High-Quality Draft Genome Sequence of Kallotenue papyrolyticum JKG1(T) Reveals Broad Heterotrophic Capacity Focused on Carbohydrate and Amino Acid Metabolism

por Hedlund, Brian P., Murugapiran, Senthil K., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Duffy, Kecia, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, Williams, Amanda J., Cole, Jessica K., Dodsworth, Jeremy A., Woyke, Tanja
Publicado 2015

Genome Sequence of Polycyclovorans algicola Strain TG408, an Obligate Polycyclic Aromatic Hydrocarbon-Degrading Bacterium Associated with Marine Eukaryotic Phytoplankton

por Gutierrez, Tony, Thompson, Haydn F., Angelova, Angelina, Whitman, William B., Huntemann, Marcel, Copeland, Alex, Chen, Amy, Kyrpides, Nikos, Markowitz, Victor, Palaniappan, Krishnaveni, Ivanova, Natalia, Mikhailova, Natalia, Ovchinnikova, Galina, Andersen, Evan, Pati, Amrita, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Chovatia, Mansi, Daum, Chris, Shapiro, Nicole, Cantor, Michael N., Woyke, Tanja
Publicado 2015

High-Quality Draft Genome Sequence of Thermocrinis jamiesonii GBS1(T) Isolated from Great Boiling Spring, Nevada

por Ganji, Rakesh, Murugapiran, Senthil K., Ong, John C., Manoharan, Namritha, Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Duffy, Kecia, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, Woyke, Tanja, Dodsworth, Jeremy A., Hedlund, Brian P.
Publicado 2016

Near-Complete Genome Sequence of Thalassospira sp. Strain KO164 Isolated from a Lignin-Enriched Marine Sediment Microcosm

por Woo, Hannah L., O’Dell, Kaela B., Utturkar, Sagar, McBride, Kathryn R., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, Woyke, Tanja, Brown, Steven D., Hazen, Terry C.
Publicado 2016

CTCF-Mediated Functional Chromatin Interactome in Pluripotent Cells

por Handoko, Lusy, Xu, Han, Li, Guoliang, Ngan, Chew Yee, Chew, Elaine, Schnapp, Marie, Lee, Charlie Wah Heng, Ye, Chaopeng, Ping, Joanne Lim Hui, Mulawadi, Fabianus, Wong, Eleanor, Sheng, Jianpeng, Zhang, Yubo, Poh, Thompson, Chan, Chee Seng, Kunarso, Galih, Shahab, Atif, Bourque, Guillaume, Cacheux-Rataboul, Valere, Sung, Wing-Kin, Ruan, Yijun, Wei, Chia-Lin
Publicado 2011

Expression of Aspergillus niger CAZymes is determined by compositional changes in wheat straw generated by hydrothermal or ionic liquid pretreatments

por Daly, Paul, van Munster, Jolanda M., Blythe, Martin J., Ibbett, Roger, Kokolski, Matt, Gaddipati, Sanyasi, Lindquist, Erika, Singan, Vasanth R., Barry, Kerrie W., Lipzen, Anna, Ngan, Chew Yee, Petzold, Christopher J., Chan, Leanne Jade G., Pullan, Steven T., Delmas, Stéphane, Waldron, Paul R., Grigoriev, Igor V., Tucker, Gregory A., Simmons, Blake A., Archer, David B.
Publicado 2017

Mapping the Global Chromatin Connectivity Network for Sox2 Function in Neural Stem Cell Maintenance

por Bertolini, Jessica A., Favaro, Rebecca, Zhu, Yanfen, Pagin, Miriam, Ngan, Chew Yee, Wong, Chee Hong, Tjong, Harianto, Vermunt, Marit W., Martynoga, Ben, Barone, Cristiana, Mariani, Jessica, Cardozo, Marcos Julián, Tabanera, Noemi, Zambelli, Federico, Mercurio, Sara, Ottolenghi, Sergio, Robson, Paul, Creyghton, Menno P., Bovolenta, Paola, Pavesi, Giulio, Guillemot, Francois, Nicolis, Silvia K., Wei, Chia-Lin
Publicado 2019

Succession of physiological stages hallmarks the transcriptomic response of the fungus Aspergillus niger to lignocellulose

por van Munster, Jolanda M., Daly, Paul, Blythe, Martin J., Ibbett, Roger, Kokolski, Matt, Gaddipati, Sanyasi, Lindquist, Erika, Singan, Vasanth R., Barry, Kerrie W., Lipzen, Anna, Ngan, Chew Yee, Petzold, Christopher J., Chan, Leanne Jade G., Arvas, Mikko, Raulo, Roxane, Pullan, Steven T., Delmas, Stéphane, Grigoriev, Igor V., Tucker, Gregory A., Simmons, Blake A., Archer, David B.
Publicado 2020

High-Quality Draft Genomes from Thermus caliditerrae YIM 77777 and T. tengchongensis YIM 77401, Isolates from Tengchong, China

por Mefferd, Chrisabelle C., Zhou, En-Min, Yu, Tian-Tian, Ming, Hong, Murugapiran, Senthil K., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Duffy, Kecia, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, Williams, Amanda J., Woyke, Tanja, Li, Wen-Jun, Hedlund, Brian P.
Publicado 2016

Application of Long Sequence Reads To Improve Genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7

por Utturkar, Sagar M., Bayer, Edward A., Borovok, Ilya, Lamed, Raphael, Hurt, Richard A., Land, Miriam L., Klingeman, Dawn M., Elias, Dwayne, Zhou, Jizhong, Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, Woyke, Tanja, Brown, Steven D.
Publicado 2016

Single-cell multimodal glioma analyses identify epigenetic regulators of cellular plasticity and environmental stress response

por Johnson, Kevin C., Anderson, Kevin J., Courtois, Elise T., Gujar, Amit D., Barthel, Floris P., Varn, Frederick S., Luo, Diane, Seignon, Martine, Yi, Eunhee, Kim, Hoon, Estecio, Marcos RH, Zhao, Dacheng, Tang, Ming, Navin, Nicholas E., Maurya, Rahul, Ngan, Chew Yee, Verburg, Niels, de Witt Hamer, Philip C, Bulsara, Ketan, Samuels, Michael L., Das, Sunit, Robson, Paul, Verhaak, Roel GW
Publicado 2021

High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409(T) with an incomplete denitrification pathway

por Zhou, En-Min, Murugapiran, Senthil K., Mefferd, Chrisabelle C., Liu, Lan, Xian, Wen-Dong, Yin, Yi-Rui, Ming, Hong, Yu, Tian-Tian, Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Spunde, Alexander, Kyrpides, Nikos, Woyke, Tanja, Li, Wen-Jun, Hedlund, Brian P.
Publicado 2016

Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil

por Rice, Marlen C., Norton, Jeanette M., Valois, Frederica, Bollmann, Annette, Bottomley, Peter J., Klotz, Martin G., Laanbroek, Hendrikus J., Suwa, Yuichi, Stein, Lisa Y., Sayavedra-Soto, Luis, Woyke, Tanja, Shapiro, Nicole, Goodwin, Lynne A., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Kyrpides, Nikos, Varghese, Neha, Mikhailova, Natalia, Markowitz, Victor, Palaniappan, Krishna, Ivanova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris
Publicado 2016

LONGITUDINAL MOLECULAR TRAJECTORIES OF DIFFUSE GLIOMA IN ADULTS

por Barthel, Floris P., Johnson, Kevin C., Varn, Frederick S., Moskalik, Anzhela D., Tanner, Georgette, Kocakavuk, Emre, Anderson, Kevin J., Abiola, Olajide, Aldape, Kenneth, Alfaro, Kristin D., Alpar, Donat, Amin, Samirkumar B., Ashley, David M., Bandopadhayay, Pratiti, Barnholtz-Sloan, Jill S., Beroukhim, Rameen, Bock, Christoph, Brastianos, Priscilla K., Brat, Daniel J., Brodbelt, Andrew R., Bruns, Alexander F., Bulsara, Ketan R., Chakrabarty, Aruna, Chakravarti, Arnab, Chuang, Jeffrey H., Claus, Elizabeth B., Cochran, Elizabeth J., Connelly, Jennifer, Costello, Joseph F., Finocchiaro, Gaetano, Fletcher, Michael N., French, Pim J., Gan, Hui K., Gilbert, Mark R., Gould, Peter V., Grimmer, Matthew R., Iavarone, Antonio, Ismail, Azzam, Jenkinson, Michael D., Khasraw, Mustafa, Kim, Hoon, Kouwenhoven, Mathilde C.M., LaViolette, Peter S., Li, Meihong, Lichter, Peter, Ligon, Keith L., Lowman, Allison K., Malta, Tathiane M., Mazor, Tali, McDonald, Kerrie L., Molinaro, Annette M., Nam, Do-Hyun, Nayyar, Naema, Ng, Ho Keung, Ngan, Chew Yee, Niclou, Simone, P., Niers, Johanna M., Noushmehr, Houtan, Noorbakhsh, Javad, Ormond, D. Ryan, Park, Chul-Kee, Poisson, Laila M., Rabadan, Raul, Radlwimmer, Bernhard, Rao, Ganesh, Reifenberger, Guido, Sa, Jason K., Schuster, Michael, Shaw, Brian L., Short, Susan C., Sillevis Smitt, Peter A., Sloan, Andrew E., Smits, Marion, Suzuki, Hiromichi, Tabatabai, Ghazaleh, Van Meir, Erwin G., Watts, Colin, Weller, Michael, Wesseling, Pieter, Westerman, Bart A., Widhalm, Georg, Woehrer, Adelheid, Alfred Yung, W.K., Zadeh, Gelareh, Huse, Jason T., de Groot, John F., Stead, Lucy F., Verhaak, Roel G.W.
Publicado 2019

Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus

por de Vries, Ronald P., Riley, Robert, Wiebenga, Ad, Aguilar-Osorio, Guillermo, Amillis, Sotiris, Uchima, Cristiane Akemi, Anderluh, Gregor, Asadollahi, Mojtaba, Askin, Marion, Barry, Kerrie, Battaglia, Evy, Bayram, Özgür, Benocci, Tiziano, Braus-Stromeyer, Susanna A., Caldana, Camila, Cánovas, David, Cerqueira, Gustavo C., Chen, Fusheng, Chen, Wanping, Choi, Cindy, Clum, Alicia, dos Santos, Renato Augusto Corrêa, Damásio, André Ricardo de Lima, Diallinas, George, Emri, Tamás, Fekete, Erzsébet, Flipphi, Michel, Freyberg, Susanne, Gallo, Antonia, Gournas, Christos, Habgood, Rob, Hainaut, Matthieu, Harispe, María Laura, Henrissat, Bernard, Hildén, Kristiina S., Hope, Ryan, Hossain, Abeer, Karabika, Eugenia, Karaffa, Levente, Karányi, Zsolt, Kraševec, Nada, Kuo, Alan, Kusch, Harald, LaButti, Kurt, Lagendijk, Ellen L., Lapidus, Alla, Levasseur, Anthony, Lindquist, Erika, Lipzen, Anna, Logrieco, Antonio F., MacCabe, Andrew, Mäkelä, Miia R., Malavazi, Iran, Melin, Petter, Meyer, Vera, Mielnichuk, Natalia, Miskei, Márton, Molnár, Ákos P., Mulé, Giuseppina, Ngan, Chew Yee, Orejas, Margarita, Orosz, Erzsébet, Ouedraogo, Jean Paul, Overkamp, Karin M., Park, Hee-Soo, Perrone, Giancarlo, Piumi, Francois, Punt, Peter J., Ram, Arthur F. J., Ramón, Ana, Rauscher, Stefan, Record, Eric, Riaño-Pachón, Diego Mauricio, Robert, Vincent, Röhrig, Julian, Ruller, Roberto, Salamov, Asaf, Salih, Nadhira S., Samson, Rob A., Sándor, Erzsébet, Sanguinetti, Manuel, Schütze, Tabea, Sepčić, Kristina, Shelest, Ekaterina, Sherlock, Gavin, Sophianopoulou, Vicky, Squina, Fabio M., Sun, Hui, Susca, Antonia, Todd, Richard B., Tsang, Adrian, Unkles, Shiela E., van de Wiele, Nathalie, van Rossen-Uffink, Diana, Oliveira, Juliana Velasco de Castro, Vesth, Tammi C., Visser, Jaap, Yu, Jae-Hyuk, Zhou, Miaomiao, Andersen, Mikael R., Archer, David B., Baker, Scott E., Benoit, Isabelle, Brakhage, Axel A., Braus, Gerhard H., Fischer, Reinhard, Frisvad, Jens C., Goldman, Gustavo H., Houbraken, Jos, Oakley, Berl, Pócsi, István, Scazzocchio, Claudio, Seiboth, Bernhard, vanKuyk, Patricia A., Wortman, Jennifer, Dyer, Paul S., Grigoriev, Igor V.
Publicado 2017