Total Lipopolysaccharide from the Human Gut Microbiome Silences Toll-Like Receptor Signaling von d'Hennezel, Eva, Abubucker, Sahar, Murphy, Leon O, Cullen, Thomas W

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A computational framework to explore large-scale biosynthetic diversity von Navarro-Muñoz, Jorge C., Selem-Mojica, Nelly, Mullowney, Michael W., Kautsar, Satria A., Tryon, James H., Parkinson, Elizabeth I., De Los Santos, Emmanuel L. C., Yeong, Marley, Cruz-Morales, Pablo, Abubucker, Sahar, Roeters, Arne, Lokhorst, Wouter, Fernandez-Guerra, Antonio, Cappelini, Luciana Teresa Dias, Goering, Anthony W., Thomson, Regan J., Metcalf, William W., Kelleher, Neil L., Barona-Gomez, Francisco, Medema, Marnix H.

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Indoleacrylic Acid Produced by Commensal Peptostreptococcus Species Suppresses Inflammation von Wlodarska, Marta, Luo, Chengwei, Kolde, Raivo, d’Hennezel, Eva, Annand, John W., Heim, Cortney E., Krastel, Philipp, Schmitt, Esther K., Omar, Abdifatah S., Creasey, Elizabeth A., Garner, Ashley L., Mohammadi, Sina, O’Connell, Daniel J., Abubucker, Sahar, Arthur, Timothy D., Franzosa, Eric A., Huttenhower, Curtis, Murphy, Leon O., Haiser, Henry J., Vlamakis, Hera, Porter, Jeffrey A., Xavier, Ramnik J.

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Metabolic reconstruction for metagenomic data and its application to the human microbiome von Abubucker, Sahar, Segata, Nicola, Goll, Johannes, Schubert, Alyxandria M, Izard, Jacques, Cantarel, Brandi L, Rodriguez-Mueller, Beltran, Zucker, Jeremy, Thiagarajan, Mathangi, Henrissat, Bernard, White, Owen, Kelley, Scott T, Methé, Barbara, Schloss, Patrick D, Gevers, Dirk, Mitreva, Makedonka, Huttenhower, Curtis

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Metabolic and metagenomic outcomes from early-life pulsed antibiotic treatment von Nobel, Yael R., Cox, Laura M., Kirigin, Francis F., Bokulich, Nicholas A., Yamanishi, Shingo, Teitler, Isabel, Chung, Jennifer, Sohn, Jiho, Barber, Cecily M., Goldfarb, David S., Raju, Kartik, Abubucker, Sahar, Zhou, Yanjiao, Ruiz, Victoria E., Li, Huilin, Mitreva, Makedonka, Alekseyenko, Alexander V., Weinstock, George M., Sodergren, Erica, Blaser, Martin J.

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The prevalence of species and strains in the human microbiome: a resource for experimental efforts von Kraal, Laurens, Abubucker, Sahar, Kota, Karthik, Fischbach, Michael A, Mitreva, Makedonka

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The draft genome of the parasitic nematode Trichinella spiralis von Mitreva, Makedonka, Wilson, Richard K, Jasmer, Douglas P, Zarlenga, Dante S, Wang, Zhengyuan, Abubucker, Sahar, Martin, John, Taylor, Christina M, Yin, Yong, Fulton, Lucinda, Minx, Pat, Yang, Shiaw-Pyng, Warren, Wesley C, Fulton, Robert S, Bhonagiri, Veena, Zhang, Xu, Hallsworth-Pepin, Kym, Clifton, Sandra W, McCarter, James P, Appleton, Judith, Mardis, Elaine R

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Genome of the human hookworm Necator americanus von Tang, Yat T, Gao, Xin, Rosa, Bruce A, Abubucker, Sahar, Hallsworth-Pepin, Kymberlie, Martin, John, Tyagi, Rahul, Heizer, Esley, Zhang, Xu, Bhonagiri-Palsikar, Veena, Minx, Patrick, Warren, Wesley C, Wang, Qi, Zhan, Bin, Hotez, Peter J, Sternberg, Paul W, Dougall, Annette, Gaze, Soraya Torres, Mulvenna, Jason, Sotillo, Javier, Ranganathan, Shoba, Rabelo, Elida M, Wilson, Richard K, Felgner, Philip L, Bethony, Jeffrey, Hawdon, John M, Gasser, Robin B, Loukas, Alex, Mitreva, Makedonka

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Discovery of anthelmintic drug targets and drugs using chokepoints in nematode metabolic pathways von Taylor, Christina M, Wang, Qi, Rosa, Bruce A, Huang, Stanley Ching-Cheng, Powell, Kerrie, Schedl, Tim, Pearce, Edward J, Abubucker, Sahar, Mitreva, Makedonka

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Mining novel effector proteins from the esophageal gland cells of Meloidogyne incognita von Rutter, William B, Hewezi, Tarek, Abubucker, Sahar, Maier, Tom R, Huang, Guozhong, Mitreva, Makedonka, Hussey, Richard S, Baum, Thomas J

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Precise Dissection of an Escherichia coli O157:H7 Outbreak by Single Nucleotide Polymorphism Analysis von Turabelidze, George, Lawrence, Steven J, Gao, Hongyu, Sodergren, Erica, Weinstock, George M, Abubucker, Sahar, Wylie, Todd, Mitreva, Makedonka, Shaikh, Nurmohammad, Gautom, Romesh, Tarr, Phillip I

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practical, bioinformatic workflow system for large data sets generated by next-generation sequencing von Cantacessi, Cinzia, Jex, Aaron R, Hall, Ross S, Young, Neil D, Campbell, Bronwyn E, Joachim, Anja, Nolan, Matthew J, Abubucker, Sahar, Sternberg, Paul W, Ranganathan, Shoba, Mitreva, Makedonka, Gasser, Robin B

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Using existing drugs as leads for broad spectrum anthelmintics targeting protein kinases von Taylor, Christina M, Martin, John, Rao, Ramakrishna U, Powell, Kerrie, Abubucker, Sahar, Mitreva, Makedonka

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Characterizing Ancylostoma caninum transcriptome and exploring nematode parasitic adaptation von Wang, Zhengyuan, Abubucker, Sahar, Martin, John, Wilson, Richard K, Hawdon, John, Mitreva, Makedonka

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HelmCoP: an online resource for helminth functional genomics and drug and vaccine targets prioritization von Abubucker, Sahar, Martin, John, Taylor, Christina M, Mitreva, Makedonka

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Exploring metazoan evolution through dynamic and holistic changes in protein families and domains von Wang, Zhengyuan, Zarlenga, Dante, Martin, John, Abubucker, Sahar, Mitreva, Makedonka

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A case study for large-scale human microbiome analysis using JCVI's metagenomics reports (METAREP) von Goll, Johannes, Thiagarajan, Mathangi, Abubucker, Sahar, Huttenhower, Curtis, Yooseph, Shibu, Methé, Barbara A

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Transcriptomic and proteomic analyses of a Wolbachia-free filarial parasite provide evidence of trans-kingdom horizontal gene transfer von McNulty, Samantha N, Abubucker, Sahar, Simon, Gabriel M, Mitreva, Makedonka, McNulty, Nathan P, Fischer, Kerstin, Curtis, Kurt C, Brattig, Norbert W, Weil, Gary J, Fischer, Peter U

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Identification and characterization of alternative splicing in parasitic nematode transcriptomes von Abubucker, Sahar, McNulty, Samantha N, Rosa, Bruce A, Mitreva, Makedonka

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Identification of hookworm DAF-16/FOXO response elements and direct gene targets von Gao, Xin, Wang, Zhengyuan, Martin, John, Abubucker, Sahar, Zhang, Xu, Mitreva, Makedonka, Hawdon, John M

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