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McHardy, Alice Carolyn, Martin, Hector Garcia, Tsirigos, Aristotelis, Hugenholtz, Philip and Rigoutsos, Isidore (2007) Accurate phylogenetic classification of variable-length DNA fragments. Nature Methods, 4 1: 63-72. doi:10.1038/NMETH976 60   202 Cited 227 times in Scopus227 16
Martín, Héctor García, Kunin, Victor, Ivanova, Natalia, Warnecke, Falk, Peterson, S. B., Barry, Kerrie, McHardy, Alice C., Yeates, Christine, He, Shaomei, Salamov, Asaf, Szeto, Ernest, Dalin, Eileen, Putnam, Nik, Rigoutsos, Isidore, Kyrpides, Nikos C., Blackall, Linda Louise, McMahon, Katherine D. and Hugenholtz, Philip (2006). Metagenomic analysis of phosphorus removing sludge communities. In: ISME Vienna 2006: 11th International Symposium on Microbial Ecology. The hidden powers: Microbial communities in action, Vienna, Austria, (A457-A457). 20-25 August 2006. 157  
Martín, Hector Garcia, Ivanova, Natalia, Kunin, Victor, Warnecke, Falk, Barry, Kerrie W., McHardy, Alice C., Yeates, Christine, He, Shaomei, Salamov, Asaf A., Szeto, Ernest, Dalin, Eileen, Putnam, Nik H., Shapiro, Harris J., Pangilinan, Jasmyn L., Rigoutsos, Isidore, Kyrpides, Nikos C., Blackall, Linda Louise, McMahon, Katherine D. and Hugenholtz, Philip (2006) Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities. Nature Biotechnology, 24 10: 1263-1269. doi:10.1038/nbt1247 107   252 Cited 311 times in Scopus311 3
Warnecke, Falk, Luginbuehl, Peter, Ivanova, Natalia, Ghassemian, Majid, Richardson, Toby H., Stege, Justin T., Cayouette, Michelle, McHardy, Alice C., Djordjevic, Gordana, Aboushadi, Nahla, Sorek, Rotem, Tringe, Susannah G., Podar, Mircea, Martin, Hector Garcia, Kunin, Victor, Dalevi, Daniel, Madejska, Julita, Kirton, Edward, Platt, Darren, Szeto, Ernest, Salamov, Asaf, Barry, Kerrie, Mikhailova, Natalia, Kyrpides, Nikos C., Matson, Eric G., Ottesen, Elizabeth A., Zhang, Xinning, Hernandez, Myriam, Murillo, Catalina, Acosta, Luis G., Rigoutsos, Isidore, Tamayo, Giselle, Green, Brian D., Chang, Cathy, Rubin, Edward M., Mathur, Eric J., Robertson, Dan E., Hugenholtz, Philip and Leadbetter, Jared R. (2007) Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite. Nature, 450 7169: 560-565. doi:10.1038/nature06269 75   478 Cited 486 times in Scopus486 2
Hoehl, Michael, Rigoutsos, Isidore and Ragan, Mark A. (2006) Pattern-based phylogenetic distance estimation and tree reconstruction. Evolutionary Bioinformatics, 2 359-375. 82   10
Dehal, Paramvir, Satou, Yutaka, Campbell, Robert K., Chapman, Jarrod, Degnan, Bernard, De Tomaso, Anthony, Davidson, Brad, Gregorio, Anna Di, Gelpke, Maarten, Goodstein, David M., Harafuji, Naoe, Hastings, Kenneth E. M., Ho, Isaac, Hotta, Kohji, Huang, Wayne, Kawashima, Takeshi, Lemaire, Patrick, Martinez, Diego, Meinertzhagen, Ian A., Necula, Simona, Nonaka, Masaru, Putnam, Nik, Rash, Sam, Saiga, Hidetoshi, Satake, Masanobu, Terry, Astrid, Yamada, Lixy, Wang, Hong-Gang, Awazu, Satoko, Azumi, Kaoru, Boore, Jeffrey, Branno, Margherita, Chin-bow, Stephen, DeSantis, Rosaria, Doyle, Sharon, Francino, Pilar, Keys, David N., Haga, Shinobu, Hayashi, Hiroko, Hino, Kyosuke, Imai, Kaoru S., Inaba, Kazuo, Kano, Shungo, Kobayashi, Kenji, Kobayashi, Mari, Lee, Byung-In, Makabe, Kazuhiro W., Manohar, Chitra, Matassi, Giorgio, Medina, Monica, Mochizuki, Yasuaki, Mount, Steve, Morishita, Tomomi, Miura, Sachiko, Nakayama, Akie, Nishizaka, Satoko, Nomoto, Hisayo, Ohta, Fumiko, Rigoutsos, Isidore, Sano, Masako, Akane, Sasaki, Sasakura, Yasunori, Shoguchi, Eiichi, Shin-i, Tadasu, Spagnuolo, Antoinetta, Stainier, Didier, Suzuki, Miho M., Tassy, Olivier, Takatori, Naohito, Tokuoka, Miki, Yagi, Kasumi, Yoshizaki, Fumiko, Wada, Shuichi, Zhang, Cindy, Hyatt, P. Douglas, Larimer, Frank, Detter, Chris, Doggett, Norman, Glavina, Tijana, Hawkins, Trevor, Richardson, Paul, Lucas, Susan, Kohara, Yuji, Levine, Michael, Satoh, Nori and Rokhsar, Daniel S. (2002) The draft genome sequence of the ascidian Ciona intestinalis: insights into the evolutionary origins of chordates and vertebrates. Science, 298 5601: 2157-2167. doi:10.1126/science.1080049 250   1018 Cited 982 times in Scopus982 11
Mavromatis, Konstantinos, Ivanova, Natalia, Barry, Kerry, Shapiro, Harris, Goltsman, Eugene, McHardy, Alice C., Rigoutsos, Isidore, Salamov, Asaf, Korzeniewski, Frank, Land, Miriam, Lapidus, Alla, Grigoriev, Igor, Richardson, Paul, Hugenholtz, Philip and Kyrpides, Nikos C. (2007) Use of simulated data sets to evaluate the fidelity of metagenomic processing methods. Nature Methods, 4 6: 495-500. doi:10.1038/nmeth1043 71   151 Cited 167 times in Scopus167 21