Microbial genes and pathways in inflammatory bowel disease
Schirmer, Melanie, Garner, Ashley, Vlamakis, Hera, Xavier, Ramnik J
Published in Nature reviews. Microbiology (01.08.2019)
Published in Nature reviews. Microbiology (01.08.2019)
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Journal Article
Inflammatory Bowel Disease as a Model for Translating the Microbiome
Huttenhower, Curtis, Kostic, Aleksandar D., Xavier, Ramnik J.
Published in Immunity (Cambridge, Mass.) (19.06.2014)
Published in Immunity (Cambridge, Mass.) (19.06.2014)
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Journal Article
Human genetic variation and the gut microbiome in disease
Hall, Andrew Brantley, Tolonen, Andrew C, Xavier, Ramnik J
Published in Nature reviews. Genetics (01.11.2017)
Published in Nature reviews. Genetics (01.11.2017)
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Journal Article
An Integrative View of Microbiome-Host Interactions in Inflammatory Bowel Diseases
Wlodarska, Marta, Kostic, Aleksandar D., Xavier, Ramnik J.
Published in Cell host & microbe (13.05.2015)
Published in Cell host & microbe (13.05.2015)
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Journal Article
The Microbiome in Inflammatory Bowel Disease: Current Status and the Future Ahead
Kostic, Aleksandar D, Xavier, Ramnik J, Gevers, Dirk
Published in Gastroenterology (New York, N.Y. 1943) (01.05.2014)
Published in Gastroenterology (New York, N.Y. 1943) (01.05.2014)
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Journal Article
CRISPR-Cas9 Knockin Mice for Genome Editing and Cancer Modeling
Platt, Randall J., Chen, Sidi, Zhou, Yang, Yim, Michael J., Swiech, Lukasz, Kempton, Hannah R., Dahlman, James E., Parnas, Oren, Eisenhaure, Thomas M., Jovanovic, Marko, Graham, Daniel B., Jhunjhunwala, Siddharth, Heidenreich, Matthias, Xavier, Ramnik J., Langer, Robert, Anderson, Daniel G., Hacohen, Nir, Regev, Aviv, Feng, Guoping, Sharp, Phillip A., Zhang, Feng
Published in Cell (09.10.2014)
Published in Cell (09.10.2014)
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Journal Article
Structure-based protein function prediction using graph convolutional networks
Gligorijević, Vladimir, Renfrew, P Douglas, Kosciolek, Tomasz, Leman, Julia Koehler, Berenberg, Daniel, Vatanen, Tommi, Chandler, Chris, Taylor, Bryn C, Fisk, Ian M, Vlamakis, Hera, Xavier, Ramnik J, Knight, Rob, Cho, Kyunghyun, Bonneau, Richard
Published in Nature communications (26.05.2021)
Published in Nature communications (26.05.2021)
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Journal Article
Rational design of highly active sgRNAs for CRISPR-Cas9-mediated gene inactivation
Doench, John G, Hartenian, Ella, Graham, Daniel B, Tothova, Zuzana, Hegde, Mudra, Smith, Ian, Sullender, Meagan, Ebert, Benjamin L, Xavier, Ramnik J, Root, David E
Published in Nature biotechnology (01.12.2014)
Published in Nature biotechnology (01.12.2014)
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Journal Article
Colon stroma mediates an inflammation-driven fibroblastic response controlling matrix remodeling and healing
Jasso, Guadalupe J, Jaiswal, Alok, Varma, Mukund, Laszewski, Tyler, Grauel, Angelo, Omar, Abdifatah, Silva, Nilsa, Dranoff, Glenn, Porter, Jeffrey A, Mansfield, Keith, Cremasco, Viviana, Regev, Aviv, Xavier, Ramnik J, Graham, Daniel B
Published in PLoS biology (27.01.2022)
Published in PLoS biology (27.01.2022)
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Journal Article
The Dynamics of the Human Infant Gut Microbiome in Development and in Progression toward Type 1 Diabetes
Kostic, Aleksandar D., Gevers, Dirk, Siljander, Heli, Vatanen, Tommi, Hyötyläinen, Tuulia, Hämäläinen, Anu-Maaria, Peet, Aleksandr, Tillmann, Vallo, Pöhö, Päivi, Mattila, Ismo, Lähdesmäki, Harri, Franzosa, Eric A., Vaarala, Outi, de Goffau, Marcus, Harmsen, Hermie, Ilonen, Jorma, Virtanen, Suvi M., Clish, Clary B., Orešič, Matej, Huttenhower, Curtis, Knip, Mikael, Xavier, Ramnik J.
Published in Cell host & microbe (11.02.2015)
Published in Cell host & microbe (11.02.2015)
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Journal Article
The Human and Mouse Enteric Nervous System at Single-Cell Resolution
Drokhlyansky, Eugene, Smillie, Christopher S., Van Wittenberghe, Nicholas, Ericsson, Maria, Griffin, Gabriel K., Eraslan, Gokcen, Dionne, Danielle, Cuoco, Michael S., Goder-Reiser, Max N., Sharova, Tatyana, Kuksenko, Olena, Aguirre, Andrew J., Boland, Genevieve M., Graham, Daniel, Rozenblatt-Rosen, Orit, Xavier, Ramnik J., Regev, Aviv
Published in Cell (17.09.2020)
Published in Cell (17.09.2020)
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Journal Article
Paneth cells secrete lysozyme via secretory autophagy during bacterial infection of the intestine
Bel, Shai, Pendse, Mihir, Wang, Yuhao, Li, Yun, Ruhn, Kelly A., Hassell, Brian, Leal, Tess, Winter, Sebastian E., Xavier, Ramnik J., Hooper, Lora V.
Published in Science (American Association for the Advancement of Science) (08.09.2017)
Published in Science (American Association for the Advancement of Science) (08.09.2017)
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Journal Article
Trained immunity: A program of innate immune memory in health and disease
Netea, Mihai G., Joosten, Leo A. B., Latz, Eicke, Mills, Kingston H. G., Natoli, Gioacchino, Stunnenberg, Hendrik G., O'Neill, Luke A. J., Xavier, Ramnik J.
Published in Science (American Association for the Advancement of Science) (22.04.2016)
Published in Science (American Association for the Advancement of Science) (22.04.2016)
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Journal Article
Akkermansia muciniphila phospholipid induces homeostatic immune responses
Bae, Munhyung, Cassilly, Chelsi D., Liu, Xiaoxi, Park, Sung-Moo, Tusi, Betsabeh Khoramian, Chen, Xiangjun, Kwon, Jaeyoung, Filipčík, Pavel, Bolze, Andrew S., Liu, Zehua, Vlamakis, Hera, Graham, Daniel B., Buhrlage, Sara J., Xavier, Ramnik J., Clardy, Jon
Published in Nature (London) (04.08.2022)
Published in Nature (London) (04.08.2022)
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Journal Article
Gut Microbiome Function Predicts Response to Anti-integrin Biologic Therapy in Inflammatory Bowel Diseases
Ananthakrishnan, Ashwin N., Luo, Chengwei, Yajnik, Vijay, Khalili, Hamed, Garber, John J., Stevens, Betsy W., Cleland, Thomas, Xavier, Ramnik J.
Published in Cell host & microbe (10.05.2017)
Published in Cell host & microbe (10.05.2017)
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Journal Article
Novel bile acid biosynthetic pathways are enriched in the microbiome of centenarians
Sato, Yuko, Atarashi, Koji, Plichta, Damian R, Arai, Yasumichi, Sasajima, Satoshi, Kearney, Sean M, Suda, Wataru, Takeshita, Kozue, Sasaki, Takahiro, Okamoto, Shoki, Skelly, Ashwin N, Okamura, Yuki, Vlamakis, Hera, Li, Youxian, Tanoue, Takeshi, Takei, Hajime, Nittono, Hiroshi, Narushima, Seiko, Irie, Junichiro, Itoh, Hiroshi, Moriya, Kyoji, Sugiura, Yuki, Suematsu, Makoto, Moritoki, Nobuko, Shibata, Shinsuke, Littman, Dan R, Fischbach, Michael A, Uwamino, Yoshifumi, Inoue, Takashi, Honda, Akira, Hattori, Masahira, Murai, Tsuyoshi, Xavier, Ramnik J, Hirose, Nobuyoshi, Honda, Kenya
Published in Nature (London) (18.11.2021)
Published in Nature (London) (18.11.2021)
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Journal Article
Pathogen Cell-to-Cell Variability Drives Heterogeneity in Host Immune Responses
Avraham, Roi, Haseley, Nathan, Brown, Douglas, Penaranda, Cristina, Jijon, Humberto B., Trombetta, John J., Satija, Rahul, Shalek, Alex K., Xavier, Ramnik J., Regev, Aviv, Hung, Deborah T.
Published in Cell (10.09.2015)
Published in Cell (10.09.2015)
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