MIntO: A Modular and Scalable Pipeline For Microbiome Metagenomic and Metatranscriptomic Data Integration

por Saenz, Carmen, Nigro, Eleonora, Gunalan, Vithiagaran, Arumugam, Manimozhiyan
Publicado 2022

Pairagon+N-SCAN_EST: a model-based gene annotation pipeline

por Arumugam, Manimozhiyan, Wei, Chaochun, Brown, Randall H, Brent, Michael R
Publicado 2006

SmashCell: a software framework for the analysis of single-cell amplified genome sequences

por Harrington, Eoghan D., Arumugam, Manimozhiyan, Raes, Jeroen, Bork, Peer, Relman, David A.
Publicado 2010

Perturbation of gut microbiota decreases susceptibility but does not modulate ongoing autoimmune neurological disease

por Gödel, Clemens, Kunkel, Birgit, Kashani, Alireza, Lassmann, Hans, Arumugam, Manimozhiyan, Krishnamoorthy, Gurumoorthy
Publicado 2020

Trust is good, control is better: technical considerations in blood microbiome analysis

por Schierwagen, Robert, Alvarez-Silva, Camila, Servant, Florence, Trebicka, Jonel, Lelouvier, Benjamin, Arumugam, Manimozhiyan
Publicado 2020

Quantitative differences in synthetic gut microbial inoculums do not affect the final stabilized in vitro community compositions

por Gnanasekaran, Thiyagarajan, Sarathi, Arjun, Fang, Qing, Azarm, Asieh, Assis Geraldo, Juliana, Nigro, Eleonora, Arumugam, Manimozhiyan
Publicado 2023

Country-specific antibiotic use practices impact the human gut resistome

por Forslund, Kristoffer, Sunagawa, Shinichi, Kultima, Jens Roat, Mende, Daniel R., Arumugam, Manimozhiyan, Typas, Athanasios, Bork, Peer
Publicado 2013

Assessment of Metagenomic Assembly Using Simulated Next Generation Sequencing Data

por Mende, Daniel R., Waller, Alison S., Sunagawa, Shinichi, Järvelin, Aino I., Chan, Michelle M., Arumugam, Manimozhiyan, Raes, Jeroen, Bork, Peer
Publicado 2012

Complete Genome Sequences of emm111 Type Streptococcus pyogenes Strain GUR, with Antitumor Activity, and Its Derivative Strain GURSA1 with an Inactivated emm Gene

por Suvorova, Maria A., Tsapieva, Anna N., Bak, Emilie Glad, Chereshnev, Valery A., Kiseleva, Ekaterina P., Suvorov, Alexander N., Arumugam, Manimozhiyan
Publicado 2017

Genes controlling the activation of natural killer lymphocytes are epigenetically remodeled in intestinal cells from germ-free mice

por Poupeau, Audrey, Garde, Christian, Sulek, Karolina, Citirikkaya, Kiymet, Treebak, Jonas T., Arumugam, Manimozhiyan, Simar, David, Olofsson, Louise E., Bäckhed, Fredrik, Barrès, Romain
Publicado 2019

The effect of gluten in adolescents and young adults with gastrointestinal symptoms: a blinded randomised cross‐over trial

por Crawley, Caecilie, Savino, Nadia, Halby, Cecilie, Sander, Stine Dydensborg, Andersen, Anne‐Marie Nybo, Arumugam, Manimozhiyan, Murray, Joseph, Christensen, Robin, Husby, Steffen
Publicado 2022

Consistent mutational paths predict eukaryotic thermostability

por van Noort, Vera, Bradatsch, Bettina, Arumugam, Manimozhiyan, Amlacher, Stefan, Bange, Gert, Creevey, Chris, Falk, Sebastian, Mende, Daniel R, Sinning, Irmgard, Hurt, Ed, Bork, Peer
Publicado 2013

Clostridium scindens secretome suppresses virulence gene expression of Clostridioides difficile in a bile acid-independent manner

por Saenz, Carmen, Fang, Qing, Gnanasekaran, Thiyagarajan, Trammell, Samuel Addison Jack, Buijink, Jesse Arnold, Pisano, Paola, Wierer, Michael, Moens, Frédéric, Lengger, Bettina, Brejnrod, Asker, Arumugam, Manimozhiyan
Publicado 2023

Ecological Adaptation and Succession of Human Fecal Microbial Communities in an Automated In Vitro Fermentation System

por Gnanasekaran, Thiyagarajan, Assis Geraldo, Juliana, Ahrenkiel, David Wilczek, Alvarez-Silva, Camila, Saenz, Carmen, Khan, Adnan, Hanteer, Obaida, Gunalan, Vithiagaran, Trost, Kajetan, Moritz, Thomas, Arumugam, Manimozhiyan
Publicado 2021

MOCAT: A Metagenomics Assembly and Gene Prediction Toolkit

por Kultima, Jens Roat, Sunagawa, Shinichi, Li, Junhua, Chen, Weineng, Chen, Hua, Mende, Daniel R., Arumugam, Manimozhiyan, Pan, Qi, Liu, Binghang, Qin, Junjie, Wang, Jun, Bork, Peer
Publicado 2012

Impaired glucose metabolism and altered gut microbiome despite calorie restriction of ob/ob mice

por Kashani, Alireza, Brejnrod, Asker Daniel, Jin, Chunyu, Kern, Timo, Madsen, Andreas Nygaard, Holm, Louise Aas, Gerber, Georg K., Holm, Jens-Christian, Hansen, Torben, Holst, Birgitte, Arumugam, Manimozhiyan
Publicado 2019

Compartmentalization of Immune Response and Microbial Translocation in Decompensated Cirrhosis

por Alvarez-Silva, Camila, Schierwagen, Robert, Pohlmann, Alessandra, Magdaleno, Fernando, Uschner, Frank E., Ryan, Patrick, Vehreschild, Maria J. G. T., Claria, Joan, Latz, Eicke, Lelouvier, Benjamin, Arumugam, Manimozhiyan, Trebicka, Jonel
Publicado 2019

Genomic variation landscape of the human gut microbiome

por Schloissnig, Siegfried, Arumugam, Manimozhiyan, Sunagawa, Shinichi, Mitreva, Makedonka, Tap, Julien, Zhu, Ana, Waller, Alison, Mende, Daniel R., Kultima, Jens Roat, Martin, John, Kota, Karthik, Sunyaev, Shamil R., Weinstock, George M., Bork, Peer
Publicado 2012

Butyrate producing colonic Clostridiales metabolise human milk oligosaccharides and cross feed on mucin via conserved pathways

por Pichler, Michael Jakob, Yamada, Chihaya, Shuoker, Bashar, Alvarez-Silva, Camila, Gotoh, Aina, Leth, Maria Louise, Schoof, Erwin, Katoh, Toshihiko, Sakanaka, Mikiyasu, Katayama, Takane, Jin, Chunsheng, Karlsson, Niclas G., Arumugam, Manimozhiyan, Fushinobu, Shinya, Abou Hachem, Maher
Publicado 2020

Individuality and temporal stability of the human gut microbiome

por Sunagawa, Shinichi, Schloissnig, Siegfried, Arumugam, Manimozhiyan, Forslund, Kristoffer, Mitreva, Makedonka, Tap, Julien, Zhu, Ana, Waller, Alison, Mende, Daniel R., Kultima, Jens Roat, Martin, John, Kota, Karthik, Sunyaev, Shamil R., Typas, Athanasios, Weinstock, George M., Bork, Peer
Publicado 2014