Linking gene expression to clinical outcomes in pediatric Crohn’s disease using machine learning by Chen, Kevin A., Nishiyama, Nina C., Kennedy Ng, Meaghan M., Shumway, Alexandria, Joisa, Chinmaya U., Schaner, Matthew R., Lian, Grace, Beasley, Caroline, Zhu, Lee-Ching, Bantumilli, Surekha, Kapadia, Muneera R., Gomez, Shawn M., Furey, Terrence S., Sheikh, Shehzad Z.

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Increased colonic expression of ACE2 associates with poor prognosis in Crohn’s disease by Toyonaga, Takahiko, Araba, Kenza C., Kennedy, Meaghan M., Keith, Benjamin P., Wolber, Elisabeth A., Beasley, Caroline, Steinbach, Erin C., Schaner, Matthew R., Jain, Animesh, Long, Millie D., Barnes, Edward L., Herfarth, Hans H., Isaacs, Kim L., Hansen, Jonathan J., Kapadia, Muneera R., Guillem, José Gaston, Gulati, Ajay S., Sethupathy, Praveen, Furey, Terrence S., Ehre, Camille, Sheikh, Shehzad Z.

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BET Protein Inhibition Regulates Macrophage Chromatin Accessibility and Microbiota-Dependent Colitis by Hoffner O'Connor, Michelle, Berglind, Ana, Kennedy Ng, Meaghan M, Keith, Benjamin P, Lynch, Zachary J, Schaner, Matthew R, Steinbach, Erin C, Herzog, Jeremy, Trad, Omar K, Jeck, William R, Arthur, Janelle C, Simon, Jeremy M, Sartor, R Balfour, Furey, Terrence S, Sheikh, Shehzad Z

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TNF Promoter Hypomethylation Is Associated With Mucosal Inflammation in IBD and Anti-TNF Response by Levic, Daniel S., Niedzwiecki, Donna, Kandakatla, Apoorva, Karlovich, Norah S., Juneja, Arjun, Park, Jieun, Stolarchuk, Christina, Adams, Shanté, Willer, Jason R., Schaner, Matthew R., Lian, Grace, Beasley, Caroline, Marjoram, Lindsay, Flynn, Ann D., Valentine, John F., Onken, Jane E., Sheikh, Shehzad Z., Davis, Erica E., Evason, Kimberley J., Garman, Katherine S., Bagnat, Michel

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Post-operative Crohn’s Disease Recurrence and Infectious Complications: A Transcriptomic Analysis by Chen, Kevin A., Gartner, Valerie, Darlington, Kimberly C., Silverstein, Sophie R., Kennedy Ng, Meaghan M., Butler, Logan, Avalos, Kelli, Nishiyama, Nina C., Joisa, Chinmaya U., Schaner, Matthew R., Lian, Grace, Beasley, Caroline, Lau, Gwen W., Bauer, Mikaela J., Zhu, Lee-Ching, Kapadia, Muneera R., Gomez, Shawn M., Furey, Terrence S., Sheikh, Shehzad Z.

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Alterations to chromatin in intestinal macrophages link IL‐10 deficiency to inappropriate inflammatory responses by Simon, Jeremy M., Davis, James P., Lee, Saangyoung E., Schaner, Matthew R., Gipson, Gregory R., Weiser, Matthew, Sartor, R. Balfour, Herfarth, Hans H., Rahbar, Reza, Sadiq, Timothy S., Koruda, Mark J., McGovern, Dermot P., Lieb, Jason D., Mohlke, Karen L., Furey, Terrence S., Sheikh, Shehzad Z.

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Decreased Colonic Activin Receptor-Like Kinase 1 Disrupts Epithelial Barrier Integrity in Patients With Crohn’s Disease by Toyonaga, Takahiko, Steinbach, Erin C, Keith, Benjamin P, Barrow, Jasmine B, Schaner, Matthew R, Wolber, Elisabeth A, Beasley, Caroline, Huling, Jennifer, Wang, Yuli, Allbritton, Nancy L, Chaumont, Nicole, Sadiq, Timothy S, Koruda, Mark J, Jain, Animesh, Long, Millie D, Barnes, Edward L, Herfarth, Hans H, Isaacs, Kim L, Hansen, Jonathan J, Shanahan, Michael T, Rahbar, Reza, Furey, Terrence S, Sethupathy, Praveen, Sheikh, Shehzad Z

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An integrated encyclopedia of DNA elements in the human genome by Kundaje, Anshul, Collins, Patrick J, Davis, Carrie A, Khatun, Jainab, Lajoie, Bryan R, Landt, Stephen G, Safi, Alexias, Altshuler, Robert C, Cheng, Chao, Greven, Melissa, Hoffman, Michael M, Lassmann, Timo, Thurman, Robert E, Wu, Weisheng, Xi, Hualin S, Zhuang, Jiali, Gunter, Chris, Dekker, Job, Elnitski, Laura, Giddings, Morgan C, Margulies, Elliott H, Stamatoyannopoulos, John A, Wold, Barbara, Kuiper, Heather C, Dobin, Alex, Tanzer, Andrea, Xue, Chenghai, Zaleski, Chris, Roder, Maik, Baer, Michael T, Bell, Kimberly, Gordon, Assaf, Howald, Cedric, Johnson, Rory, Kingswood, Colin, Li, Guoliang, Luo, Oscar J, Robyr, Daniel, Ruan, Xiaoan, Skancke, Jorgen, Suzuki, Ana Maria, Takahashi, Hazuki, Tilgner, Hagen, Wang, Huaien, Hayashizaki, Yoshihide, Hannon, Gregory J, Malladi, Venkat S, Dreszer, Timothy R, Showers, Kimberly A, London, Darin, Zhang, Zhancheng, Keefe, Damian, Zheng, Meizhen, Vielmetter, Jost, Jain, Preti, Pusey, Barbara, Meadows, Sarah K, Absher, Devin M, Pennachio, Len A, Abyzov, Alexej, Barrell, Daniel, Bignell, Alexandra, Diekhans, Mark, Ezkurdia, Iakes, Frankish, Adam, Hunt, Toby, Jungreis, Irwin, Loveland, Jane, Manthravadi, Deepa, Pei, Baikang, Snow, Catherine, Zhang, Zhengdong, Alexander, Roger P, Balasubramanian, Suganthi, Bettinger, Keith, Cayting, Philip, Habegger, Lukas, Lamarre-Vincent, Nathan, Lindahl-Allen, Marianne, Monahan, Hannah, Patacsil, Dorrelyn, Struhl, Kevin, Ma, Lijia, Inoue, Daigo, Kellner, Tanja, Kirchmaier, Stephan, Bates, Daniel L, Canfield, Theresa K, Boatman, Lisa, Neph, Shane J, Roach, Vaughn, Sanchez, Minerva E, Shafer, Anthony O, Vernot, Benjamin, Weaver, Molly A, Akey, Joshua M, Bender, Michael, Navas, Patrick, Hussami, Nadine, Schaub, Marc A

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Decreased Colonic Activin Receptor-Like Kinase 1 Disrupts Epithelial Barrier Integrity in Patients With Crohn’s DiseaseSummary by Takahiko Toyonaga, Erin C. Steinbach, Benjamin P. Keith, Jasmine B. Barrow, Matthew R. Schaner, Elisabeth A. Wolber, Caroline Beasley, Jennifer Huling, Yuli Wang, Nancy L. Allbritton, Nicole Chaumont, Timothy S. Sadiq, Mark J. Koruda, Animesh Jain, Millie D. Long, Edward L. Barnes, Hans H. Herfarth, Kim L. Isaacs, Jonathan J. Hansen, Michael T. Shanahan, Reza Rahbar, Terrence S. Furey, Praveen Sethupathy, Shehzad Z. Sheikh

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Increased Colonic Expression of ACE2 Associates with Poor Prognosis in Crohn’s disease by Toyonaga, Takahiko, Araba, Kenza C, Kennedy, Meaghan M, Keith, Benjamin P, Wolber, Elisabeth A, Beasley, Caroline, Steinbach, Erin C, Schaner, Matthew R, Jain, Animesh, Long, Millie D, Barnes, Edward L, Herfarth, Hans H, Isaacs, Kim L, Hansen, Jonathan J, Kapadia, Muneera, José Gaston Guillem, Koruda, Mark J, Rahbar, Reza, Sadiq, Tim, Gulati, Ajay S, Sethupathy, Praveen, Furey, Terrence S, Ehre, Camille, Sheikh, Shehzad Z

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An integrated encyclopedia of DNA elements in the human genome by Kundaje, Anshul, Collins, Patrick J, Davis, Carrie A, Khatun, Jainab, Lajoie, Bryan R, Landt, Stephen G, Safi, Alexias, Altshuler, Robert C, Cheng, Chao, Greven, Melissa, Hoffman, Michael M, Lassmann, Timo, Thurman, Robert E, Wu, Weisheng, Xi, Hualin S, Zhuang, Jiali, Gunter, Chris, Dekker, Job, Elnitski, Laura, Giddings, Morgan C, Margulies, Elliott H, Stamatoyannopoulos, John A, Wold, Barbara, Kuiper, Heather C, Dobin, Alex, Tanzer, Andrea, Xue, Chenghai, Zaleski, Chris, Roder, Maik, Baer, Michael T, Bell, Kimberly, Gordon, Assaf, Howald, Cedric, Johnson, Rory, Kingswood, Colin, Li, Guoliang, Luo, Oscar J, Robyr, Daniel, Ruan, Xiaoan, Skancke, Jorgen, Suzuki, Ana Maria, Takahashi, Hazuki, Tilgner, Hagen, Wang, Huaien, Hayashizaki, Yoshihide, Hannon, Gregory J, Malladi, Venkat S, Dreszer, Timothy R, Showers, Kimberly A, London, Darin, Zhang, Zhancheng, Keefe, Damian, Zheng, Meizhen, Vielmetter, Jost, Jain, Preti, Pusey, Barbara, Meadows, Sarah K, Absher, Devin M, Pennachio, Len A, Abyzov, Alexej, Barrell, Daniel, Bignell, Alexandra, Diekhans, Mark, Ezkurdia, Iakes, Frankish, Adam, Hunt, Toby, Jungreis, Irwin, Loveland, Jane, Manthravadi, Deepa, Pei, Baikang, Snow, Catherine, Zhang, Zhengdong, Alexander, Roger P, Balasubramanian, Suganthi, Bettinger, Keith, Cayting, Philip, Habegger, Lukas, Lamarre-Vincent, Nathan, Lindahl-Allen, Marianne, Monahan, Hannah, Patacsil, Dorrelyn, Struhl, Kevin, Ma, Lijia, Inoue, Daigo, Kellner, Tanja, Kirchmaier, Stephan, Bates, Daniel L, Canfield, Theresa K, Boatman, Lisa, Neph, Shane J, Roach, Vaughn, Sanchez, Minerva E, Shafer, Anthony O, Vernot, Benjamin, Weaver, Molly A, Akey, Joshua M, Bender, Michael, Navas, Patrick, Hussami, Nadine, Schaub, Marc A

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An integrated encyclopedia of DNA elements in the human genome by Kundaje, Anshul, Collins, Patrick J, Davis, Carrie A, Khatun, Jainab, Lajoie, Bryan R, Landt, Stephen G, Safi, Alexias, Altshuler, Robert C, Cheng, Chao, Greven, Melissa, Hoffman, Michael M, Lassmann, Timo, Thurman, Robert E, Wu, Weisheng, Xi, Hualin S, Zhuang, Jiali, Gunter, Chris, Dekker, Job, Elnitski, Laura, Giddings, Morgan C, Margulies, Elliott H, Stamatoyannopoulos, John A, Wold, Barbara, Kuiper, Heather C, Dobin, Alex, Tanzer, Andrea, Xue, Chenghai, Zaleski, Chris, Roder, Maik, Baer, Michael T, Bell, Kimberly, Gordon, Assaf, Howald, Cedric, Johnson, Rory, Kingswood, Colin, Li, Guoliang, Luo, Oscar J, Robyr, Daniel, Ruan, Xiaoan, Skancke, Jorgen, Suzuki, Ana Maria, Takahashi, Hazuki, Tilgner, Hagen, Wang, Huaien, Hayashizaki, Yoshihide, Hannon, Gregory J, Malladi, Venkat S, Dreszer, Timothy R, Showers, Kimberly A, London, Darin, Zhang, Zhancheng, Keefe, Damian, Zheng, Meizhen, Vielmetter, Jost, Jain, Preti, Pusey, Barbara, Meadows, Sarah K, Absher, Devin M, Pennachio, Len A, Abyzov, Alexej, Barrell, Daniel, Bignell, Alexandra, Diekhans, Mark, Ezkurdia, Iakes, Frankish, Adam, Hunt, Toby, Jungreis, Irwin, Loveland, Jane, Manthravadi, Deepa, Pei, Baikang, Snow, Catherine, Zhang, Zhengdong, Alexander, Roger P, Balasubramanian, Suganthi, Bettinger, Keith, Cayting, Philip, Habegger, Lukas, Lamarre-Vincent, Nathan, Lindahl-Allen, Marianne, Monahan, Hannah, Patacsil, Dorrelyn, Struhl, Kevin, Ma, Lijia, Inoue, Daigo, Kellner, Tanja, Kirchmaier, Stephan, Bates, Daniel L, Canfield, Theresa K, Boatman, Lisa, Neph, Shane J, Roach, Vaughn, Sanchez, Minerva E, Shafer, Anthony O, Vernot, Benjamin, Weaver, Molly A, Akey, Joshua M, Bender, Michael, Navas, Patrick, Hussami, Nadine, Schaub, Marc A

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An integrated encyclopedia of DNA elements in the human genome by Kundaje, Anshul, Collins, Patrick J, Davis, Carrie A, Khatun, Jainab, Lajoie, Bryan R, Landt, Stephen G, Safi, Alexias, Altshuler, Robert C, Cheng, Chao, Greven, Melissa, Hoffman, Michael M, Lassmann, Timo, Thurman, Robert E, Wu, Weisheng, Xi, Hualin S, Zhuang, Jiali, Gunter, Chris, Dekker, Job, Elnitski, Laura, Giddings, Morgan C, Margulies, Elliott H, Stamatoyannopoulos, John A, Wold, Barbara, Kuiper, Heather C, Dobin, Alex, Tanzer, Andrea, Xue, Chenghai, Zaleski, Chris, Roder, Maik, Baer, Michael T, Bell, Kimberly, Gordon, Assaf, Howald, Cedric, Johnson, Rory, Kingswood, Colin, Li, Guoliang, Luo, Oscar J, Robyr, Daniel, Ruan, Xiaoan, Skancke, Jorgen, Suzuki, Ana Maria, Takahashi, Hazuki, Tilgner, Hagen, Wang, Huaien, Hayashizaki, Yoshihide, Hannon, Gregory J, Malladi, Venkat S, Dreszer, Timothy R, Showers, Kimberly A, London, Darin, Zhang, Zhancheng, Keefe, Damian, Zheng, Meizhen, Vielmetter, Jost, Jain, Preti, Pusey, Barbara, Meadows, Sarah K, Absher, Devin M, Pennachio, Len A, Abyzov, Alexej, Barrell, Daniel, Bignell, Alexandra, Diekhans, Mark, Ezkurdia, Iakes, Frankish, Adam, Hunt, Toby, Jungreis, Irwin, Loveland, Jane, Manthravadi, Deepa, Pei, Baikang, Snow, Catherine, Zhang, Zhengdong, Alexander, Roger P, Balasubramanian, Suganthi, Bettinger, Keith, Cayting, Philip, Habegger, Lukas, Lamarre-Vincent, Nathan, Lindahl-Allen, Marianne, Monahan, Hannah, Patacsil, Dorrelyn, Struhl, Kevin, Ma, Lijia, Inoue, Daigo, Kellner, Tanja, Kirchmaier, Stephan, Bates, Daniel L, Canfield, Theresa K, Boatman, Lisa, Neph, Shane J, Roach, Vaughn, Sanchez, Minerva E, Shafer, Anthony O, Vernot, Benjamin, Weaver, Molly A, Akey, Joshua M, Bender, Michael, Navas, Patrick, Hussami, Nadine, Schaub, Marc A

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Crohn’s Disease Differentially Affects Region-Specific Composition and Aerotolerance Profiles of Mucosally Adherent Bacteria by Shahir, Nur M, Wang, Jeremy R, Wolber, E Ashley, Schaner, Matthew S, Frank, Daniel N, Ir, Diana, Robertson, Charles E, Chaumont, Nicole, Sadiq, Timothy S, Koruda, Mark J, Rahbar, Reza, Nix, B Darren, Newberry, Rodney D, Sartor, R Balfour, Sheikh, Shehzad Z, Furey, Terrence S

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Colonic epithelial miR-31 associates with the development of Crohn's phenotypes by Keith, Benjamin P, Barrow, Jasmine B, Toyonaga, Takahiko, Kazgan, Nevzat, O'Connor, Michelle Hoffner, Shah, Neil D, Schaner, Matthew S, Wolber, Elisabeth A, Trad, Omar K, Gipson, Greg R, Pitman, Wendy A, Kanke, Matthew, Saxena, Shruti J, Chaumont, Nicole, Sadiq, Timothy S, Koruda, Mark J, Cotney, Paul A, Allbritton, Nancy, Trembath, Dimitri G, Sylvester, Francisco, Furey, Terrence S, Sethupathy, Praveen, Sheikh, Shehzad Z

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Aberrant miR-29 is a predictive feature of severe phenotypes in pediatric Crohn's disease by Shumway, Alexandria J, Shanahan, Michael T, Hollville, Emilie, Chen, Kevin, Beasley, Caroline, Villanueva, Jonathan W, Albert, Sara, Lian, Grace, Cure, Moises R, Schaner, Matthew, Zhu, Lee-Ching, Bantumilli, Surekha, Deshmukh, Mohanish, Furey, Terrence S, Sheikh, Shehzad Z, Sethupathy, Praveen

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