Mani Arumugam

Publikation

Publikationer pr. år 2004 2010 2011 2012 2013 2014 2015 2016 2017 2019 2019

• 41 Tidsskriftartikel
• 2 Kommentar/debat
• 1 Letter
• 1 Review

Publikationer pr. år

Publikationer pr. år

Søgeresultater

• 2019

  Circulating microbiome in blood of different circulatory compartments

  Schierwagen, R., Alvarez-Silva, C., Madsen, M. S. A., Kolbe, C. C., Meyer, C., Thomas, D., Uschner, F. E., Magdaleno, F., Jansen, C., Pohlmann, A., Praktiknjo, M., Hischebeth, G. T., Molitor, E., Latz, E., Lelouvier, B., Trebicka, J. & Arumugam, M., 1 mar. 2019, I: Gut. 68, 3, s. 578-580

  Publikation: Bidrag til tidsskrift › Letter › peer review

  38 Citationer (Scopus)

  26 Downloads (Pure)

• Compartmentalization of Immune Response and Microbial Translocation in Decompensated Cirrhosis

  Alvarez-Silva, C., Schierwagen, R., Pohlmann, A., Magdaleno, F., Uschner, F. E., Ryan, P., Vehreschild, M. J. G. T., Claria, J., Latz, E., Lelouvier, B., Arumugam, M. & Trebicka, J., 2019, I: Frontiers in Immunology. 10, 11 s., 69.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Ascites 100%
  • Fibrosis 83%
  • Inflammation 52%
  • Bacterial DNA 43%
  • Interleukin-6 43%
  11 Citationer (Scopus)

  6 Downloads (Pure)

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

  Poupeau, A., Garde, C., Sulek, K., Citirikkaya, K., Treebak, J. T., Arumugam, M., Simar, D., Olofsson, L. E., Bäckhed, F. & Barrès, R., 2019, I: F A S E B Journal. 33, 2, s. 2719-2731 13 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Germ Cells 100%
  • Transcriptional Activation 92%
  • Epithelial Cells 72%
  • Lymphocytes 69%
  • Folate 60%
  2 Citationer (Scopus)

  3 Downloads (Pure)

• Genetic studies of abdominal MRI data identify genes regulating hepcidin as major determinants of liver iron concentration

  Wilman, H. R., Parisinos, C. A., Atabaki-Pasdar, N., Kelly, M., Thomas, E. L., Neubauer, S., Jennison, C., Ehrhardt, B., Baum, P., Schoelsch, C., Freijer, J., Grempler, R., Graefe-Mody, U., Hennige, A., Dings, C., Lehr, T., Scherer, N., Sihinecich, I., Pattou, F., Raverdi, V., & 31 flereCaiazzo, R., Torres, F., Verkindt, H., Mari, A., Tura, A., Giorgino, T., Bizzotto, Froguel, P., Brorsson, C., Brunak, S., De Masi, F., Pedersen, H., Banasik, K., Thomas, C., Lundgaard, A., Nielsen, A., Mazzoni, G., Karaderi, T., Rasmussen, S., Johansen, J., Allesøe, R., Arumugam, M., Allin, K., Hansen, T., Hansen, T., Jonsson, A., Pedersen, O., Dutta, A., Vogt, J., Vestergaard, H. & IMI-DIRECT consortium, 1 sep. 2019, I: Journal of Hepatology. 71, 3, s. 594-602 9 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Hepcidins 100%
  • Iron 62%
  • Liver 38%
  • Genes 30%
  • Abdominal Obesity 16%
  5 Citationer (Scopus)

  13 Downloads (Pure)

• Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer

  Wirbel, J., Pyl, P. T., Kartal, E., Zych, K., Kashani, A., Milanese, A., Fleck, J. S., Voigt, A. Y., Palleja, A., Ponnudurai, R., Sunagawa, S., Coelho, L. P., Schrotz-King, P., Vogtmann, E., Habermann, N., Niméus, E., Thomas, A. M., Manghi, P., Gandini, S., Serrano, D., & 15 flereMizutani, S., Shiroma, H., Shiba, S., Shibata, T., Yachida, S., Yamada, T., Waldron, L., Naccarati, A., Segata, N., Sinha, R., Ulrich, C. M., Brenner, H., Arumugam, M., Bork, P. & Zeller, G., 1 apr. 2019, I: Nature Medicine. 25, 4, s. 679-689 11 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Metagenome 100%
  • Bile Acid 80%
  • Carbohydrate 57%
  • Metabolic 56%
  • Colorectal Neoplasms 55%
  188 Citationer (Scopus)

• Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation

  Thomas, A. M., Manghi, P., Asnicar, F., Pasolli, E., Armanini, F., Zolfo, M., Beghini, F., Manara, S., Karcher, N., Pozzi, C., Gandini, S., Serrano, D., Tarallo, S., Francavilla, A., Gallo, G., Trompetto, M., Ferrero, G., Mizutani, S., Shiroma, H., Shiba, S., & 19 flereShibata, T., Yachida, S., Yamada, T., Wirbel, J., Schrotz-King, P., Ulrich, C. M., Brenner, H., Arumugam, M., Bork, P., Zeller, G., Cordero, F., Dias-Neto, E., Setubal, J. C., Tett, A., Pardini, B., Rescigno, M., Waldron, L., Naccarati, A. & Segata, N., 1 apr. 2019, I: Nature Medicine. 25, 4, s. 667-678 12 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Metagenomics 100%
  • Choline 87%
  • Biological Marker 72%
  • Stachyose 66%
  • Colorectal Neoplasms 64%
  158 Citationer (Scopus)
• 2018

  Antifibrotic and molecular aspects of rifaximin in alcoholic liver disease: study protocol for a randomized controlled trial

  Madsen, B. S., Trebicka, J., Thiele, M., Israelsen, M., Arumugan, M., Havelund, T. & Krag, A., 26 feb. 2018, I: Trials. 19, s. 1-5 5 s., 143.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Rifaximin 100%
  • Alcoholic Liver Diseases 82%
  • Liver Cirrhosis 52%
  • Randomized Controlled Trials 44%
  • Gastrointestinal Microbiome 37%
  9 Citationer (Scopus)

  54 Downloads (Pure)

• Recovery of gut microbiota of healthy adults following antibiotic exposure

  Palleja, A., Mikkelsen, K. H., Forslund, S. K., Kashani, A., Allin, K. H., Nielsen, T., Hansen, T. H., Liang, S., Feng, Q., Zhang, C., Pyl, P. T., Coelho, L. P., Yang, H., Wang, J., Typas, A., Nielsen, M. F., Nielsen, H. B., Bork, P., Wang, J., Vilsbøll, T., & 4 flereHansen, T., Knop, F. K., Arumugam, M. & Pedersen, O., 1 nov. 2018, I: Nature Microbiology. 3, 11, s. 1255-1265 11 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Gastrointestinal Microbiome 100%
  • Anti-Bacterial Agents 66%
  • Microbial Drug Resistance 40%
  • Genes 32%
  • Lactams 28%
  143 Citationer (Scopus)
• 2017

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

  Suvorova, M. A., Tsapieva, A. N., Bak, E. G., Chereshnev, V. A., Kiseleva, E. P., Suvorov, A. N. & Arumugam, M., 1 sep. 2017, I: Genome Announcements. 5, 38, 2 s., e00939-17.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning

  • Streptococcus pyogenes 100%
  • Scarlet Fever 63%
  • Genome 55%
  • USSR 54%
  • Pharynx 41%
  63 Downloads (Pure)

• Corrigendum: Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

  Forslund, K., Hildebrand, F., Nielsen, T., Falony, G., Le Chatelier, E., Sunagawa, S., Prifti, E., Vieira-Silva, S., Gudmundsdottir, V., Pedersen, H. K., Arumugam, M., Kristiansen, K., Voigt, A. Y., Vestergaard, H., Hercog, R., Costea, P. I., Kultima, J. R., Li, J., Jørgensen, T., Levenez, F., & 10 flereDoré, J., Nielsen, H. B., Brunak, S., Raes, J., Hansen, T., Wang, J., Ehrlich, S. D., Bork, P., Pedersen, O. & MetaHIT consortium, 3 maj 2017, I: Nature. 545, 116, 1 s., 22318.

  Publikation: Bidrag til tidsskrift › Kommentar/debat › Forskning

  21 Citationer (Scopus)

• Enterotypes in the landscape of gut microbial community composition

  Costea, P. I., Hildebrand, F., Manimozhiyan, A., Bäckhed, F., Blaser, M. J., Bushman, F. D., De Vos, W. M., Ehrlich, S. D., Fraser, C. M., Hattori, M., Huttenhower, C., Jeffery, I. B., Knights, D., Lewis, J. D., Ley, R. E., Ochman, H., O'Toole, P. W., Quince, C., Relman, D. A., Shanahan, F., & 9 flereSunagawa, S., Wang, J., Weinstock, G. M., Wu, G. D., Zeller, G., Zhao, L., Raes, J., Knight, R. & Bork, P., 2017, I: Nature Microbiology. 3, 1, s. 8-16 9 s.

  Publikation: Bidrag til tidsskrift › Review › peer review

  • Microbiota 100%
  • Gastrointestinal Microbiome 33%
  • Data Analysis 25%
  • Health 16%
  • Population 13%
  265 Citationer (Scopus)

• High-fat feeding rather than obesity drives taxonomical and functional changes in the gut microbiota in mice

  Xiao, L., Sonne, S. B., Feng, Q., Chen, N., Xia, Z., Li, X., Fang, Z., Zhang, D., Fjære, E., Midtbø, L. K., Derrien, M., Hugenholtz, F., Tang, L., Li, J., Zhang, J., Liu, C., Hao, Q., Vogel, U. B., Mortensen, A., Kleerebezem, M., & 8 flereLicht, T. R., Yang, H., Wang, J., Li, Y., Arumugam, M., Wang, J., Madsen, L. & Kristiansen, K., 8 apr. 2017, I: Microbiome. 5, 12 s., 43.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Gastrointestinal Microbiome 100%
  • Fats 76%
  • Obesity 70%
  • High Fat Diet 40%
  • Butyrates 38%
  57 Citationer (Scopus)

  91 Downloads (Pure)

• Metagenomic analysis of faecal microbiome as a tool towards targeted non-invasive biomarkers for colorectal cancer

  Yu, J., Feng, Q., Wong, S. H., Zhang, D., Liang, Q. Y., Qin, Y., Tang, L., Zhao, H., Stenvang, J., Li, Y., Wang, X., Xu, X., Chen, N., Wu, W. K. K., Al-Aama, J., Nielsen, H. J., Kiilerich, P., Jensen, B. A. H., Yau, T. O., Lan, Z., & 19 flereJia, H., Li, J., Xiao, L., Lam, T. Y. T., Ng, S. C., Cheng, A. S-L., Wong, V. W-S., Chan, F. K. L., Xu, X., Yang, H., Madsen, L., Datz, C., Tilg, H., Wang, J., Brünner, N., Kristiansen, K., Arumugam, M., Sung, J. J-Y. & Wang, J., 2017, I: Gut. 66, s. 70-78 9 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Metagenomics 100%
  • Microbiota 80%
  • Colorectal Neoplasms 64%
  • Biomarkers 52%
  • Metagenome 38%
  309 Citationer (Scopus)
• 2016

  An Improved Method for High Quality Metagenomics DNA Extraction from Human and Environmental Samples

  Bag, S., Saha, B., Mehta, O., Anbumani, D., Kumar, N., Dayal, M., Pant, A., Kumar, P., Saxena, S., Allin, K. H., Hansen, T., Arumugam, M., Vestergaard, H., Pedersen, O., Pereira, V., Abraham, P., Tripathi, R., Wadhwa, N., Bhatnagar, S., Prakash, V. G., & 7 flereRadha, V., Anjana, R. M., Mohan, V., Takeda, K., Kurakawa, T., Nair, G. B. & Das, B., 31 maj 2016, I: Scientific Reports. 6, 9 s., 26775.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Metagenomics 100%
  • DNA 45%
  • Microbiota 26%
  • Nucleic Acids 17%
  • Environmental DNA 15%
  76 Citationer (Scopus)

  259 Downloads (Pure)

• Human gut microbes impact host serum metabolome and insulin sensitivity

  Pedersen, H. K., Gudmundsdottir, V., Nielsen, H. B., Hyotylainen, T., Nielsen, T., Jensen, B. A. H., Forslund, K., Hildebrand, F., Prifti, E., Falony, G., Le Chatelier, E., Levenez, F., Doré, J., Mattila, I., Plichta, D. R., Pöhö, P., Hellgren, L. I., Arumugam, M., Sunagawa, S., Vieira-Silva, S., & 14 flereJørgensen, T., Holm, J. B., Trošt, K., Kristiansen, K., Brix, S., Raes, J., Wang, J., Hansen, T., Bork, P., Brunak, S., Oresic, M., Ehrlich, S. D., Pedersen, O. B. & MetaHIT Consortium, 13 jul. 2016, I: Nature. 535, 7612, s. 376-381 6 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Metabolome 100%
  • Branched Chain Amino Acids 92%
  • Insulin Resistance 72%
  • Serum 40%
  • Gastrointestinal Microbiome 35%
  699 Citationer (Scopus)

• Roux-en-Y gastric bypass surgery of morbidly obese patients induces swift and persistent changes of the individual gut microbiota

  Palleja, A., Kashani, A., Allin, K. H., Nielsen, T., Zhang, C., Li, Y., Brach, T., Liang, S., Feng, Q., Jørgensen, N. B., Bojsen-Møller, K. N., Dirksen, C., Burgdorf, K. S., Holst, J. J., Madsbad, S., Wang, J., Pedersen, O. B., Hansen, T. & Arumugam, M., 15 jun. 2016, I: Genome Medicine. 8, 13 s., 67.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Gastric Bypass 100%
  • Gastrointestinal Microbiome 85%
  • Weight Loss 23%
  • Nutrients 16%
  • Faecalibacterium prausnitzii 16%
  137 Citationer (Scopus)

  196 Downloads (Pure)
• 2015

  A catalog of the mouse gut metagenome

  Xiao, L., Feng, Q., Liang, S., Sonne, S. B., Xia, Z., Qiu, X., Li, X., Long, H., Zhang, J., Zhang, D., Liu, C., Fang, Z., Chou, J., Glanville, J., Hao, Q., Kotowska, D. E., Colding, C. S., Licht, T. R., Wu, D., Yu, J., & 17 flereSung, J. J. Y., Liang, Q., Li, J., Jia, H., Lan, Z., Tremaroli, V., Dworzynski, P., Nielsen, H. B., Bäckhed, G. F., Dore, J., Le Chatelier, E., Ehrlich, S. D., Lin, J. C., Arumugam, M., Wang, J., Madsen, L. & Kristiansen, K., 1 okt. 2015, I: Nature Biotechnology. 33, 10, s. 1103-1108 6 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Metagenome 100%
  • Catalogs 86%
  • DNA Sequencing 86%
  • Microorganisms 83%
  • Genes 66%
  210 Citationer (Scopus)

• Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

  Forslund, K., Hildebrand, F., Nielsen, T., Falony, G., Le Chatelier, E., Sunagawa, S., Prifti, E., Vieira-Silva, S., Gudmundsdottir, V., Pedersen, H. K., Arumugam, M., Kristiansen, K., Yvonne Voigt, A., Vestergaard, H., Hercog, R., Igor Costea, P., Roat Kultima, J., Li, J., Jørgensen, T., Levenez, F., & 9 flereDore, J., Nielsen, H. B., Brunak, S., Raes, J., Hansen, T., Wang, J., Dusko Ehrlich, S., Bork, P. & Pedersen, O. B., 10 dec. 2015, I: Nature. 528, 7581, s. 262-266 5 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Metformin 100%
  • Microbiota 92%
  • Gastrointestinal Microbiome 91%
  • Type 2 Diabetes Mellitus 69%
  • Hypoglycemic Agents 44%
  856 Citationer (Scopus)

• Gut microbiome development along the colorectal adenoma-carcinoma sequence

  Feng, Q., Liang, S., Jia, H., Stadlmayr, A., Tang, L., Lan, Z., Zhang, D., Xia, H., Xu, X., Jie, Z., Su, L., Li, X., Li, X., Li, J., Xiao, L., Huber-Schönauer, U., Niederseer, D., Xu, X., Al-Aama, J. Y., Yang, H., & 6 flereWang, J., Kristiansen, K., Arumugam, M., Tilg, H., Datz, C. & Wang, J., 11 mar. 2015, I: Nature Communications. 6, 13 s., 6528.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Gastrointestinal Microbiome 100%
  • Adenoma 94%
  • cancer 94%
  • Colorectal Neoplasms 80%
  • Strain 70%
  424 Citationer (Scopus)

• Interplay between FGF21 and insulin action in the liver regulates metabolism

  Emanuelli, B., Vienberg, S. G., Smyth, G., Cheng, C., Stanford, K. I., Arumugam, M., Michael, M. D., Adams, A. C., Kharitonenkov, A. & Kahn, C. R., jan. 2015, I: The Journal of Clinical Investigation. 125, 1, s. 458

  Publikation: Bidrag til tidsskrift › Kommentar/debat › Forskning › peer review

  9 Citationer (Scopus)
• 2014

  An integrated catalog of reference genes in the human gut microbiome

  Li, J., Jia, H., Cai, X., Zhong, H., Feng, Q., Sunagawa, S., Arumugam, M., Kultima, J. R., Prifti, E., Nielsen, T., Juncker, A., Manichanh, C., Chen, B., Zhang, W., Levenez, F., Wang, J., Xu, X., Xiao, L., Liang, S., Zhang, D., & 17 flereZhang, Z., Chen, W., Zhao, H., Al-Aama, J. Y., Edris, S., Yang, H., Wang, J., Hansen, T., Nielsen, H. B., Brunak, S., Kristiansen, K., Guarner, F., Pedersen, O., Doré, J., Ehrlich, S. D., Bork, P. & Wang, J., 1 aug. 2014, I: Nature Biotechnology. 32, 8, s. 834-845 12 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Catalogs 100%
  • Microorganisms 95%
  • Microbiota 79%
  • Gastrointestinal Microbiome 79%
  • Genes 76%
  823 Citationer (Scopus)

• Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes

  Nielsen, H. B., Almeida, M., Juncker, A., Rasmussen, S., Li, J., Sunagawa, S., Plichta, D. R., Gautier, L., Pedersen, A. G., Le Chatelier, E., Pelletier, E., Bonde, I., Nielsen, T., Manichanh, C., Arumugam, M., Batto, J-M., dos Santos, M. B. Q., Blom, N., Borruel, N., Burgdorf, K. S., & 31 flereBoumezbeur, F., Casellas, F., Doré, J., Dworzynski, P., Guarner, F., Hansen, T., Hildebrand, F., Kaas, R. S., Kennedy, S., Kristiansen, K., Kultima, J. R., Léonard, P., Levenez, F., Lund, O., Moumen, B., Le Paslier, D., Pons, N., Pedersen, O. B., Prifti, E., Qin, J., Raes, J., Sørensen, S. J., Tap, J., Tims, S., Ussery, D., Yamada, T., Renault, P., Sicheritz-Pontén, T., Bork, P., Wang, J. & MetaHIT Consortium, 1 aug. 2014, I: Nature Biotechnology. 32, 8, s. 822–828 7 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Metagenomics 100%
  • Viruses 94%
  • Genomics 83%
  • Microbial Genome 61%
  • Strain 56%
  454 Citationer (Scopus)

• Interplay between FGF21 and insulin action in the liver regulates metabolism

  Emanuelli, B., Vienberg, S. G., Smyth, G., Cheng, C., Stanford, K. I., Arumugam, M., Michael, M. D., Adams, A. C., Kharitonenkov, A. & Kahn, C. R., 3 feb. 2014, I: The Journal of Clinical Investigation. 124, 2, s. 515-27 13 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • fibroblast growth factor 21 100%
  • Insulin 46%
  • Liver 35%
  • Brown Adipose Tissue 27%
  • White Adipose Tissue 18%
  151 Citationer (Scopus)
• 2013

  Consistent mutational paths predict eukaryotic thermostability

  van Noort, V., Bradatsch, B., Arumugam, M., Amlacher, S., Bange, G., Creevey, C., Falk, S., Mende, D. R., Sinning, I., Hurt, E. & Bork, P., 2013, I: B M C Evolutionary Biology. 13, s. 7

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • thermal stability 100%
  • genome 82%
  • thermophily 82%
  • proteome 79%
  • protein 79%
  32 Citationer (Scopus)

• Country-specific antibiotic use practices impact the human gut resistome

  Forslund, K., Sunagawa, S., Kultima, J. R., Mende, D. R., Arumugam, M., Typas, A. & Bork, P., jul. 2013, I: Genome Research. 23, 7, s. 1163-9 7 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Anti-Bacterial Agents 100%
  • Microbial Drug Resistance 60%
  • Gastrointestinal Microbiome 60%
  • Metagenome 43%
  • Metagenomics 37%
  219 Citationer (Scopus)

• Genomic variation landscape of the human gut microbiome

  Schloissnig, S., Arumugam, M., Sunagawa, S., Mitreva, M., Tap, J., Zhu, A., Waller, A., Mende, D. R., Kultima, J. R., Martin, J., Kota, K., Sunyaev, S. R., Weinstock, G. M. & Bork, P., 3 jan. 2013, I: Nature. 493, 7430, s. 45-50 6 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Metagenomics 100%
  • Microbiota 80%
  • Gastrointestinal Microbiome 79%
  • Single Nucleotide Polymorphism 67%
  • Metagenome 57%
  441 Citationer (Scopus)

• Metagenomic species profiling using universal phylogenetic marker genes

  Sunagawa, S., Mende, D. R., Zeller, G., Izquierdo-Carrasco, F., Berger, S. A., Kultima, J. R., Coelho, L. P., Arumugam, M., Tap, J., Nielsen, H. B., Rasmussen, S., Brunak, S., Pedersen, O. B., Guarner, F., de Vos, W. M., Wang, J., Li, J., Doré, J., Ehrlich, S. D., Stamatakis, A., & 1 flereBork, P., dec. 2013, I: Nature Methods. 10, 12, s. 1196-1199 4 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Metagenomics 100%
  • Marker 70%
  • Genes 32%
  • Firearms 22%
  • Genome 13%
  253 Citationer (Scopus)

• Richness of human gut microbiome correlates with metabolic markers

  Le Chatelier, E., Nielsen, T., Qin, J., Prifti, E., Hildebrand, F., Falony, G., Almeida, M., Arumugam, M., Batto, J-M., Kennedy, S., Leonard, P., Li, J., Burgdorf, K. S., Grarup, N., Jørgensen, T., Brandslund, I., Nielsen, H. B., Juncker, A., dos Santos, M. B. Q., Levenez, F., & 62 flerePons, N., Rasmussen, S., Sunagawa, S., Tap, J., Tims, S., Zoetendal, E. G., Brunak, S., Clément, K., Doré, J., Kleerebezem, M., Kristiansen, K., Renault, P., Sicheritz-Ponten, T., de Vos, W. M., Zucker, J-D., Raes, J., Hansen, T., Bork, P., Wang, J., Ehrlich, S. D., Pedersen, O. B., Guedon, E., Delorme, C., Layec, S., Khaci, G., van de Guchte, M., Vandemeulebrouck, G., Jamet, A., Dervyn, R., Sanchez, N., Maguin, E., Haimet, F., Winogradski, Y., Cultrone, A., Leclerc, M., Juste, C., Blottière, H., Pelletier, E., LePaslier, D., Artiguenave, F., Bruls, T., Weissenbach, J., Turner, K., Parkhill, J., Antolin, M., Manichanh, C., Casellas, F., Boruel, N., Varela, E., Torrejon, A., Guarner, F., Denariaz, G., Derrien, M., van Hylckama Vlieg, J. E. T., Veiga, P., Oozeer, R., Knol, J., Rescigno, M., Brechot, C., Mérieux, A., M'Rini, C. & Yamada, T., 2013, I: Nature. 500, 7464, s. 541-546 6 s.

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  • Microbiota 100%
  • Gastrointestinal Microbiome 99%
  • Adiposity 70%
  • Microbial Genes 54%
  • Population 39%
  2055 Citationer (Scopus)
• 2012

  Assessment of metagenomic assembly using simulated next generation sequencing data

  Mende, D. R., Waller, A. S., Sunagawa, S., Järvelin, A. I., Chan, M. M., Arumugam, M., Raes, J. & Bork, P., 23 feb. 2012, I: P L o S One. 7, 2, s. e31386

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  • Metagenomics 100%
  • Sequencing 96%
  • Community 81%
  • High-Throughput Nucleotide Sequencing 77%
  • genome 75%
  121 Citationer (Scopus)

• MOCAT: a metagenomics assembly and gene prediction toolkit

  Kultima, J. R., Sunagawa, S., Li, J., Chen, W., Chen, H., Mende, D. R., Arumugam, M., Pan, Q., Liu, B., Qin, J., Wang, J. & Bork, P., 17 okt. 2012, I: PLOS ONE. 7, 10, s. e47656

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  • Metagenome 100%
  • Metagenomics 86%
  • Gene 68%
  • Genes 66%
  • Prediction 55%
  115 Citationer (Scopus)

• The human small intestinal microbiota is driven by rapid uptake and conversion of simple carbohydrates

  Zoetendal, E. G., Raes, J., van den Bogert, B., Arumugam, M., Booijink, C. C. G. M., Troost, F. J., Bork, P., Wels, M., de Vos, W. M. & Kleerebezem, M., jul. 2012, I: I S M E Journal. 6, 7, s. 1415-26 12 s.

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  • intestinal microorganisms 100%
  • carbohydrate 99%
  • Microbiota 98%
  • Gastrointestinal Microbiome 98%
  • microbiome 96%
  334 Citationer (Scopus)
• 2011

  Enterotypes of the human gut microbiome: [Plus]Corrigendum [Plus]Addendum

  Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D. R., Fernandes, G. R., Tap, J., Bruls, T., Batto, J-M., dos Santos, M. B. Q., Borruel, N., Casellas, F., Fernandez, L., Gautier, L., Hansen, T., Hattori, M., Hayashi, T., Kleerebezem, M., Kurokawa, K., & 31 flereLeclerc, M., Levenez, F., Manichanh, C., Nielsen, H. B., Nielsen, T., Pons, N., Poulain, J., Qin, J., Sicheritz-Ponten, T., Tims, S., Torrents, D., Ugarte, E., Zoetendal, E. G., Wang, J., Guarner, F., Pedersen, O., de Vos, W. M., Brunak, S., Doré, J., Antolín, M., Artiguenave, F., Blottiere, H. M., Almeida, M., Brechot, C., Cara, C., Chervaux, C., Cultrone, A., Delorme, C., Denariaz, G., Kristiansen, K. & MetaHIT Consortium, 2011, I: Nature. 473, 7346, s. 174-180 7 s.

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  • Microbiota 100%
  • Gastrointestinal Microbiome 99%
  • Body Mass Index 72%
  • Metagenome 72%
  • Genes 40%
  3580 Citationer (Scopus)

• Insight into structure and assembly of the nuclear pore complex by utilizing the genome of a eukaryotic thermophile

  Amlacher, S., Sarges, P., Flemming, D., van Noort, V., Kunze, R., Devos, D. P., Arumugam, M., Bork, P. & Hurt, E., 22 jul. 2011, I: Cell. 146, 2, s. 277-89 13 s.

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  • Nuclear Pore Complex Proteins 100%
  • Nuclear Pore 90%
  • Genome 45%
  • Pore 44%
  • Chaetomium 29%
  167 Citationer (Scopus)

• Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

  Yilmaz, P., Kottmann, R., Field, D., Knight, R., Cole, J. R., Amaral-Zettler, L., Gilbert, J. A., Karsch-Mizrachi, I., Johnston, A., Cochrane, G., Vaughan, R., Hunter, C., Park, J., Morrison, N., Rocca-Serra, P., Sterk, P., Arumugam, M., Bailey, M., Baumgartner, L., Birren, B. W., & 78 flereBlaser, M. J., Bonazzi, V., Booth, T., Bork, P., Bushman, F. D., Buttigieg, P. L., Chain, P. S. G., Charlson, E., Costello, E. K., Huot-Creasy, H., Dawyndt, P., DeSantis, T., Fierer, N., Fuhrman, J. A., Gallery, R. E., Gevers, D., Gibbs, R. A., San Gil, I., Gonzalez, A., Gordon, J. I., Guralnick, R., Hankeln, W., Highlander, S., Hugenholtz, P., Jansson, J., Kau, A. L., Kelley, S. T., Kennedy, J., Knights, D., Koren, O., Kuczynski, J., Kyrpides, N., Larsen, R., Lauber, C. L., Legg, T., Ley, R. E., Lozupone, C. A., Ludwig, W., Lyons, D., Maguire, E., Methé, B. A., Meyer, F., Muegge, B., Nakielny, S., Nelson, K. E., Nemergut, D., Neufeld, J. D., Newbold, L. K., Oliver, A. E., Pace, N. R., Palanisamy, G., Peplies, J., Petrosino, J., Proctor, L., Pruesse, E., Quast, C., Raes, J., Ratnasingham, S., Ravel, J., Relman, D. A., Assunta-Sansone, S., Schloss, P. D., Schriml, L., Sinha, R., Smith, M. I., Sodergren, E., Spo, A., Stombaugh, J., Tiedje, J. M., Ward, D. V., Weinstock, G. M., Wendel, D., White, O., Whiteley, A., Wilke, A., Wortman, J. R., Yatsunenko, T. & Glöckner, F. O., maj 2011, I: Nature Biotechnology. 29, 5, s. 415-20 6 s.

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  • Genes 100%
  • Marker 91%
  • Specifications 67%
  • DNA Sequencing 43%
  • Ecosystem 41%
  371 Citationer (Scopus)
• 2010

  A human gut microbial gene catalogue established by metagenomic sequencing

  MetaHIT Consortium, 2010, I: Nature. 464, 7285, s. 59-65 6 s.

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  • Microbial Genes 100%
  • Catalogs 77%
  • Metagenomics 76%
  • Metagenome 29%
  • Bacterial Genes 27%
  5947 Citationer (Scopus)

  775 Downloads (Pure)

• SmashCell: A software framework for the analysis of single-cell amplified genome sequences.

  Harrington, E. D., Arumugam, M., Raes, J., Bork, P. & Relman, D. A., dec. 2010, I: Bioinformatics. 26, 23, s. 2979-2980 2 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Single-Cell Analysis 100%
  • Metagenomics 92%
  • Genome 81%
  • Genomics 77%
  • Shell 73%
  12 Citationer (Scopus)

• SmashCommunity: A metagenomic annotation and analysis tool.

  Arumugam, M., Harrington, E. D., Foerstner, K. U., Raes, J. & Bork, P., dec. 2010, I: Bioinformatics. 26, 23, s. 2977-2978 2 s.

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  • Metagenome 100%
  • Annotation 96%
  • Metagenomics 86%
  • Pipeline 80%
  • Chemical analysis 45%
  59 Citationer (Scopus)
• 2009

  Pairagon: a highly accurate, HMM-based cDNA-to-genome aligner.

  Lu, D. V., Brown, R. H., Arumugam, M. & Brent, M. R., jul. 2009, I: Bioinformatics. 25, 13, s. 1587-1593 7 s.

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  • CDNA 100%
  • Genome 67%
  • Complementary DNA 63%
  • Alignment 63%
  • Genomics 63%
  6 Citationer (Scopus)

• Transcriptome complexity in a genome-reduced bacterium.

  Güell, M., van Noort, V., Yus, E., Chen, W-H., Leigh-Bell, J., Michalodimitrakis, K., Yamada, T., Arumugam, M., Doerks, T., Kühner, S., Rode, M., Suyama, M., Schmidt, S., Gavin, A-C., Bork, P. & Serrano, L., nov. 2009, I: Science. 326, 5957, s. 1268-1271 4 s.

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  • Transcriptome 100%
  • Operon 79%
  • Genome 73%
  • Bacteria 73%
  • Mycoplasma pneumoniae 47%
  324 Citationer (Scopus)
• 2007

  The Treeterbi and Parallel Treeterbi algorithms: efficient, optimal decoding for ordinary, generalized and pair HMMs.

  Keibler, E., Arumugam, M. & Brent, M. R., mar. 2007, I: Bioinformatics. 23, 5, s. 545-554 10 s.

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  • Parallel Algorithms 100%
  • Decoding 98%
  • Markov Model 96%
  • Hidden Markov models 90%
  • Parallel algorithms 84%
  7 Citationer (Scopus)
• 2006

  Molecular properties of adult mouse gastric and intestinal epithelial progenitors in their niches

  Giannakis, M., Stappenbeck, T. S., Mills, J. C., Leip, D. G., Lovett, M., Clifton, S. W., Ippolito, J. E., Glasscock, J. I., Arumugam, M., Brent, M. R. & Gordon, J. I., 2006, I: Journal of Biological Chemistry. 281, 16, s. 11292-300 9 s.

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  • Gene Ontology 100%
  • Metabolic 70%
  • Glycerolipid 65%
  • Stomach 62%
  • Metabolic Networks and Pathways 58%
  151 Citationer (Scopus)

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

  Arumugam, M., Wei, C., Brown, R. H. & Brent, M. R., 2006, I: Genome Biology (Online Edition). 7 Suppl 1, s. S5.1-10

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  • Molecular Sequence Annotation 100%
  • Expressed Sequence Tags 95%
  • alignment 70%
  • gene 57%
  • genomics 28%
  12 Citationer (Scopus)
• 2005

  Closing in on the C. elegans ORFeome by cloning TWINSCAN predictions

  Wei, C., Lamesch, P., Arumugam, M., Rosenberg, J., Hu, P., Vidal, M. & Brent, M. R., 2005, I: Genome Research. 15, 4, s. 577-82 6 s.

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  • Organism Cloning 100%
  • Caenorhabditis elegans 51%
  • Open Reading Frames 44%
  • Genes 43%
  • Caenorhabditis 26%
  31 Citationer (Scopus)
• 2004

  Genome sequence of the Brown Norway rat yields insights into mammalian evolution

  Gibbs, R. A., Weinstock, G. M., Metzker, M. L., Muzny, D. M., Sodergren, E. J., Scherer, S., Scott, G., Steffen, D., Worley, K. C., Burch, P. E., Okwuonu, G., Hines, S., Lewis, L., DeRamo, C., Delgado, O., Dugan-Rocha, S., Miner, G., Morgan, M., Hawes, A., Gill, R., & 31 flereCelera, Holt, R. A., Adams, M. D., Amanatides, P. G., Baden-Tillson, H., Barnstead, M., Chin, S., Evans, C. A., Ferriera, S., Fosler, C., Glodek, A., Gu, Z., Jennings, D., Kraft, C. L., Nguyen, T., Pfannkoch, C. M., Sitter, C., Sutton, G. G., Venter, J. C., Woodage, T., Smith, D., Lee, H-M., Gustafson, E., Cahill, P., Kana, A., Doucette-Stamm, L., Weinstock, K., Fechtel, K., Weiss, R. B., Arumugam, M. & Rat Genome Sequencing Project Consortium, 2004, I: Nature. 428, 6982, s. 493-521 29 s.

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  • Genome 100%
  • Human Genome 30%
  • Karyotype 30%
  • Biomedical Research 29%
  • Drug Development 27%
  1522 Citationer (Scopus)

• Identification of rat genes by TWINSCAN gene prediction, RT-PCR, and direct sequencing

  Wu, J. Q., Shteynberg, D., Arumugam, M., Gibbs, R. A. & Brent, M. R., 2004, I: Genome Research. 14, 4, s. 665-71 7 s.

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  • Reverse Transcription 100%
  • Polymerase Chain Reaction 67%
  • Genome 46%
  • Genes 45%
  • Introns 43%
  30 Citationer (Scopus)