabdank, Idan, Wahba, Lamia, Smith, Cheryl L, Edgley, Mark L, Rougvie, Ann E, Fire, Andrew Z, Morishita, Shinichi, Schwarz, Erich M

“…was the first multicellular eukaryotic genome sequenced to apparent completion. Although this assembly employed a standard strain (N2), it used sequence data…”
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Intricate and Cell Type-Specific Populations of Endogenous Circular DNA (eccDNA) in Caenorhabditis elegans and Homo sapiens by Shoura, Massa J, Gabdank, Idan, Hansen, Loren, Merker, Jason, Gotlib, Jason, Levene, Stephen D, Fire, Andrew Z

“…Investigations aimed at defining the 3D configuration of eukaryotic chromosomes have consistently encountered an endogenous population of chromosome-derived…”
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An Extensive Meta-Metagenomic Search Identifies SARS-CoV-2-Homologous Sequences in Pangolin Lung Viromes by Wahba, Lamia, Jain, Nimit, Fire, Andrew Z, Shoura, Massa J, Artiles, Karen L, McCoy, Matthew J, Jeong, Dae-Eun

“…In numerous instances, tracking the biological significance of a nucleic acid sequence can be augmented through the identification of environmental niches in…”
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The thermodynamics of DNA loop formation, from J to Z by Levene, Stephen D, Giovan, Stefan M, Hanke, Andreas, Shoura, Massa J

“…The formation of DNA loops is a ubiquitous theme in biological processes, including DNA replication, recombination and repair, and gene regulation. These loops…”
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Contribution of Fluorophore Dynamics and Solvation to Resonant Energy Transfer in Protein-DNA Complexes: A Molecular-Dynamics Study by Shoura, Massa J., Ranatunga, R.J.K. Udayana, Harris, Sarah A., Nielsen, Steven O., Levene, Stephen D.

“…In Förster resonance energy transfer (FRET) experiments, extracting accurate structural information about macromolecules depends on knowing the positions and…”
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Immune imprinting, breadth of variant recognition, and germinal center response in human SARS-CoV-2 infection and vaccination by Röltgen, Katharina, Nielsen, Sandra C.A., Silva, Oscar, Younes, Sheren F., Zaslavsky, Maxim, Costales, Cristina, Yang, Fan, Wirz, Oliver F., Solis, Daniel, Hoh, Ramona A., Wang, Aihui, Arunachalam, Prabhu S., Colburg, Deana, Zhao, Shuchun, Haraguchi, Emily, Lee, Alexandra S., Shah, Mihir M., Manohar, Monali, Chang, Iris, Gao, Fei, Mallajosyula, Vamsee, Li, Chunfeng, Liu, James, Shoura, Massa J., Sindher, Sayantani B., Parsons, Ella, Dashdorj, Naranjargal J., Dashdorj, Naranbaatar D., Monroe, Robert, Serrano, Geidy E., Beach, Thomas G., Chinthrajah, R. Sharon, Charville, Gregory W., Wilbur, James L., Wohlstadter, Jacob N., Davis, Mark M., Pulendran, Bali, Troxell, Megan L., Sigal, George B., Natkunam, Yasodha, Pinsky, Benjamin A., Nadeau, Kari C., Boyd, Scott D.

“…During the SARS-CoV-2 pandemic, novel and traditional vaccine strategies have been deployed globally. We investigated whether antibodies stimulated by mRNA…”
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Deconvolution of nucleic-acid length distributions: a gel electrophoresis analysis tool and applications by Ziraldo, Riccardo, Shoura, Massa J, Fire, Andrew Z, Levene, Stephen D

“…Next-generation DNA-sequencing (NGS) technologies, which are designed to streamline the acquisition of massive amounts of sequencing data, are nonetheless…”
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Loop-closure kinetics reveal a stable, right-handed DNA intermediate in Cre recombination by Shoura, Massa J, Giovan, Stefan M, Vetcher, Alexandre A, Ziraldo, Riccardo, Hanke, Andreas, Levene, Stephen D

“…In Cre site-specific recombination, the synaptic intermediate is a recombinase homotetramer containing a pair of loxP DNA target sites. The enzyme system's…”
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Measurements of DNA-loop formation via Cre-mediated recombination by Shoura, Massa J, Vetcher, Alexandre A, Giovan, Stefan M, Bardai, Farah, Bharadwaj, Anusha, Kesinger, Matthew R, Levene, Stephen D

“…The Cre-recombination system has become an important tool for genetic manipulation of higher organisms and a model for site-specific DNA-recombination…”
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Quantitative Characterization of Gel Electrophoresis Images by Ziraldo, Riccardo, Shoura, Massa J., Levene, Stephen D.

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Circulomics: The Structural Genomics of Endogenous and Exogenous Extrachromosomal Circular DNAs by Levene, Stephen D., Shoura, Massa J., Fire, Andrew Z.

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Investigating Cre-Recombinase-Mediated DNA Looping using FRET by Shoura, Massa J., Levene, Stephen D.

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Deconvoluting complex correlates of COVID-19 severity with a multi-omic pandemic tracking strategy by Parikh, Victoria N., Ioannidis, Alexander G., Jimenez-Morales, David, Gorzynski, John E., De Jong, Hannah N., Liu, Xiran, Roque, Jonasel, Cepeda-Espinoza, Victoria P., Osoegawa, Kazutoyo, Hughes, Chris, Sutton, Shirley C., Youlton, Nathan, Joshi, Ruchi, Amar, David, Tanigawa, Yosuke, Russo, Douglas, Wong, Justin, Lauzon, Jessie T., Edelson, Jacob, Mas Montserrat, Daniel, Kwon, Yongchan, Rubinacci, Simone, Delaneau, Olivier, Cappello, Lorenzo, Kim, Jaehee, Shoura, Massa J., Raja, Archana N., Watson, Nathaniel, Hammond, Nathan, Spiteri, Elizabeth, Mallempati, Kalyan C., Montero-Martín, Gonzalo, Christle, Jeffrey, Kim, Jennifer, Kirillova, Anna, Seo, Kinya, Huang, Yong, Zhao, Chunli, Moreno-Grau, Sonia, Hershman, Steven G., Dalton, Karen P., Zhen, Jimmy, Kamm, Jack, Bhatt, Karan D., Isakova, Alina, Morri, Maurizio, Ranganath, Thanmayi, Blish, Catherine A., Rogers, Angela J., Nadeau, Kari, Yang, Samuel, Blomkalns, Andra, O’Hara, Ruth, Neff, Norma F., DeBoever, Christopher, Szalma, Sándor, Wheeler, Matthew T., Gates, Christian M., Farh, Kyle, Schroth, Gary P., Febbo, Phil, deSouza, Francis, Cornejo, Omar E., Fernandez-Vina, Marcelo, Kistler, Amy, Palacios, Julia A., Pinsky, Benjamin A., Bustamante, Carlos D., Rivas, Manuel A., Ashley, Euan A.

“…The SARS-CoV-2 pandemic has differentially impacted populations across race and ethnicity. A multi-omic approach represents a powerful tool to examine risk…”
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Structural probing of the longest-lived intermediate in the Cre-recombination pathway by Shoura, Massa J

“…Advances in our quantitative understanding of thermodynamically driven protein-mediated DNA-looping depend on a detailed consideration of the mechanics of loop…”
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Investigations of Cre-recombinase-mediated DNA-loop formation using Förster resonance energy transfer (FRET) by Shoura, Massa J

“…The interior of a cell is a crowded and fluctuating environment where DNA and other biomolecules are both highly constrained and subject to many mechanical…”
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Investigations of Cre-recombinase-mediated DNA-loop formation using Forster resonance energy transfer (FRET) by Shoura, Massa J

“…The interior of a cell is a crowded and fluctuating environment where DNA and other biomolecules are both highly constrained and subject to many mechanical…”
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