Search Results - "Minot, S."

Effect of the intratumoral microbiota on spatial and cellular heterogeneity in cancer by Galeano Niño, Jorge Luis, Wu, Hanrui, LaCourse, Kaitlyn D., Kempchinsky, Andrew G., Baryiames, Alexander, Barber, Brittany, Futran, Neal, Houlton, Jeffrey, Sather, Cassie, Sicinska, Ewa, Taylor, Alison, Minot, Samuel S., Johnston, Christopher D., Bullman, Susan

“…The tumour-associated microbiota is an intrinsic component of the tumour microenvironment across human cancer types 1 , 2 . Intratumoral host–microbiota…”
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Comprehensive benchmarking and ensemble approaches for metagenomic classifiers by McIntyre, Alexa B R, Ounit, Rachid, Afshinnekoo, Ebrahim, Prill, Robert J, Hénaff, Elizabeth, Alexander, Noah, Minot, Samuel S, Danko, David, Foox, Jonathan, Ahsanuddin, Sofia, Tighe, Scott, Hasan, Nur A, Subramanian, Poorani, Moffat, Kelly, Levy, Shawn, Lonardi, Stefano, Greenfield, Nick, Colwell, Rita R, Rosen, Gail L, Mason, Christopher E

“…One of the main challenges in metagenomics is the identification of microorganisms in clinical and environmental samples. While an extensive and heterogeneous…”
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Colonization of the live biotherapeutic product VE303 and modulation of the microbiota and metabolites in healthy volunteers by Dsouza, Melissa, Menon, Rajita, Crossette, Emily, Bhattarai, Shakti K, Schneider, Jessica, Kim, Yun-Gi, Reddy, Shilpa, Caballero, Silvia, Felix, Cintia, Cornacchione, Louis, Hendrickson, Jared, Watson, Andrea R, Minot, Samuel S, Greenfield, Nick, Schopf, Lisa, Szabady, Rose, Patarroyo, Juan, Smith, William, Harrison, Pratibha, Kuijper, Ed J, Kelly, Ciaran P, Olle, Bernat, Bobilev, Dmitri, Silber, Jeffrey L, Bucci, Vanni, Roberts, Bruce, Faith, Jeremiah, Norman, Jason M

“…Manipulation of the gut microbiota via fecal microbiota transplantation (FMT) has shown clinical promise in diseases such as recurrent Clostridioides difficile…”
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geneshot: gene-level metagenomics identifies genome islands associated with immunotherapy response by Minot, Samuel S, Barry, Kevin C, Kasman, Caroline, Golob, Jonathan L, Willis, Amy D

“…Researchers must be able to generate experimentally testable hypotheses from sequencing-based observational microbiome experiments to discover the mechanisms…”
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MinION™ nanopore sequencing of environmental metagenomes: a synthetic approach by Brown, Bonnie L., Watson, Mick, Minot, Samuel S., Rivera, Maria C., Franklin, Rima B.

“…Abstract Background: Environmental metagenomic analysis is typically accomplished by assigning taxonomy and/or function from whole genome sequencing or 16S…”
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Clustering co-abundant genes identifies components of the gut microbiome that are reproducibly associated with colorectal cancer and inflammatory bowel disease by Minot, Samuel S, Willis, Amy D

“…Whole-genome "shotgun" (WGS) metagenomic sequencing is an increasingly widely used tool for analyzing the metagenomic content of microbiome samples. While WGS…”
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Colorectal cancer-associated bacteria are broadly distributed in global microbiomes and drivers of precancerous change by Minot, Samuel S., Li, Naisi, Srinivasan, Harini, Ayers, Jessica L., Yu, Ming, Koester, Sean T., Stangis, Mary M., Dominitz, Jason A., Halberg, Richard B., Grady, William M., Dey, Neelendu

“…The gut microbiome is implicated in the pathogenesis of colorectal cancer (CRC), but the full scope of this dialogue is unknown. Here we aimed to define the…”
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Scalable single-cell profiling of chromatin modifications with sciCUT&Tag by Janssens, Derek H., Greene, Jacob E., Wu, Steven J., Codomo, Christine A., Minot, Samuel S., Furlan, Scott N., Ahmad, Kami, Henikoff, Steven

“…Cleavage under targets and tagmentation (CUT&Tag) is an antibody-directed in situ chromatin profiling strategy that is rapidly replacing immune…”
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Confined Tamm plasmon light-emitting diodes by Symonds, C., Toanen, V., Gassenq, A., Benoit, J.-M., Pereira, A., Cleyet-Merle, E., Fulcrand, R., Bessueille, F., Minot, S., Morassi, M., Lemaitre, A., Bellessa, J.

“…In this Letter, we describe a fabrication process for current injection into micrometer-size Ag/GaAs Tamm emitting diodes. It requires a special care to…”
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Species- and subspecies-level characterization of health-associated bacterial consortia that colonize the human gut during infancy by Minot, Samuel S, Mayer-Blackwell, Koshlan, Fiore-Gartland, Andrew, Johnson, Andrew, Self, Steven, Bhatti, Parveen, Yao, Lena, Liu, Lili, Sun, Xin, Jinfa, Yi, Kublin, James

“…The human gut microbiome develops rapidly during infancy, a key window of development coinciding with the maturation of the adaptive immune system. However,…”
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Suicidal ideation, self-harm and attempted suicide: Results from the British psychiatric morbidity survey 2000 by Bebbington, P.E, Minot, S, Cooper, C, Dennis, M, Meltzer, H, Jenkins, R, Brugha, T

“…Abstract Purpose To examine relationships between suicidal ideation, self-harm, and suicide attempts, including the timing of the phenomena. Subjects and…”
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Bacterial and viral identification and differentiation by amplicon sequencing on the MinION nanopore sequencer by Kilianski, Andy, Haas, Jamie L, Corriveau, Elizabeth J, Liem, Alvin T, Willis, Kristen L, Kadavy, Dana R, Rosenzweig, C Nicole, Minot, Samuel S

“…The MinION™ nanopore sequencer was recently released to a community of alpha-testers for evaluation using a variety of sequencing applications. Recent reports…”
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Multi-trial analysis of HIV-1 envelope gp41-reactive antibodies among global recipients of candidate HIV-1 vaccines by Mayer-Blackwell, Koshlan, Johnson, Andrew M, Potchen, Nicole, Minot, Simon S, Heptinstall, Jack, Seaton, Kelly, Sawant, Sheetal, Shen, Xiaoying, Tomaras, Georgia D, Fiore-Gartland, Andrew, Kublin, James G

“…Many participants in HIV-1 vaccine trials, who have not previously been exposed to or vaccinated against HIV-1, display serum immunoglobulin antibodies that…”
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MaLiAmPi enables generalizable and taxonomy-independent microbiome features from technically diverse 16S-based microbiome studies by Minot, Samuel S, Garb, Bailey, Roldan, Alennie, Tang, Alice S, Oskotsky, Tomiko T, Rosenthal, Christopher, Hoffman, Noah G, Sirota, Marina, Golob, Jonathan L

“…For studies using microbiome data, the ability to robustly combine data from technically and biologically distinct microbiome studies is a crucial means of…”
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Human Tumor-Infiltrating MAIT Cells Display Hallmarks of Bacterial Antigen Recognition in Colorectal Cancer by Li, Shamin, Simoni, Yannick, Becht, Etienne, Loh, Chiew Yee, Li, Naisi, Lachance, Daniel, Koo, Si-Lin, Lim, Teck Por, Tan, Emile Kwong Wei, Mathew, Ronnie, Nguyen, Andrew, Golovato, Justin, Berkson, Julia D., Prlic, Martin, Lee, Bernett, Minot, Samuel S., Nagarajan, Niranjan, Dey, Neelendu, Tan, Daniel S.W., Tan, Iain B., Newell, Evan W.

“…Growing evidence indicates a role for the gut microbiota in modulating anti-tumor treatment efficacy in human cancer. Here we study mucosa-associated invariant…”
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Correction to: Comprehensive benchmarking and ensemble approaches for metagenomic classifiers by McIntyre, Alexa B R, Ounit, Rachid, Afshinnekoo, Ebrahim, Prill, Robert J, Hénaff, Elizabeth, Alexander, Noah, Minot, Samuel S, Danko, David, Foox, Jonathan, Ahsanuddin, Sofia, Tighe, Scott, Hasan, Nur A, Subramanian, Poorani, Moffat, Kelly, Levy, Shawn, Lonardi, Stefano, Greenfield, Nick, Colwell, Rita R, Rosen, Gail L, Mason, Christopher E

“…Following publication of the original article [1], the authors would like to highlight the following two corrections…”
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Evolutionary and functional implications of hypervariable loci within the skin virome by Hannigan, Geoffrey D, Zheng, Qi, Meisel, Jacquelyn S, Minot, Samuel S, Bushman, Frederick D, Grice, Elizabeth A

“…Localized genomic variability is crucial for the ongoing conflicts between infectious microbes and their hosts. An understanding of evolutionary and adaptive…”
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Optimizing metaproteomics database construction: lessons from a study of the vaginal microbiome by Lee, Elliot M, Srinivasan, Sujatha, Purvine, Samuel O, Fiedler, Tina L, Leiser, Owen P, Proll, Sean C, Minot, Samuel S, Deatherage Kaiser, Brooke L, Fredricks, David N

“…Metaproteomics, a method for untargeted, high-throughput identification of proteins in complex samples, provides functional information about microbial…”
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De novo Assembly Vastly Expands the Known Microbial Universe by Minot, Samuel S.

“…The study of the human microbiome relies heavily on the genomes of bacterial isolates that can be grown in culture. A recent study (Pasolli et al. Cell…”
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The cancer chemotherapeutic 5-fluorouracil is a potent Fusobacterium nucleatum inhibitor and its activity is modified by intratumoral microbiota by LaCourse, Kaitlyn D., Zepeda-Rivera, Martha, Kempchinsky, Andrew G., Baryiames, Alexander, Minot, Samuel S., Johnston, Christopher D., Bullman, Susan

“…Fusobacterium nucleatum (Fn) is a dominant bacterial species in colorectal cancer (CRC) tissue that is associated with cancer progression and poorer patient…”
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