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Start Over Author "Kim, Jihye" Publisher biomed central
31 results on '"Kim, Jihye"'

11. Multiomics profiling of primary lung cancers and distant metastases reveals immunosuppression as a common characteristic of tumor cells with metastatic plasticity

Author

Lee, Won-Chul, Reuben, Alexandre, Hu, Xin, McGranahan, Nicholas, Chen, Runzhe, Jalali, Ali, Negrao, Marcelo V., Hubert, Shawna M., Tang, Chad, Wu, Chia-Chin, Lucas, Anthony San, Roh, Whijae, Suda, Kenichi, Kim, Jihye, Tan, Aik-Choon, Peng, David H., Lu, Wei, Tang, Ximing, Chow, Chi-Wan, Fujimoto, Junya, Behrens, Carmen, Kalhor, Neda, Fukumura, Kazutaka, Coyle, Marcus, Thornton, Rebecca, Gumbs, Curtis, Li, Jun, Wu, Chang-Jiun, Little, Latasha, Roarty, Emily, Song, Xingzhi, Lee, J. Jack, Sulman, Erik P., Rao, Ganesh, Swisher, Stephen, Diao, Lixia, Wang, Jing, Heymach, John V., Huse, Jason T., Scheet, Paul, Wistuba, Ignacio I., Gibbons, Don L., Futreal, P. Andrew, Zhang, Jianhua, Gomez, Daniel, and Zhang, Jianjun

Published
2020
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15. Pharmacogenomic analysis of patient-derived tumor cells in gynecologic cancers

Author

Sa, Jason K., Hwang, Jae Ryoung, Cho, Young-Jae, Ryu, Ji-Yoon, Choi, Jung-Joo, Jeong, Soo Young, Kim, Jihye, Kim, Myeong Seon, Paik, E. Sun, Lee, Yoo-Young, Choi, Chel Hun, Kim, Tae-Joong, Kim, Byoung-Gie, Bae, Duk-Soo, Lee, Yeri, Her, Nam-Gu, Shin, Yong Jae, Cho, Hee Jin, Kim, Ja Yeon, Seo, Yun Jee, Koo, Harim, Oh, Jeong-Woo, Lee, Taebum, Kim, Hyun-Soo, Song, Sang Yong, Bae, Joon Seol, Park, Woong-Yang, Han, Hee Dong, Ahn, Hyung Jun, Sood, Anil K., Rabadan, Raul, Lee, Jin-Ku, Nam, Do-Hyun, and Lee, Jeong-Won

Published
2019
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22. Eip74EF is a dominant modifier for ALS-FTD-linked VCPR152H phenotypes in the Drosophila eye model.

Author

Chalmers, Madeleine R., Kim, JiHye, and Kim, Nam Chul

Subjects
*AMYOTROPHIC lateral sclerosis, *DROSOPHILA, *SPINOCEREBELLAR ataxia, *PHENOTYPES, *FRONTOTEMPORAL dementia
Abstract

Objectives: In 2012, Liu et al. reported that miR-34 is an age-related miRNA regulating age-associated events and long-term brain integrity in Drosophila. They demonstrated that modulating miR-34 and its downstream target, Eip74EF, showed beneficial effects on an age-related disease using a Drosophila model of Spinocerebellar ataxia type 3 expressing SCA3trQ78. These results imply that miR-34 could be a general genetic modifier and therapeutic candidate for age-related diseases. Thus, the goal of this study was to examine the effect of miR-34 and Eip47EF on another age-related Drosophila disease model. Results: Using a Drosophila eye model expressing mutant Drosophila VCP (dVCP) that causes amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD), or multisystem proteinopathy (MSP), we demonstrated that abnormal eye phenotypes generated by dVCPR152H were rescued by Eip74EF siRNA expression. Contrary to our expectations, miR-34 overexpression alone in the eyes with GMR-GAL4 resulted in complete lethality due to the leaky expression of GMR-GAL4 in other tissues. Interestingly, when miR-34 was co-expressed with dVCPR152H, a few survivors were produced; however, their eye degeneration was greatly exacerbated. Our data indicate that, while confirming that the downregulation of Eip74EF is beneficial to the dVCPR152HDrosophila eye model, the high expression level of miR-34 is actually toxic to the developing flies and the role of miR-34 in dVCPR152H-mediated pathogenesis is inconclusive in the GMR-GAL4 eye model. Identifying the transcriptional targets of Eip74EF might provide valuable insights into diseases caused by mutations in VCP such as ALS, FTD, and MSP. [ABSTRACT FROM AUTHOR]

Published
2023
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23. World Congress Integrative Medicine & Health 2017: Part one

Author

Brinkhaus, Benno, Falkenberg, Torkel, Haramati, Aviad, Willich, Stefan N, Briggs, Josephine P, Willcox, Merlin, Linde, Klaus, Theorell, Töres, Wong, Lisa M, Dusek, Jeffrey, Wu, Darong, Eisenberg, David, Berger, Bettina, Kemper, Kathi, Schröer, Beate, Klein, Hedda, Ferreri, Rosaria, Kaplan, Gary, Matthes, Harald, Rotter, Gabriele, Schiff, Elad, Arnon, Zahi, Hahn, Eckhard, Luberto, Christina M, Martin, David, Schwarz, Silke, Tauschel, Diethard, Flower, Andrew, Gramminger, Harsha, Gupta, Hedwig H, Gupta, S. N, Kerckhoff, Annette, Kessler, Christian S, Michalsen, Andreas, Kim, Eun S, Jang, Eun H, Kim, Rana, Jan, Sae B, Mittwede, Martin, Mohme, Wiebke, Arye, Eran, Bonucci, Massimo, Saad, Bashar, Breitkreuz, Thomas, Rossi, Elio, Kebudi, Rejin, Daher, Michel, Razaq, Samaher, Gafer, Nahla, Nimri, Omar, Hablas, Mohamed, Kienle, Gunver S, Samuels, Noah, Silbermann, Michael, Bandelin, Lena, Lang, Anna-Lena, Wartner, Eva, Holtermann, Christoph, Binstock, Maxwell, Riebau, Robert, Mujkanovic, Edin, Cramer, Holger, Lauche, Romy, Michalsen, Andres, Ward, Lesley, Irnich, Dominik, Stör, Wolfram, Burnstock, Geoffrey, Schaible, Hans-Georg, Ots, Thomas, Langhorst, Jost, Sundberg, Tobias, Amarell, Catherina, Anheyer, Melanie, Eckert, Marion, Ogal, Mercedes, Schönauer, Annette, Reisenberger, Birgit, Brand, Bernhard, Anheyer, Dennis, Dobos, Gustav, Kroez, Matthias, Ammendola, Aldo, Mao, Jun J, Witt, Claudia, Yang, Yufei, Oritz, Miriam, Horneber, Markus, Voiß, Petra, Rosenstiel, Alexandra, Amarell, Catharina, Schad, Friedemann, Schläppi, Marc, Kröz, Matthias, Büssing, Arndt, Sela, Gil, Avshalomov, David, Attias, Samuel, Cotton, Sian, Jong, Miek, Jong, Mats, Scheffer, Christian, Edelhäuser, Friedrich, AlBedah, Abdullah, Lee, Myeong S, Khalil, Mohamed, Ogawa, Keiko, Motoo, Yoshiharu, Arimitsu, Junsuke, Ogawa, Masao, Shimizu, Genki, Stange, Rainer, Kraft, Karin, Kuchta, Kenny, Watanabe, Kenji, Bonin, D, Gruber, Harald, Koch, Sabine, Pohlmann, Urs, Caldwell, Christine, Krantz, Barbara, Kortum, Ria, Martin, Lily, Wieland, Lisa S, Kligler, Ben, Fogerite, Susan, Zhang, Yuqing, Riva, John J, Lumpkin, Michael, Ratner, Emily, Ping, Liu, Jian, Pei, Hamme, Gesa-Meyer, Mao, Xiaosong, Chouping, Han, Schröder, Sven, Hummelsberger, Josef, Wullinger, Michael, Brodzky, Marc, Zalpour, Christoff, Langley, Julia, Weber, Wendy, Mudd, Lanay M, Wayne, Peter, Witt, Clauda, Weidenhammer, Wolfgang, Fønnebø, Vinjar, Boon, Heather, Steel, Amie, Bugarcic, Andrea, Rangitakatu, Melisa, Adams, Jon, Sibbritt, David, Wardle, Jon, Leach, Matthew, Schloss, Janet, Dieze, Helene, Ijaz, Nadine, Heinrich, Michael, Lewith, George, Graz, Bertrand, Adam, Daniela, Grabenhenrich, Linus, Ortiz, Miriam, Binting, Sylvia, Reinhold, Thomas, Andermo, Susanne, Nordberg, Johanna H, Arman, Maria, Bhasin, Manoj, Fan, Xueyi, Libermann, Towia, Fricchione, Gregory, Denninger, John, Benson, Herbert, Martin, David D, Boers, Inge, Vlieger, Arine, Teut, Michael, Ullmann, Alexander, Lotz, Fabian, Roll, Stephanie, Canella, Claudia, Mikolasek, Michael, Rostock, Matthias, Beyer, Jörg, Guckenberger, Matthias, Jenewein, Josef, Linka, Esther, Six, Claudia, Stoll, Sarah, Stupp, Roger, Witt, Claudia M, Chuang, Elisabeth, McKee, Melissa D, Klose, Petra, Lange, Silke, Chung, Vincent C H, Wong, Hoi L C, Wu, Xin Y, Wen, Grace Y G, Ho, Robin S T, Ching, Jessica Y L, Wu, Justin C Y, Coakley, Amanda, Flanagan, Jane, Annese, Christine, Empoliti, Joanne, Gao, Zishan, Liu, Xugang, Yu, Shuguang, Yan, Xianzhong, Liang, Fanrong, Hohmann, Christoph D, Steckhan, Nico, Ostermann, Thomas, Paetow, Arion, Hoff, Evelyn, Hu, Xiao-Yang, Wu, Ruo-Han, Logue, Martin, Blonde, Clara, Lai, Lily Y, Stuart, Beth, Fei, Yu-Tong, Moore, Michael, Liu, Jian-Ping, Jeitler, Michael, Zillgen, Hannah, Högl, Manuel, Stöckigt, Barbara, Seifert, Georg, Kessler, Christian, Khadivzadeh, Talat, Bashtian, Maryam H, Aval, Shapour B, Esmaily, Habibollah, Kim, Jihye, Kim, Keun H, Klocke, Carina, Joos, Stefanie, Koshak, Abdulrahman, Wie, Li, Koshak, Emad, Wali, Siraj, Alamoudi, Omer, Demerdash, Abdulrahman, Qutub, Majdy, Pushparaj, Peter, Kruse, Sigrid, Fischer, Isabell, Tremel, Nadine, Rosenecker, Joseph, Leung, Brenda, Takeda, Wendy, Liang, Ning, Feng, Xue, Liu, Jian-ping, Cao, Hui-juan, Shinday, Nina, Philpotts, Lisa, Park, Elyse, Fricchione, Gregory L, Yeh, Gloria, Munk, Niki, Zakeresfahani, Arash, Foote, Trevor R, Ralston, Rick, Boulanger, Karen, Özbe, Dominik, Gräßel, Elmar, Luttenberger, Katharina, Pendergrass, Anna, Pach, Daniel, Strobl, Judit, Chang, Yinhui, Pasura, Laura, Liu, Bin, Jäger, Sven F, Loerch, Ronny, Jin, Li, Icke, Katja, Shi, Xuemin, Paul, Friedemann, Rütz, Michaela, Lynen, Andreas, Schömitz, Meike, Vahle, Maik, Salomon, Nir, Lang, Alon, Lahat, Adi, Kopylov, Uri, Horin, Shomron, Noi, Ofir, Avidan, Benjamin, Elyakim, Rami, Gamus, Dorit, NG, Siew, Chang, Jessica, Wu, Justin, Kaimiklotis, John, Schumann, Dania, Buttó, Ludovica, Haller, Dirk, Smith, Caroline, Lacey, Sheryl, Chapman, Michael, Ratcliffe, Julie, Johnson, Neil, Lyttleton, Jane, Boothroyd, Clare, Fahey, Paul, Tjaden, Bram, Vliet, Marja, Wietmarschen, Herman, Tröger, Wilfried, Vuolanto, Pia, Aarva, Paulina, Sorsa, Minna, Helin, Kaija, Wenzel, Claudia, Zoderer, Iris, Pammer, Patricia, Simon, Patrick, Tucek, Gerhard, Wode, Kathrin, Henriksson, Roger, Sharp, Lena, Stoltenberg, Anna, ying, Yang, Wang, Li-qiong, Li, Jin-gen, Wang, Ying, Balneaves, Lynda, Capler, Rielle, Bocci, Chiara, Guffi, Marta, Paolini, Marina, Meaglia, Ilaria, Porcu, Patrizia, Ivaldi, Giovanni B, Dragan, Simona, Bucuras, Petru, Pah, Ana M, Petrescu, Marius, Buleu, Florina, Stoichescu, Gheorghe, Christodorescu, Ruxandra, Kao, Lan, Cho, Yumin, Klafke, Nadja, Mahler, Cornelia, von Hagens, Cornelia, Uhlmann, Lorenz, Bentner, Martina, Schneeweiß, Andreas, Mueller, Andreas, Szecsenyi, Joachim, Neri, Isabella, Schnabel, Katharina, Cree, Margit, Suhr, Ralf, Baccetti, Sonia, Firenzuoli, Fabio, Monechi, Maria V, Stefano, Mariella, Amunni, Gianni, Wong, Wendy, Chen, Bingzhong, Amri, Hakima, Kotlyanskaya, Lucy, Anderson, Belinda, Evans, Roni, Marantz, Paul, Bradley, Ryan, LaForce, Cathryn, Zwickey, Heather, Kligler, Benjamin, Brooks, Audrey, Kreitzer, Mary J, Lebensohn, Patricia, Goldblatt, Elisabeth, Esmel, Neus, Herrera, Maria, Jocham, Alexandra, Berberat, Pascal O, Schneider, Antonius, Masetti, Morgana, Murakozy, Henriette, Agdal, Rita, Atarzadeh, Fatemeh, Jaladat, Amir M, Hoseini, Leila, Amini, Fatemeh, Bai, Chen, Liu, Tiegang, Zheng, Zian, Wan, Yuxiang, Xu, Jingnan, Wang, Xuan, Yu, He, Gu, Xiaohong, Daneshfard, Babak, Nimrouzi, Majid, Tafazoli, Vahid, Alorizi, Seyed M E, Saghebi, Seyed A, Fattahi, Mohammad R, Salehi, Alireza, Rezaeizadeh, Hossein, Zarshenas, Mohammad M, Fox, Kealoha, Hughes, John, Kostanjsek, Nenad, Espinosa, Stéphane, Fisher, Peter, Latif, Abdul, Lefeber, Donald, Paske, William, Öztürk, Ali Ö, Öztürk, Gizemnur, Tissing, Wim, Naafs, Marianne, Busch, Martine, Sanaye, Mohammad R, Dräger, Kilian, Leininger, Brent, Shafto, Kate, Breen, Jenny, Wüst, Ana P, Puigmartí, Carolina, Dongen, Martien, Dagnelie, Pieter, Thijs, Carel, White, Shelley, Wiesener, Solveig, Salamonsen, Anita, Stub, Trine, Abanades, Sergio, Blanco, Mar, Masllorens, Laia, Sala, Roser, Ahnoumy, Shafekah, Han, Dongwoon, He, Luzhu, Kim, Ha Y, Choi, Da, Alræk, Terje, Kristoffersen, Agnete, Sceidt, Christel, Bruset, Stig, Musial, Frauke, Saha, Felix J, Haller, Heidemarie, Azizi, Hoda, Khadem, Nayereh, Hassanzadeh, Malihe, Estiri, Nazanin, Azizi, Hamideh, Tavassoli, Fatemeh, Lotfalizadeh, Marzieh, Zabihi, Reza, Shabestari, Mahmoud M, Paeizi, Reza, Azari, Masoumeh A, Taghanaki, Hamidreza, Baars, Erik, Bruin, Anja, Ponstein, Anne, Segantini, Sergio, Voller, Fabio, Barth, Jürgen, Kern, Alexandra, Lüthi, Sebastian, Zieger, Anja, Otto, Fabius, Beccia, Ariel, Dunlap, Corina, Courneene, Brendan, Bedregal, Paula, Passi, Alvaro, Rodríguez, Alfredo, Chang, Mayling, Gutiérrez, Soledad, Beissner, Florian, Preibisch, Christine, Arau, Annemarie, Popovici, Roxana, Meissner, Karin, Beljanski, Sylvie, Belland, Laura, Reyes, Laura, Hwang, Ula, Sethe, Dominik, Hilgard, Dörte, Heusser, Peter, Bishop, Felicity, Abbadey, Miznah, Bradbury, Katherine, Carnes, Dawn, Dimitrov, Borislav, Fawkes, Carol, Foster, Jo, MacPherson, Hugh, Roberts, Lisa, Yardley, Lucy, Holmes, Michelle, Little, Paul, Cooper, Cyrus, Bogani, Patrizia, Maggini, Valentina, Gallo, Eugenia, Miceli, Elisangela, Biffi, Sauro, Mengoni, Alessio, Fani, Renato, Guendling, Nadine, Guendling, Peter W, Bronfort, Gert, Haas, Mitch, Schulz, Craig, Bu, Xiangwei, Wang, J., Fang, T., Shen, Z., He, Y., Zhang, X., Zhang, Zhengju, Wang, Dali, Meng, Fengxian, Baumann, Klaus, Frick, Eckhard, Jacobs, Christoph, Grünther, Ralph-Achim, Lötzke, Désirée, Jung, Sonny, Recchia, Daniela R, Robens, Sibylle, Stankewitz, Josephin, Jeitler, Mika, Cheon, Chunhoo, Jang, Bo H, Ko, Seong G, Huang, Ching W, Sasaki, Yui, Ko, Youme, Cheshire, Anna, Ridge, Damien, Peters, David, Panagioti, Maria, Simon, Chantal, Cho, Hyun J, Choi, Soo J, Jung, Young S, Im, Hyea B, Cooley, Kieran, Simmons, Laura, Wasson, Rachel, Kraemer, Kristen, Sears, Richard, Hueber, Carly, Derk, Gwendolyn, Lill, JR, An, Ruopeng, Steinberg, Lois, Rodriguez, Lourdes D, Fuente, Francisca G, Vega, Miguel, Román, Keyla, Ruiz, Jonatan, Villanueva, Irene, Fuente, Francisca, Guerrero, Fanny, Castillo, Noelia, Saez, Gualberto, Jimenez, José I, Gomez, Olga, Muñoz, Luis, Diez, Camino, Dicen, Demijon, Diezel, Helene, Frawley, Jane, Broom, Alex, Dong, Fei, Ma, Xueyan, Yan, Liyi, Wu, Liqun, Ma, Jiaju, Zhen, Jianhua, Dubois, Julie, Rodondi, Pierre-Yves, Schwartze, Sophia, Trapp, Barbara, Cysarz, Dirk, Brinkhaus, Benno, Falkenberg, Torkel, Haramati, Aviad, Willich, Stefan N, Briggs, Josephine P, Willcox, Merlin, Linde, Klaus, Theorell, Töres, Wong, Lisa M, Dusek, Jeffrey, Wu, Darong, Eisenberg, David, Berger, Bettina, Kemper, Kathi, Schröer, Beate, Klein, Hedda, Ferreri, Rosaria, Kaplan, Gary, Matthes, Harald, Rotter, Gabriele, Schiff, Elad, Arnon, Zahi, Hahn, Eckhard, Luberto, Christina M, Martin, David, Schwarz, Silke, Tauschel, Diethard, Flower, Andrew, Gramminger, Harsha, Gupta, Hedwig H, Gupta, S. N, Kerckhoff, Annette, Kessler, Christian S, Michalsen, Andreas, Kim, Eun S, Jang, Eun H, Kim, Rana, Jan, Sae B, Mittwede, Martin, Mohme, Wiebke, Arye, Eran, Bonucci, Massimo, Saad, Bashar, Breitkreuz, Thomas, Rossi, Elio, Kebudi, Rejin, Daher, Michel, Razaq, Samaher, Gafer, Nahla, Nimri, Omar, Hablas, Mohamed, Kienle, Gunver S, Samuels, Noah, Silbermann, Michael, Bandelin, Lena, Lang, Anna-Lena, Wartner, Eva, Holtermann, Christoph, Binstock, Maxwell, Riebau, Robert, Mujkanovic, Edin, Cramer, Holger, Lauche, Romy, Michalsen, Andres, Ward, Lesley, Irnich, Dominik, Stör, Wolfram, Burnstock, Geoffrey, Schaible, Hans-Georg, Ots, Thomas, Langhorst, Jost, Sundberg, Tobias, Amarell, Catherina, Anheyer, Melanie, Eckert, Marion, Ogal, Mercedes, Schönauer, Annette, Reisenberger, Birgit, Brand, Bernhard, Anheyer, Dennis, Dobos, Gustav, Kroez, Matthias, Ammendola, Aldo, Mao, Jun J, Witt, Claudia, Yang, Yufei, Oritz, Miriam, Horneber, Markus, Voiß, Petra, Rosenstiel, Alexandra, Amarell, Catharina, Schad, Friedemann, Schläppi, Marc, Kröz, Matthias, Büssing, Arndt, Sela, Gil, Avshalomov, David, Attias, Samuel, Cotton, Sian, Jong, Miek, Jong, Mats, Scheffer, Christian, Edelhäuser, Friedrich, AlBedah, Abdullah, Lee, Myeong S, Khalil, Mohamed, Ogawa, Keiko, Motoo, Yoshiharu, Arimitsu, Junsuke, Ogawa, Masao, Shimizu, Genki, Stange, Rainer, Kraft, Karin, Kuchta, Kenny, Watanabe, Kenji, Bonin, D, Gruber, Harald, Koch, Sabine, Pohlmann, Urs, Caldwell, Christine, Krantz, Barbara, Kortum, Ria, Martin, Lily, Wieland, Lisa S, Kligler, Ben, Fogerite, Susan, Zhang, Yuqing, Riva, John J, Lumpkin, Michael, Ratner, Emily, Ping, Liu, Jian, Pei, Hamme, Gesa-Meyer, Mao, Xiaosong, Chouping, Han, Schröder, Sven, Hummelsberger, Josef, Wullinger, Michael, Brodzky, Marc, Zalpour, Christoff, Langley, Julia, Weber, Wendy, Mudd, Lanay M, Wayne, Peter, Witt, Clauda, Weidenhammer, Wolfgang, Fønnebø, Vinjar, Boon, Heather, Steel, Amie, Bugarcic, Andrea, Rangitakatu, Melisa, Adams, Jon, Sibbritt, David, Wardle, Jon, Leach, Matthew, Schloss, Janet, Dieze, Helene, Ijaz, Nadine, Heinrich, Michael, Lewith, George, Graz, Bertrand, Adam, Daniela, Grabenhenrich, Linus, Ortiz, Miriam, Binting, Sylvia, Reinhold, Thomas, Andermo, Susanne, Nordberg, Johanna H, Arman, Maria, Bhasin, Manoj, Fan, Xueyi, Libermann, Towia, Fricchione, Gregory, Denninger, John, Benson, Herbert, Martin, David D, Boers, Inge, Vlieger, Arine, Teut, Michael, Ullmann, Alexander, Lotz, Fabian, Roll, Stephanie, Canella, Claudia, Mikolasek, Michael, Rostock, Matthias, Beyer, Jörg, Guckenberger, Matthias, Jenewein, Josef, Linka, Esther, Six, Claudia, Stoll, Sarah, Stupp, Roger, Witt, Claudia M, Chuang, Elisabeth, McKee, Melissa D, Klose, Petra, Lange, Silke, Chung, Vincent C H, Wong, Hoi L C, Wu, Xin Y, Wen, Grace Y G, Ho, Robin S T, Ching, Jessica Y L, Wu, Justin C Y, Coakley, Amanda, Flanagan, Jane, Annese, Christine, Empoliti, Joanne, Gao, Zishan, Liu, Xugang, Yu, Shuguang, Yan, Xianzhong, Liang, Fanrong, Hohmann, Christoph D, Steckhan, Nico, Ostermann, Thomas, Paetow, Arion, Hoff, Evelyn, Hu, Xiao-Yang, Wu, Ruo-Han, Logue, Martin, Blonde, Clara, Lai, Lily Y, Stuart, Beth, Fei, Yu-Tong, Moore, Michael, Liu, Jian-Ping, Jeitler, Michael, Zillgen, Hannah, Högl, Manuel, Stöckigt, Barbara, Seifert, Georg, Kessler, Christian, Khadivzadeh, Talat, Bashtian, Maryam H, Aval, Shapour B, Esmaily, Habibollah, Kim, Jihye, Kim, Keun H, Klocke, Carina, Joos, Stefanie, Koshak, Abdulrahman, Wie, Li, Koshak, Emad, Wali, Siraj, Alamoudi, Omer, Demerdash, Abdulrahman, Qutub, Majdy, Pushparaj, Peter, Kruse, Sigrid, Fischer, Isabell, Tremel, Nadine, Rosenecker, Joseph, Leung, Brenda, Takeda, Wendy, Liang, Ning, Feng, Xue, Liu, Jian-ping, Cao, Hui-juan, Shinday, Nina, Philpotts, Lisa, Park, Elyse, Fricchione, Gregory L, Yeh, Gloria, Munk, Niki, Zakeresfahani, Arash, Foote, Trevor R, Ralston, Rick, Boulanger, Karen, Özbe, Dominik, Gräßel, Elmar, Luttenberger, Katharina, Pendergrass, Anna, Pach, Daniel, Strobl, Judit, Chang, Yinhui, Pasura, Laura, Liu, Bin, Jäger, Sven F, Loerch, Ronny, Jin, Li, Icke, Katja, Shi, Xuemin, Paul, Friedemann, Rütz, Michaela, Lynen, Andreas, Schömitz, Meike, Vahle, Maik, Salomon, Nir, Lang, Alon, Lahat, Adi, Kopylov, Uri, Horin, Shomron, Noi, Ofir, Avidan, Benjamin, Elyakim, Rami, Gamus, Dorit, NG, Siew, Chang, Jessica, Wu, Justin, Kaimiklotis, John, Schumann, Dania, Buttó, Ludovica, Haller, Dirk, Smith, Caroline, Lacey, Sheryl, Chapman, Michael, Ratcliffe, Julie, Johnson, Neil, Lyttleton, Jane, Boothroyd, Clare, Fahey, Paul, Tjaden, Bram, Vliet, Marja, Wietmarschen, Herman, Tröger, Wilfried, Vuolanto, Pia, Aarva, Paulina, Sorsa, Minna, Helin, Kaija, Wenzel, Claudia, Zoderer, Iris, Pammer, Patricia, Simon, Patrick, Tucek, Gerhard, Wode, Kathrin, Henriksson, Roger, Sharp, Lena, Stoltenberg, Anna, ying, Yang, Wang, Li-qiong, Li, Jin-gen, Wang, Ying, Balneaves, Lynda, Capler, Rielle, Bocci, Chiara, Guffi, Marta, Paolini, Marina, Meaglia, Ilaria, Porcu, Patrizia, Ivaldi, Giovanni B, Dragan, Simona, Bucuras, Petru, Pah, Ana M, Petrescu, Marius, Buleu, Florina, Stoichescu, Gheorghe, Christodorescu, Ruxandra, Kao, Lan, Cho, Yumin, Klafke, Nadja, Mahler, Cornelia, von Hagens, Cornelia, Uhlmann, Lorenz, Bentner, Martina, Schneeweiß, Andreas, Mueller, Andreas, Szecsenyi, Joachim, Neri, Isabella, Schnabel, Katharina, Cree, Margit, Suhr, Ralf, Baccetti, Sonia, Firenzuoli, Fabio, Monechi, Maria V, Stefano, Mariella, Amunni, Gianni, Wong, Wendy, Chen, Bingzhong, Amri, Hakima, Kotlyanskaya, Lucy, Anderson, Belinda, Evans, Roni, Marantz, Paul, Bradley, Ryan, LaForce, Cathryn, Zwickey, Heather, Kligler, Benjamin, Brooks, Audrey, Kreitzer, Mary J, Lebensohn, Patricia, Goldblatt, Elisabeth, Esmel, Neus, Herrera, Maria, Jocham, Alexandra, Berberat, Pascal O, Schneider, Antonius, Masetti, Morgana, Murakozy, Henriette, Agdal, Rita, Atarzadeh, Fatemeh, Jaladat, Amir M, Hoseini, Leila, Amini, Fatemeh, Bai, Chen, Liu, Tiegang, Zheng, Zian, Wan, Yuxiang, Xu, Jingnan, Wang, Xuan, Yu, He, Gu, Xiaohong, Daneshfard, Babak, Nimrouzi, Majid, Tafazoli, Vahid, Alorizi, Seyed M E, Saghebi, Seyed A, Fattahi, Mohammad R, Salehi, Alireza, Rezaeizadeh, Hossein, Zarshenas, Mohammad M, Fox, Kealoha, Hughes, John, Kostanjsek, Nenad, Espinosa, Stéphane, Fisher, Peter, Latif, Abdul, Lefeber, Donald, Paske, William, Öztürk, Ali Ö, Öztürk, Gizemnur, Tissing, Wim, Naafs, Marianne, Busch, Martine, Sanaye, Mohammad R, Dräger, Kilian, Leininger, Brent, Shafto, Kate, Breen, Jenny, Wüst, Ana P, Puigmartí, Carolina, Dongen, Martien, Dagnelie, Pieter, Thijs, Carel, White, Shelley, Wiesener, Solveig, Salamonsen, Anita, Stub, Trine, Abanades, Sergio, Blanco, Mar, Masllorens, Laia, Sala, Roser, Ahnoumy, Shafekah, Han, Dongwoon, He, Luzhu, Kim, Ha Y, Choi, Da, Alræk, Terje, Kristoffersen, Agnete, Sceidt, Christel, Bruset, Stig, Musial, Frauke, Saha, Felix J, Haller, Heidemarie, Azizi, Hoda, Khadem, Nayereh, Hassanzadeh, Malihe, Estiri, Nazanin, Azizi, Hamideh, Tavassoli, Fatemeh, Lotfalizadeh, Marzieh, Zabihi, Reza, Shabestari, Mahmoud M, Paeizi, Reza, Azari, Masoumeh A, Taghanaki, Hamidreza, Baars, Erik, Bruin, Anja, Ponstein, Anne, Segantini, Sergio, Voller, Fabio, Barth, Jürgen, Kern, Alexandra, Lüthi, Sebastian, Zieger, Anja, Otto, Fabius, Beccia, Ariel, Dunlap, Corina, Courneene, Brendan, Bedregal, Paula, Passi, Alvaro, Rodríguez, Alfredo, Chang, Mayling, Gutiérrez, Soledad, Beissner, Florian, Preibisch, Christine, Arau, Annemarie, Popovici, Roxana, Meissner, Karin, Beljanski, Sylvie, Belland, Laura, Reyes, Laura, Hwang, Ula, Sethe, Dominik, Hilgard, Dörte, Heusser, Peter, Bishop, Felicity, Abbadey, Miznah, Bradbury, Katherine, Carnes, Dawn, Dimitrov, Borislav, Fawkes, Carol, Foster, Jo, MacPherson, Hugh, Roberts, Lisa, Yardley, Lucy, Holmes, Michelle, Little, Paul, Cooper, Cyrus, Bogani, Patrizia, Maggini, Valentina, Gallo, Eugenia, Miceli, Elisangela, Biffi, Sauro, Mengoni, Alessio, Fani, Renato, Guendling, Nadine, Guendling, Peter W, Bronfort, Gert, Haas, Mitch, Schulz, Craig, Bu, Xiangwei, Wang, J., Fang, T., Shen, Z., He, Y., Zhang, X., Zhang, Zhengju, Wang, Dali, Meng, Fengxian, Baumann, Klaus, Frick, Eckhard, Jacobs, Christoph, Grünther, Ralph-Achim, Lötzke, Désirée, Jung, Sonny, Recchia, Daniela R, Robens, Sibylle, Stankewitz, Josephin, Jeitler, Mika, Cheon, Chunhoo, Jang, Bo H, Ko, Seong G, Huang, Ching W, Sasaki, Yui, Ko, Youme, Cheshire, Anna, Ridge, Damien, Peters, David, Panagioti, Maria, Simon, Chantal, Cho, Hyun J, Choi, Soo J, Jung, Young S, Im, Hyea B, Cooley, Kieran, Simmons, Laura, Wasson, Rachel, Kraemer, Kristen, Sears, Richard, Hueber, Carly, Derk, Gwendolyn, Lill, JR, An, Ruopeng, Steinberg, Lois, Rodriguez, Lourdes D, Fuente, Francisca G, Vega, Miguel, Román, Keyla, Ruiz, Jonatan, Villanueva, Irene, Fuente, Francisca, Guerrero, Fanny, Castillo, Noelia, Saez, Gualberto, Jimenez, José I, Gomez, Olga, Muñoz, Luis, Diez, Camino, Dicen, Demijon, Diezel, Helene, Frawley, Jane, Broom, Alex, Dong, Fei, Ma, Xueyan, Yan, Liyi, Wu, Liqun, Ma, Jiaju, Zhen, Jianhua, Dubois, Julie, Rodondi, Pierre-Yves, Schwartze, Sophia, Trapp, Barbara, and Cysarz, Dirk

Published
2017
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24. A high throughput serum bactericidal assay for antibodies to Haemophilus influenzae type b.

Author

Han Wool Kim, Kyung-Hyo Kim, JiHye Kim, Moon H. Nahm, Kim, Han Wool, Kim, Kyung-Hyo, Kim, JiHye, and Nahm, Moon H

Subjects
HAEMOPHILUS influenzae, BLOOD serum analysis, BACTERICIDAL action, TRIPHENYLTIN compounds, CHROMOGENIC bacteria, HAEMOPHILUS diseases, COMPARATIVE studies, ENZYME-linked immunosorbent assay, RESEARCH methodology, MEDICAL cooperation, RESEARCH, VACCINES, EVALUATION research, BACTERIAL antibodies, BACTERIAL capsules, THERAPEUTICS, PREVENTION, VACCINATION
Abstract

Background: The protective capacities of antibodies induced with Haemophilus influenzae type b (Hib) vaccines can be directly assessed in vitro with a Hib-specific serum bactericidal assay (SBA). However, the conventional SBA requires several tedious steps including manual counting of bacterial colonies, and therefore, it is seldom used.Methods: To overcome these limitations, we have improved the conventional SBA by using frozen target bacteria and by developing an automated colony counting method based on agar plates with the chromogenic dye 2, 3, 5-triphenyl tetrazolium chloride (TTC).Results: These changes enabled us to analyze about 100 serum samples per day per person by SBA. When the intra- and inter-assay precisions were studied, this assay showed a coefficient of variation (CV) ranging from 1 to 38 %. To monitor the long term assay stability for assays involving different bacteria lots, complement lots, and operators, we analyzed bactericidal indices of quality control samples obtained over a 6 year period and found the CV to be about 35-50 %. Lastly, our SBA results were compared with the ELISA results obtained using 90 serum samples from children. We showed that the bactericidal index correlated with IgG anti-Hib antibody levels (r = 0.84), with a bactericidal index of 10 corresponding approximately to 0.15 μg/mL IgG, the widely accepted protective level of antibody.Conclusion: We describe a simple high throughput SBA for anti-Hib antibodies that would be useful for evaluating various Hib vaccines. While additional work will be needed to standardize the assay, this SBA should greatly facilitate studies of Hib vaccines. [ABSTRACT FROM AUTHOR]

Published
2016
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25. Identification of target genes for spermatogenic cell-specific KRAB transcription factor ZFP819 in a male germ cell line.

Author

Jin S, Choi H, Kwon JT, Kim J, Jeong J, Kim J, Hong SH, and Cho C

Abstract

Background: Zfp819 , a member of the Krüppel -associated box (KRAB) family, encodes a spermatogenic cell-specific transcription factor. Zfp819 -overexpression induces apoptosis and inhibits proliferation in somatic cell lines., Results: In the present study, we examined the cellular effects of Zfp819 in a male germ cell line (GC-2 cells). Overexpression of Zfp819 demonstrated an increase in the number of apoptotic cells, leading to inhibition of proliferation in GC-2 cells. We further investigated genes regulated by ZFP819 using microarray analysis and chromatin-immunoprecipitation combined with microarray analysis (ChIP-chip) in GC-2 cells. We identified 118 downregulated genes in Zfp819 -overexpressing GC-2 cells using microarray analysis. ChIP-chip assay revealed that 1011 promoter sites (corresponding to 262 genes) were specifically enriched in GC-2 cells transfected with Zfp819 . Two genes (trinucleotide repeat containing 6b and annexin A11) were commonly found when we compared the data between microarray and ChIP-chip analyses. Consistent with these results, Zfp819 overexpression significantly reduced the transcript levels of the two genes by binding to their promoter regions. Tissue distribution analysis indicated that both genes were predominantly expressed in testis. It has been reported that these two genes function in apoptosis., Conclusion: Collectively, our study provides inclusive information on germ cell-specific gene regulation by ZFP819, which is involved in apoptosis, to maintain the integrity of spermatogenesis.

Published
2017
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26. A high throughput serum bactericidal assay for antibodies to Haemophilus influenzae type b.

Author

Kim HW, Kim KH, Kim J, and Nahm MH

Subjects
Adult, Bacterial Capsules, Enzyme-Linked Immunosorbent Assay, Humans, Sensitivity and Specificity, Vaccines, Conjugate immunology, Antibodies, Bacterial blood, Haemophilus Infections prevention & control, Haemophilus Vaccines therapeutic use, Haemophilus influenzae type b immunology
Abstract

Background: The protective capacities of antibodies induced with Haemophilus influenzae type b (Hib) vaccines can be directly assessed in vitro with a Hib-specific serum bactericidal assay (SBA). However, the conventional SBA requires several tedious steps including manual counting of bacterial colonies, and therefore, it is seldom used., Methods: To overcome these limitations, we have improved the conventional SBA by using frozen target bacteria and by developing an automated colony counting method based on agar plates with the chromogenic dye 2, 3, 5-triphenyl tetrazolium chloride (TTC)., Results: These changes enabled us to analyze about 100 serum samples per day per person by SBA. When the intra- and inter-assay precisions were studied, this assay showed a coefficient of variation (CV) ranging from 1 to 38 %. To monitor the long term assay stability for assays involving different bacteria lots, complement lots, and operators, we analyzed bactericidal indices of quality control samples obtained over a 6 year period and found the CV to be about 35-50 %. Lastly, our SBA results were compared with the ELISA results obtained using 90 serum samples from children. We showed that the bactericidal index correlated with IgG anti-Hib antibody levels (r = 0.84), with a bactericidal index of 10 corresponding approximately to 0.15 μg/mL IgG, the widely accepted protective level of antibody., Conclusion: We describe a simple high throughput SBA for anti-Hib antibodies that would be useful for evaluating various Hib vaccines. While additional work will be needed to standardize the assay, this SBA should greatly facilitate studies of Hib vaccines.

Published
2016
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27. Validation of the qi blood yin yang deficiency questionnaire on chronic fatigue.

Author

Kim J, Ku B, and Kim KH

Abstract

Background: Chronic fatigue (CF) reflects an imbalance of inter-organ functions or of the four essential physiological components qi, blood (xue), yin, and yang. CF can be subdivided into different patterns. However, there are no diagnostic methods for CF. This study aimed to clinically validate a pattern identification method by identifying correlations between CF and responses to the qi blood yin yang deficiency questionnaire (QBYY-Q)., Methods: Participants were recruited between May and June 2014 through the Kyung Hee University Korean Medicine hospital website and via posters and comprised 129 CF patients diagnosed with the United States Centers for Disease Control and Prevention (1994) criteria. Participants who had organic diseases that explained the CF were excluded. A total of 159 participants were asked to complete the QBYY-Q, the fatigue severity scale, and the Chalder fatigue scale. The latter two questionnaires were used to assess convergent validity with the QBYY-Q. Among the 129 CF participants, 70 and 59 had chronic fatigue syndrome and idiopathic chronic fatigue, respectively. Two Korean medical doctors independently assessed participants' qi, blood, yin, and yang deficiency patterns using QBYY deficiency pattern identification guidelines. Based on the results of a preliminary study of the QBYY-Q, we selected 32 reliable items for symptoms corresponding to each deficiency pattern. The items were used to estimate internal consistency and construct validity. Multinomial logistic regression analysis was performed for scores on each deficiency pattern., Results: The data were means and standard deviations or numbers of participants and proportions for continuous and categorical variables, respectively. A statistical significance level of P < 0.05 was assumed. The QBYY-Q showed satisfactory internal consistency. Explanatory factor analysis extracted two factors for each deficiency pattern. The percentages of explained variance for qi, blood, yin, and yang deficiency were 45.1, 58.0, 52.2, and 63.4 %, respectively. Each QBYY-Q deficiency score was positively associated with each corresponding deficiency pattern. Qi deficiency was used as a reference category. Odds ratios of blood, yin, and yang deficiency were 10.97, 10.69, and 14.64, respectively., Conclusion: The QBYY-Q was suitable for estimating the influences of qi, blood, yin, and yang deficiencies in CF. Trial registration This trial was registered with the Korean Clinical Trial Register (KCT0001199).

Published
2016
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28. An integrated bioinformatics analysis to dissect kinase dependency in triple negative breast cancer.

Author

Ryall KA, Kim J, Klauck PJ, Shin J, Yoo M, Ionkina A, Pitts TM, Tentler JJ, Diamond JR, Eckhardt SG, Heasley LE, Kang J, and Tan AC

Subjects
Algorithms, Cell Line, Tumor, Cell Proliferation drug effects, Databases, Genetic, Female, Gene Expression Regulation, Neoplastic drug effects, Humans, Protein Kinases metabolism, Triple Negative Breast Neoplasms genetics, Computational Biology methods, Protein Kinase Inhibitors pharmacology, Protein Kinases genetics, Triple Negative Breast Neoplasms enzymology
Abstract

Background: Triple-Negative Breast Cancer (TNBC) is an aggressive disease with a poor prognosis. Clinically, TNBC patients have limited treatment options besides chemotherapy. The goal of this study was to determine the kinase dependency in TNBC cell lines and to predict compounds that could inhibit these kinases using integrative bioinformatics analysis., Results: We integrated publicly available gene expression data, high-throughput pharmacological profiling data, and quantitative in vitro kinase binding data to determine the kinase dependency in 12 TNBC cell lines. We employed Kinase Addiction Ranker (KAR), a novel bioinformatics approach, which integrated these data sources to dissect kinase dependency in TNBC cell lines. We then used the kinase dependency predicted by KAR for each TNBC cell line to query K-Map for compounds targeting these kinases. We validated our predictions using published and new experimental data., Conclusions: In summary, we implemented an integrative bioinformatics analysis that determines kinase dependency in TNBC. Our analysis revealed candidate kinases as potential targets in TNBC for further pharmacological and biological studies.

Published
2015
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29. K-Map: connecting kinases with therapeutics for drug repurposing and development.

Author

Kim J, Yoo M, Kang J, and Tan AC

Subjects
Humans, Internet, Models, Theoretical, Mutation, Protein Kinases metabolism, Computational Biology methods, Drug Repositioning methods, Protein Kinases genetics, Software
Abstract

Unlabelled: Protein kinases play important roles in regulating signal transduction in eukaryotic cells. Due to evolutionary conserved binding sites in the catalytic domain of the kinases, most inhibitors that target these sites promiscuously inhibit multiple kinases. Quantitative analysis can reveal complex and unexpected interactions between protein kinases and kinase inhibitors, providing opportunities for identifying multi-targeted inhibitors of specific diverse kinases for drug repurposing and development. We have developed K-Map-a novel and user-friendly web-based program that systematically connects a set of query kinases to kinase inhibitors based on quantitative profiles of the kinase inhibitor activities. Users can use K-Map to find kinase inhibitors for a set of query kinases (obtained from high-throughput 'omics' experiments) or to reveal new interactions between kinases and kinase inhibitors for rational drug combination studies., Availability and Implementation: K-Map has been implemented in python scripting language and the website is freely available at: http://tanlab.ucdenver.edu/kMap.

Published
2013
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30. A short survey of computational analysis methods in analysing ChIP-seq data.

Author

Kim H, Kim J, Selby H, Gao D, Tong T, Phang TL, and Tan AC

Subjects
Chromatin Immunoprecipitation statistics & numerical data, Humans, Protein Binding, RNA Polymerase II genetics, Research Design, STAT1 Transcription Factor genetics, Chromatin Immunoprecipitation methods, Sequence Analysis, DNA, Software
Abstract

Chromatin immunoprecipitation followed by massively parallel next-generation sequencing (ChIP-seq) is a valuable experimental strategy for assaying protein-DNA interaction over the whole genome. Many computational tools have been designed to find the peaks of the signals corresponding to protein binding sites. In this paper, three computational methods, ChIP-seq processing pipeline (spp), PeakSeq and CisGenome, used in ChIP-seq data analysis are reviewed. There is also a comparison of how they agree and disagree on finding peaks using the publically available Signal Transducers and Activators of Transcription protein 1 (STAT1) and RNA polymerase II (PolII) datasets with corresponding negative controls.

Published
2011
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31. A survey of statistical software for analysing RNA-seq data.

Author

Gao D, Kim J, Kim H, Phang TL, Selby H, Tan AC, and Tong T

Subjects
Databases, Nucleic Acid, Gene Expression Profiling methods, Gene Expression Regulation, Models, Statistical, Software
Abstract

High-throughput RNA sequencing is rapidly emerging as a favourite method for gene expression studies. We review three software packages - edgeR, DEGseq and baySeq - from Bioconductor http://bioconductor.org for analysing RNA-sequencing data. We focus on three aspects: normalisation, statistical models and the testing employed on these methods. We also discuss the advantages and limitations of these software packages.

Published
2010
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