Education/CredentialsSenior Research Associate: Stowers Institute for Medical ResearchPostdoctoral Fellowship: Francis Crick InstituteDoctoral Degree: Massachusetts Institute of Technology (Physics) Contact Information Childrens Hospital Bldg R Office 513-636-4200 Email ozbudael@ucmail.uc.edu Research InterestsSegmentation of vertebral column; pattern formation; cell differentiation; systems biology; computational modeling Peer Reviewed Publications Zinani, Oriana Q H; Keseroglu, Kemal; Ay, Ahmet; Özbudak, Ertugrul M 2020. Pairing of segmentation clock genes drives robust pattern formation. Nature, , Keskin, Sevdenur; Simsek, M Fethullah; Vu, Ha T; Yang, Carlton; Devoto, Stephen H; Ay, Ahmet; Özbudak, Ertugrul M 2019. Regulatory Network of the Scoliosis-Associated Genes Establishes Rostrocaudal Patterning of Somites in Zebrafish. iScience, 12 , 247-259Keskin, Sevdenur; Devakanmalai, Gnanapackiam S; Kwon, Soo Bin; Vu, Ha T; Hong, Qiyuan; Lee, Yin Yeng; Soltani, Mohammad; Singh, Abhyudai; Ay, Ahmet; Özbudak, Ertugrul M 2018. Noise in the Vertebrate Segmentation Clock Is Boosted by Time Delays but Tamed by Notch Signaling. Cell reports, 23 7, 2175-2185.e4Simsek, M Fethullah; Özbudak, Ertugrul M 2018. Spatial Fold Change of FGF Signaling Encodes Positional Information for Segmental Determination in Zebrafish. Cell reports, 24 1, 66-78.e8Racedo, Silvia E; Hasten, Erica; Lin, Mingyan; Devakanmalai, Gnanapackiam Sheela; Guo, Tingwei; Ozbudak, Ertugrul M; Cai, Chen-Leng; Zheng, Deyou; Morrow, Bernice E 2017. Reduced dosage of ?-catenin provides significant rescue of cardiac outflow tract anomalies in a Tbx1 conditional null mouse model of 22q11.2 deletion syndrome. PLoS genetics, 13 3, e1006687Ay, Ahmet; Holland, Jack; Sperlea, Adriana; Devakanmalai, Gnanapackiam Sheela; Knierer, Stephan; Sangervasi, Sebastian; Stevenson, Angel; Ozbudak, Ertugrul M 2014. Spatial gradients of protein-level time delays set the pace of the traveling segmentation clock waves. Development (Cambridge, England), 141 21, 4158-67Ay, Ahmet; Knierer, Stephan; Sperlea, Adriana; Holland, Jack; Özbudak, Ertugrul M 2013. Short-lived Her proteins drive robust synchronized oscillations in the zebrafish segmentation clock. Development (Cambridge, England), 140 15, 3244-53Devakanmalai, Gnanapackiam Sheela; Zumrut, Hasan E; Ozbudak, Ertugrul M 2013. Cited3 activates Mef2c to control muscle cell differentiation and survival. Biology open, 2 5, 505-14Hanisch, Anja; Holder, Maxine V; Choorapoikayil, Suma; Gajewski, Martin; Özbudak, Ertugrul M; Lewis, Julian 2013. The elongation rate of RNA polymerase II in zebrafish and its significance in the somite segmentation clock. Development (Cambridge, England), 140 2, 444-53Ozbudak, Ertugrul M; Tassy, Olivier; Pourquié, Olivier 2010. Spatiotemporal compartmentalization of key physiological processes during muscle precursor differentiation. Proceedings of the National Academy of Sciences of the United States of America, 107 9, 4224-9Gomez, Céline; Ozbudak, Ertugrul M; Wunderlich, Joshua; Baumann, Diana; Lewis, Julian; Pourquié, Olivier 2008. Control of segment number in vertebrate embryos. Nature, 454 7202, 335-9Ozbudak, Ertugrul M; Lewis, Julian 2008. Notch signalling synchronizes the zebrafish segmentation clock but is not needed to create somite boundaries. PLoS genetics, 4 2, e15Ozbudak, Ertugrul M; Pourquié, Olivier 2008. The vertebrate segmentation clock: the tip of the iceberg. Current opinion in genetics & development, 18 4, 317-23Giudicelli, François; Ozbudak, Ertugrul M; Wright, Gavin J; Lewis, Julian 2007. Setting the tempo in development: an investigation of the zebrafish somite clock mechanism. PLoS biology, 5 6, e150Lewis, Julian; Ozbudak, Ertugrul M 2007. Deciphering the somite segmentation clock: beyond mutants and morphants. Developmental dynamics : an official publication of the American Association of Anatomists, 236 6, 1410-5Mettetal, Jerome T; Muzzey, Dale; Pedraza, Juan M; Ozbudak, Ertugrul M; van Oudenaarden, Alexander 2006. Predicting stochastic gene expression dynamics in single cells. Proceedings of the National Academy of Sciences of the United States of America, 103 19, 7304-9Ozbudak, Ertugrul M; Becskei, Attila; van Oudenaarden, Alexander 2005. A system of counteracting feedback loops regulates Cdc42p activity during spontaneous cell polarization. Developmental cell, 9 4, 565-71Ozbudak, Ertugrul M; Thattai, Mukund; Lim, Han N; Shraiman, Boris I; Van Oudenaarden, Alexander 2004. Multistability in the lactose utilization network of Escherichia coli. Nature, 427 6976, 737-40Ozbudak, Ertugrul M; Thattai, Mukund; Kurtser, Iren; Grossman, Alan D; van Oudenaarden, Alexander 2002. Regulation of noise in the expression of a single gene. Nature genetics, 31 1, 69-73
Research InterestsSegmentation of vertebral column; pattern formation; cell differentiation; systems biology; computational modeling
Peer Reviewed Publications Zinani, Oriana Q H; Keseroglu, Kemal; Ay, Ahmet; Özbudak, Ertugrul M 2020. Pairing of segmentation clock genes drives robust pattern formation. Nature, , Keskin, Sevdenur; Simsek, M Fethullah; Vu, Ha T; Yang, Carlton; Devoto, Stephen H; Ay, Ahmet; Özbudak, Ertugrul M 2019. Regulatory Network of the Scoliosis-Associated Genes Establishes Rostrocaudal Patterning of Somites in Zebrafish. iScience, 12 , 247-259Keskin, Sevdenur; Devakanmalai, Gnanapackiam S; Kwon, Soo Bin; Vu, Ha T; Hong, Qiyuan; Lee, Yin Yeng; Soltani, Mohammad; Singh, Abhyudai; Ay, Ahmet; Özbudak, Ertugrul M 2018. Noise in the Vertebrate Segmentation Clock Is Boosted by Time Delays but Tamed by Notch Signaling. Cell reports, 23 7, 2175-2185.e4Simsek, M Fethullah; Özbudak, Ertugrul M 2018. Spatial Fold Change of FGF Signaling Encodes Positional Information for Segmental Determination in Zebrafish. Cell reports, 24 1, 66-78.e8Racedo, Silvia E; Hasten, Erica; Lin, Mingyan; Devakanmalai, Gnanapackiam Sheela; Guo, Tingwei; Ozbudak, Ertugrul M; Cai, Chen-Leng; Zheng, Deyou; Morrow, Bernice E 2017. Reduced dosage of ?-catenin provides significant rescue of cardiac outflow tract anomalies in a Tbx1 conditional null mouse model of 22q11.2 deletion syndrome. PLoS genetics, 13 3, e1006687Ay, Ahmet; Holland, Jack; Sperlea, Adriana; Devakanmalai, Gnanapackiam Sheela; Knierer, Stephan; Sangervasi, Sebastian; Stevenson, Angel; Ozbudak, Ertugrul M 2014. Spatial gradients of protein-level time delays set the pace of the traveling segmentation clock waves. Development (Cambridge, England), 141 21, 4158-67Ay, Ahmet; Knierer, Stephan; Sperlea, Adriana; Holland, Jack; Özbudak, Ertugrul M 2013. Short-lived Her proteins drive robust synchronized oscillations in the zebrafish segmentation clock. Development (Cambridge, England), 140 15, 3244-53Devakanmalai, Gnanapackiam Sheela; Zumrut, Hasan E; Ozbudak, Ertugrul M 2013. Cited3 activates Mef2c to control muscle cell differentiation and survival. Biology open, 2 5, 505-14Hanisch, Anja; Holder, Maxine V; Choorapoikayil, Suma; Gajewski, Martin; Özbudak, Ertugrul M; Lewis, Julian 2013. The elongation rate of RNA polymerase II in zebrafish and its significance in the somite segmentation clock. Development (Cambridge, England), 140 2, 444-53Ozbudak, Ertugrul M; Tassy, Olivier; Pourquié, Olivier 2010. Spatiotemporal compartmentalization of key physiological processes during muscle precursor differentiation. Proceedings of the National Academy of Sciences of the United States of America, 107 9, 4224-9Gomez, Céline; Ozbudak, Ertugrul M; Wunderlich, Joshua; Baumann, Diana; Lewis, Julian; Pourquié, Olivier 2008. Control of segment number in vertebrate embryos. Nature, 454 7202, 335-9Ozbudak, Ertugrul M; Lewis, Julian 2008. Notch signalling synchronizes the zebrafish segmentation clock but is not needed to create somite boundaries. PLoS genetics, 4 2, e15Ozbudak, Ertugrul M; Pourquié, Olivier 2008. The vertebrate segmentation clock: the tip of the iceberg. Current opinion in genetics & development, 18 4, 317-23Giudicelli, François; Ozbudak, Ertugrul M; Wright, Gavin J; Lewis, Julian 2007. Setting the tempo in development: an investigation of the zebrafish somite clock mechanism. PLoS biology, 5 6, e150Lewis, Julian; Ozbudak, Ertugrul M 2007. Deciphering the somite segmentation clock: beyond mutants and morphants. Developmental dynamics : an official publication of the American Association of Anatomists, 236 6, 1410-5Mettetal, Jerome T; Muzzey, Dale; Pedraza, Juan M; Ozbudak, Ertugrul M; van Oudenaarden, Alexander 2006. Predicting stochastic gene expression dynamics in single cells. Proceedings of the National Academy of Sciences of the United States of America, 103 19, 7304-9Ozbudak, Ertugrul M; Becskei, Attila; van Oudenaarden, Alexander 2005. A system of counteracting feedback loops regulates Cdc42p activity during spontaneous cell polarization. Developmental cell, 9 4, 565-71Ozbudak, Ertugrul M; Thattai, Mukund; Lim, Han N; Shraiman, Boris I; Van Oudenaarden, Alexander 2004. Multistability in the lactose utilization network of Escherichia coli. Nature, 427 6976, 737-40Ozbudak, Ertugrul M; Thattai, Mukund; Kurtser, Iren; Grossman, Alan D; van Oudenaarden, Alexander 2002. Regulation of noise in the expression of a single gene. Nature genetics, 31 1, 69-73
Zinani, Oriana Q H; Keseroglu, Kemal; Ay, Ahmet; Özbudak, Ertugrul M 2020. Pairing of segmentation clock genes drives robust pattern formation. Nature, , Keskin, Sevdenur; Simsek, M Fethullah; Vu, Ha T; Yang, Carlton; Devoto, Stephen H; Ay, Ahmet; Özbudak, Ertugrul M 2019. Regulatory Network of the Scoliosis-Associated Genes Establishes Rostrocaudal Patterning of Somites in Zebrafish. iScience, 12 , 247-259Keskin, Sevdenur; Devakanmalai, Gnanapackiam S; Kwon, Soo Bin; Vu, Ha T; Hong, Qiyuan; Lee, Yin Yeng; Soltani, Mohammad; Singh, Abhyudai; Ay, Ahmet; Özbudak, Ertugrul M 2018. Noise in the Vertebrate Segmentation Clock Is Boosted by Time Delays but Tamed by Notch Signaling. Cell reports, 23 7, 2175-2185.e4Simsek, M Fethullah; Özbudak, Ertugrul M 2018. Spatial Fold Change of FGF Signaling Encodes Positional Information for Segmental Determination in Zebrafish. Cell reports, 24 1, 66-78.e8Racedo, Silvia E; Hasten, Erica; Lin, Mingyan; Devakanmalai, Gnanapackiam Sheela; Guo, Tingwei; Ozbudak, Ertugrul M; Cai, Chen-Leng; Zheng, Deyou; Morrow, Bernice E 2017. Reduced dosage of ?-catenin provides significant rescue of cardiac outflow tract anomalies in a Tbx1 conditional null mouse model of 22q11.2 deletion syndrome. PLoS genetics, 13 3, e1006687Ay, Ahmet; Holland, Jack; Sperlea, Adriana; Devakanmalai, Gnanapackiam Sheela; Knierer, Stephan; Sangervasi, Sebastian; Stevenson, Angel; Ozbudak, Ertugrul M 2014. Spatial gradients of protein-level time delays set the pace of the traveling segmentation clock waves. Development (Cambridge, England), 141 21, 4158-67Ay, Ahmet; Knierer, Stephan; Sperlea, Adriana; Holland, Jack; Özbudak, Ertugrul M 2013. Short-lived Her proteins drive robust synchronized oscillations in the zebrafish segmentation clock. Development (Cambridge, England), 140 15, 3244-53Devakanmalai, Gnanapackiam Sheela; Zumrut, Hasan E; Ozbudak, Ertugrul M 2013. Cited3 activates Mef2c to control muscle cell differentiation and survival. Biology open, 2 5, 505-14Hanisch, Anja; Holder, Maxine V; Choorapoikayil, Suma; Gajewski, Martin; Özbudak, Ertugrul M; Lewis, Julian 2013. The elongation rate of RNA polymerase II in zebrafish and its significance in the somite segmentation clock. Development (Cambridge, England), 140 2, 444-53Ozbudak, Ertugrul M; Tassy, Olivier; Pourquié, Olivier 2010. Spatiotemporal compartmentalization of key physiological processes during muscle precursor differentiation. Proceedings of the National Academy of Sciences of the United States of America, 107 9, 4224-9Gomez, Céline; Ozbudak, Ertugrul M; Wunderlich, Joshua; Baumann, Diana; Lewis, Julian; Pourquié, Olivier 2008. Control of segment number in vertebrate embryos. Nature, 454 7202, 335-9Ozbudak, Ertugrul M; Lewis, Julian 2008. Notch signalling synchronizes the zebrafish segmentation clock but is not needed to create somite boundaries. PLoS genetics, 4 2, e15Ozbudak, Ertugrul M; Pourquié, Olivier 2008. The vertebrate segmentation clock: the tip of the iceberg. Current opinion in genetics & development, 18 4, 317-23Giudicelli, François; Ozbudak, Ertugrul M; Wright, Gavin J; Lewis, Julian 2007. Setting the tempo in development: an investigation of the zebrafish somite clock mechanism. PLoS biology, 5 6, e150Lewis, Julian; Ozbudak, Ertugrul M 2007. Deciphering the somite segmentation clock: beyond mutants and morphants. Developmental dynamics : an official publication of the American Association of Anatomists, 236 6, 1410-5Mettetal, Jerome T; Muzzey, Dale; Pedraza, Juan M; Ozbudak, Ertugrul M; van Oudenaarden, Alexander 2006. Predicting stochastic gene expression dynamics in single cells. Proceedings of the National Academy of Sciences of the United States of America, 103 19, 7304-9Ozbudak, Ertugrul M; Becskei, Attila; van Oudenaarden, Alexander 2005. A system of counteracting feedback loops regulates Cdc42p activity during spontaneous cell polarization. Developmental cell, 9 4, 565-71Ozbudak, Ertugrul M; Thattai, Mukund; Lim, Han N; Shraiman, Boris I; Van Oudenaarden, Alexander 2004. Multistability in the lactose utilization network of Escherichia coli. Nature, 427 6976, 737-40Ozbudak, Ertugrul M; Thattai, Mukund; Kurtser, Iren; Grossman, Alan D; van Oudenaarden, Alexander 2002. Regulation of noise in the expression of a single gene. Nature genetics, 31 1, 69-73