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Prediction of rho-independent transcriptional terminators in Escherichia coli

A new algorithm called RNAMotif containing RNA structure and sequence constraints and a thermodynamic scoring system was used to search for intrinsic rho-independent terminators in the Escherichia coli K-12 genome. We identified all 135 reported terminators and 940 putative terminator sequences begi...

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Detalhes bibliográficos
Main Authors:	Lesnik, Elena A., Sampath, Rangarajan, Levene, Harold B., Henderson, Timothy J., McNeil, John A., Ecker, David J., Licciardo, Paolo, Ruggiero, Luca, Lania, Luigi, Majello, Barbara, Tayon Jr, Robert, Kim, Min-Ju, Kao, C. Cheng, Ulrich, Helle D., Zhang, Lei, Dawson, Angela, Finnegan, David J., Benjamin, Don, Jost, Jean-Pierre, Grigoriev, Andrei, Bailly, Alain, Torres-Padilla, Maria Elena, Tinel, Antoine P., Weiss, Mary C., Park, Jung W., Voss, Patricia G., Grabski, Sharon, Wang, John L., Patterson, Ronald J., Lievens, Sam, Goormachtig, Sofie, Holsters, Marcelle, Murphy, Eric A., Waring, Alan J., Murphy, Jason C., Willson, Richard C., Longmuir, Kenneth J., Lin, Ching-Tai, Lin, Wei-Hsin, Lyu, Yi Lisa, Whang-Peng, Jacqueline, Gensler, Sven, Weber, Katharina, Schmitt, Wolfgang E., Pérez-Martos, Acisclo, Enriquez, J. Antonio, Montoya, Julio, Wiesner, Rudolf J., Pestov, Dimitri G., Stockelman, Michael G., Strezoska, Zaklina, Lau, Lester F., Ferrando, Alejandro, Koncz-Kálmán, Zsuzsana, Farràs, Rosa, Tiburcio, Antonio, Schell, Jeff, Koncz, Csaba, Hohsaka, Takahiro, Ashizuka, Yuki, Murakami, Hiroshi, Sisido, Masahiko, Lloyd, B. H., Giles, R. V., Spiller, D. G., Grzybowski, J., Tidd, D. M., Sibson, D. R., van Dijk, Erwin L., Sussenbach, John S., Holthuizen, P. Elly, Aoki, Asako, Suetake, Isao, Miyagawa, Junichi, Fujio, Takayuki, Chijiwa, Takahito, Sasaki, Hiroyuki, Tajima, Shoji, Bergholtz, Stine, Andersen, Tor Øyvind, Andersson, Kristin B., Borrebæk, Jørgen, Lüscher, Bernhard, Gabrielsen, Odd S., Stribinskis, Vilius, Gao, Guo-Jian, Sulo, Pavol, Ellis, Steven R., Martin, Nancy C., Avolio-Hunter, Tina M., Lewis, Peter N., Frappier, Lori, Kostenko, Elena, Dobrikov, Mikhail, Pyshnyi, Dmitrii, Petyuk, Vladislav, Komarova, Nina, Vlassov, Valentin, Zenkova, Marina, Prathapam, Tulasiram, Kühne, Christian, Hayman, Michael, Banks, Lawrence, Mokhir, Andriy A., Connors, William H., Richert, Clemens, Jones, Richard B., Carstens, Russ P., Luo, Yongde, McKeehan, Wallace L., Puapaiboon, Uraiwan, Jai-nhuknan, Jaran, Cowan, J. A., Soto, Ana Maria, Kankia, Besik I., Dande, Prasad, Gold, Barry, Marky, Luis A., Sharma, Vishva Mitra, Chopra, Rohini, Ghosh, Indrani, Ganesan, K., Lecerf, F., Foggia, L., Mulsant, P., Bonnet, A., Hatey, F., Ye, Shu, Dhillon, Sahar, Ke, Xiayi, Collins, Andrew R., Day, Ian N. M., Molenaar, C., Marras, S. A., Slats, J. C. M., Truffert, J.-C., Lemaître, M., Raap, A. K., Dirks, R. W., Tanke, H. J., Lichtenstein, Anatoly V., Serdjuk, Ol’ga I., Sukhova, Tatjana I., Melkonyan, Hovsep S., Umansky, Samuil R., Arichi, Tatsumi, Saito, Takafumi, Major, Marian E., Belyakov, Igor M., Shirai, Mutsunori, Engelhard, Victor H., Feinstone , Stephen M., Berzofsky, Jay A., Tada, Shusuke, Kobayashi, Takayuki, Omori, Akira, Kusa, Yumiko, Okumura, Natsuko, Kodaira, Hiroyo, Ishimi, Yukio, Seki, Masayuki, Enomoto, Takemi, Shchepinov, Mikhail S., Denissenko, Mikhail F., Smylie, Kevin J., Wörl, Ralf J., Leppin, A. Lorieta, Cantor, Charles R., Rodi, Charles P., Nagengast, Alexis A., Salz, Helen K., Bellamy, Stuart R. W., Baldwin, Geoffrey S., Lutz, Rolf, Lozinski, Tomasz, Ellinger, Thomas, Bujard, Hermann, Ogura, Mitsuo, Yamaguchi, Hirotake, Yoshida, Ken-ichi, Fujita, Yasutaro, Tanaka, Teruo, Sharkady, Stephen M., Nolan, James M., Mass, Gilad, Nethanel, Tamar, Lavrik, Olga I., Wold, Marc S., Kaufmann, Gabriel, Taladriz, Soraya, Hanke, Tobias, Ramiro, María J., García-Díaz, Miguel, Lacoba, Mario García de, Blanco, Luis, Larraga, Vicente, Cheng, Xiaodong, Roberts, Richard J., Chevalier, Brett S., Stoddard, Barry L., Pingoud, Alfred, Jeltsch, Albert, Kobayashi, Ichizo, Dryden, D. T. F., Murray, Noreen E., Rao, D. N., Tsutakawa, Susan E., Morikawa, Kosuke
Formato:	Artigo
Idioma:	English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English English
Publicado em:	Oxford University Press 2001
Assuntos:	Article Survey and Summary NAR Methods Online Correction Retraction
Acesso em linha:	https://ncbi.nlm.nih.gov/pmc/articles/PMC55870/ https://ncbi.nlm.nih.gov/pubmed/11522828 https://ncbi.nlm.nih.gov/pmc/articles/PMC55871/ https://ncbi.nlm.nih.gov/pubmed/11522823 https://ncbi.nlm.nih.gov/pmc/articles/PMC55872/ https://ncbi.nlm.nih.gov/pubmed/11522827 https://ncbi.nlm.nih.gov/pmc/articles/PMC55873/ https://ncbi.nlm.nih.gov/pubmed/11522817 https://ncbi.nlm.nih.gov/pmc/articles/PMC55874/ https://ncbi.nlm.nih.gov/pubmed/11522826 https://ncbi.nlm.nih.gov/pmc/articles/PMC55875/ https://ncbi.nlm.nih.gov/pubmed/11522830 https://ncbi.nlm.nih.gov/pmc/articles/PMC55876/ https://ncbi.nlm.nih.gov/pubmed/11522820 https://ncbi.nlm.nih.gov/pmc/articles/PMC55877/ https://ncbi.nlm.nih.gov/pubmed/11522818 https://ncbi.nlm.nih.gov/pmc/articles/PMC55878/ https://ncbi.nlm.nih.gov/pubmed/11522829 https://ncbi.nlm.nih.gov/pmc/articles/PMC55879/ https://ncbi.nlm.nih.gov/pubmed/11522814 https://ncbi.nlm.nih.gov/pmc/articles/PMC55880/ https://ncbi.nlm.nih.gov/pubmed/11522841 https://ncbi.nlm.nih.gov/pmc/articles/PMC55881/ https://ncbi.nlm.nih.gov/pubmed/11522822 https://ncbi.nlm.nih.gov/pmc/articles/PMC55882/ https://ncbi.nlm.nih.gov/pubmed/11522837 https://ncbi.nlm.nih.gov/pmc/articles/PMC55883/ https://ncbi.nlm.nih.gov/pubmed/11522832 https://ncbi.nlm.nih.gov/pmc/articles/PMC55884/ https://ncbi.nlm.nih.gov/pubmed/11522840 https://ncbi.nlm.nih.gov/pmc/articles/PMC55885/ https://ncbi.nlm.nih.gov/pubmed/11522835 https://ncbi.nlm.nih.gov/pmc/articles/PMC55886/ https://ncbi.nlm.nih.gov/pubmed/11522838 https://ncbi.nlm.nih.gov/pmc/articles/PMC55887/ https://ncbi.nlm.nih.gov/pubmed/11522816 https://ncbi.nlm.nih.gov/pmc/articles/PMC55888/ https://ncbi.nlm.nih.gov/pubmed/11522819 https://ncbi.nlm.nih.gov/pmc/articles/PMC55889/ https://ncbi.nlm.nih.gov/pubmed/11522824 https://ncbi.nlm.nih.gov/pmc/articles/PMC55890/ https://ncbi.nlm.nih.gov/pubmed/11522833 https://ncbi.nlm.nih.gov/pmc/articles/PMC55891/ https://ncbi.nlm.nih.gov/pubmed/11522821 https://ncbi.nlm.nih.gov/pmc/articles/PMC55892/ https://ncbi.nlm.nih.gov/pubmed/11522831 https://ncbi.nlm.nih.gov/pmc/articles/PMC55893/ https://ncbi.nlm.nih.gov/pubmed/11522815 https://ncbi.nlm.nih.gov/pmc/articles/PMC55894/ https://ncbi.nlm.nih.gov/pubmed/11522839 https://ncbi.nlm.nih.gov/pmc/articles/PMC55895/ https://ncbi.nlm.nih.gov/pubmed/11522825 https://ncbi.nlm.nih.gov/pmc/articles/PMC55896/ https://ncbi.nlm.nih.gov/pubmed/11522836 https://ncbi.nlm.nih.gov/pmc/articles/PMC55897/ https://ncbi.nlm.nih.gov/pubmed/11522834 https://ncbi.nlm.nih.gov/pmc/articles/PMC55898/ https://ncbi.nlm.nih.gov/pubmed/11522842 https://ncbi.nlm.nih.gov/pmc/articles/PMC55899/ https://ncbi.nlm.nih.gov/pubmed/11522843 https://ncbi.nlm.nih.gov/pmc/articles/PMC55900/ https://ncbi.nlm.nih.gov/pubmed/11522844 https://ncbi.nlm.nih.gov/pmc/articles/PMC55901/ https://ncbi.nlm.nih.gov/pubmed/11522845 https://ncbi.nlm.nih.gov/pmc/articles/PMC55902/ https://ncbi.nlm.nih.gov/pubmed/11522846 https://ncbi.nlm.nih.gov/pmc/articles/PMC55903/ https://ncbi.nlm.nih.gov/pmc/articles/PMC55904/ https://ncbi.nlm.nih.gov/pubmed/11331781 https://ncbi.nlm.nih.govhttp://dx.doi.org/10.1073/pnas.101132998 https://ncbi.nlm.nih.gov/pmc/articles/PMC55905/ https://ncbi.nlm.nih.gov/pubmed/11557815 https://ncbi.nlm.nih.gov/pmc/articles/PMC55906/ https://ncbi.nlm.nih.gov/pubmed/11557819 https://ncbi.nlm.nih.gov/pmc/articles/PMC55907/ https://ncbi.nlm.nih.gov/pubmed/11557816 https://ncbi.nlm.nih.gov/pmc/articles/PMC55908/ https://ncbi.nlm.nih.gov/pubmed/11557818 https://ncbi.nlm.nih.gov/pmc/articles/PMC55909/ https://ncbi.nlm.nih.gov/pubmed/11557820 https://ncbi.nlm.nih.gov/pmc/articles/PMC55910/ https://ncbi.nlm.nih.gov/pubmed/11557812 https://ncbi.nlm.nih.gov/pmc/articles/PMC55911/ https://ncbi.nlm.nih.gov/pubmed/11557817 https://ncbi.nlm.nih.gov/pmc/articles/PMC55912/ https://ncbi.nlm.nih.gov/pubmed/11557822 https://ncbi.nlm.nih.gov/pmc/articles/PMC55913/ https://ncbi.nlm.nih.gov/pubmed/11557814 https://ncbi.nlm.nih.gov/pmc/articles/PMC55914/ https://ncbi.nlm.nih.gov/pubmed/11557810 https://ncbi.nlm.nih.gov/pmc/articles/PMC55915/ https://ncbi.nlm.nih.gov/pubmed/11557808 https://ncbi.nlm.nih.gov/pmc/articles/PMC55916/ https://ncbi.nlm.nih.gov/pubmed/11557805 https://ncbi.nlm.nih.gov/pmc/articles/PMC55917/ https://ncbi.nlm.nih.gov/pubmed/11557807 https://ncbi.nlm.nih.gov/pmc/articles/PMC55918/ https://ncbi.nlm.nih.gov/pubmed/11557806 https://ncbi.nlm.nih.gov/pmc/articles/PMC55919/ https://ncbi.nlm.nih.gov/pubmed/11557809
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Prediction of rho-independent transcriptional terminators in Escherichia coli

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