RNAseqCovarImpute: a multiple imputation procedure that outperforms complete case and single imputation differential expression analysis
Baker, Brennan H., Sathyanarayana, Sheela, Szpiro, Adam A., MacDonald, James W., Paquette, Alison G.
Published in Genome Biology (03.09.2024)
Published in Genome Biology (03.09.2024)
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Journal Article
Elevated CO2 impairs olfactory‐mediated neural and behavioral responses and gene expression in ocean‐phase coho salmon (Oncorhynchus kisutch)
Williams, Chase R., Dittman, Andrew H., McElhany, Paul, Busch, D. Shallin, Maher, Michael T., Bammler, Theo K., MacDonald, James W., Gallagher, Evan P.
Published in Global change biology (01.03.2019)
Published in Global change biology (01.03.2019)
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Journal Article
Human Organ-Specific Endothelial Cell Heterogeneity
Marcu, Raluca, Choi, Yoon Jung, Xue, Jun, Fortin, Chelsea L., Wang, Yuliang, Nagao, Ryan J., Xu, Jin, MacDonald, James W., Bammler, Theo K., Murry, Charles E., Muczynski, Kimberly, Stevens, Kelly R., Himmelfarb, Jonathan, Schwartz, Stephen M., Zheng, Ying
Published in iScience (29.06.2018)
Published in iScience (29.06.2018)
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Journal Article
A Novel Three-Dimensional Human Peritubular Microvascular System
Ligresti, Giovanni, Nagao, Ryan J, Xue, Jun, Choi, Yoon Jung, Xu, Jin, Ren, Shuyu, Aburatani, Takahide, Anderson, Susan K, MacDonald, James W, Bammler, Theo K, Schwartz, Stephen M, Muczynski, Kimberly A, Duffield, Jeremy S, Himmelfarb, Jonathan, Zheng, Ying
Published in Journal of the American Society of Nephrology (01.08.2016)
Published in Journal of the American Society of Nephrology (01.08.2016)
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Journal Article
Autophagy accounts for approximately one-third of mitochondrial protein turnover and is protein selective
Vincow, Evelyn S., Thomas, Ruth E., Merrihew, Gennifer E., Shulman, Nicholas J., Bammler, Theo K., MacDonald, James W., MacCoss, Michael J., Pallanck, Leo J.
Published in Autophagy (02.09.2019)
Published in Autophagy (02.09.2019)
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Journal Article
Coagulation Factor X Activates Innate Immunity to Human Species C Adenovirus
Doronin, Konstantin, Flatt, Justin W., Di Paolo, Nelson C., Khare, Reeti, Kalyuzhniy, Oleksandr, Acchione, Mauro, Sumida, John P., Ohto, Umeharu, Shimizu, Toshiyuki, Akashi-Takamura, Sachiko, Miyake, Kensuke, MacDonald, James W., Bammler, Theo M., Beyer, Richard P., Farin, Frederico M., Stewart, Phoebe L., Shayakhmetov, Dmitry M.
Published in Science (American Association for the Advancement of Science) (09.11.2012)
Published in Science (American Association for the Advancement of Science) (09.11.2012)
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Journal Article
Whole genome methylation and transcriptome analyses to identify risk for cerebral palsy (CP) in extremely low gestational age neonates (ELGAN)
Massaro, An N, Bammler, Theo K, MacDonald, James W, Perez, Krystle M, Comstock, Bryan, Juul, Sandra E
Published in Scientific reports (05.03.2021)
Published in Scientific reports (05.03.2021)
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Journal Article
Epigenome-wide analysis of long-term air pollution exposure and DNA methylation in monocytes: results from the Multi-Ethnic Study of Atherosclerosis
Chi, Gloria C., Liu, Yongmei, MacDonald, James W., Reynolds, Lindsay M., Enquobahrie, Daniel A., Fitzpatrick, Annette L., Kerr, Kathleen F., Budoff, Matthew J., Lee, Su-In, Siscovick, David, Kaufman, Joel D.
Published in Epigenetics (04.03.2022)
Published in Epigenetics (04.03.2022)
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Journal Article
PI3K-Yap activity drives cortical gyrification and hydrocephalus in mice
Roy, Achira, Murphy, Rory M, Deng, Mei, MacDonald, James W, Bammler, Theo K, Aldinger, Kimberly A, Glass, Ian A, Millen, Kathleen J
Published in eLife (16.05.2019)
Published in eLife (16.05.2019)
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Journal Article
The Epigenetic Factor Landscape of Developing Neocortex Is Regulated by Transcription Factors Pax6→ Tbr2→ Tbr1
Elsen, Gina E, Bedogni, Francesco, Hodge, Rebecca D, Bammler, Theo K, MacDonald, James W, Lindtner, Susan, Rubenstein, John L R, Hevner, Robert F
Published in Frontiers in neuroscience (22.08.2018)
Published in Frontiers in neuroscience (22.08.2018)
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Journal Article
In utero exposure to diesel exhaust is associated with alterations in neonatal cardiomyocyte transcription, DNA methylation and metabolic perturbation
Goodson, Jamie M, MacDonald, James W, Bammler, Theo K, Chien, Wei-Ming, Chin, Michael T
Published in Particle and fibre toxicology (11.04.2019)
Published in Particle and fibre toxicology (11.04.2019)
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Journal Article
Human kidney on a chip assessment of polymyxin antibiotic nephrotoxicity
Weber, Elijah J, Lidberg, Kevin A, Wang, Lu, Bammler, Theo K, MacDonald, James W, Li, Mavis J, Redhair, Michelle, Atkins, William M, Tran, Cecilia, Hines, Kelly M, Herron, Josi, Xu, Libin, Monteiro, Maria Beatriz, Ramm, Susanne, Vaidya, Vishal, Vaara, Martti, Vaara, Timo, Himmelfarb, Jonathan, Kelly, Edward J
Published in JCI insight (20.12.2018)
Published in JCI insight (20.12.2018)
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Journal Article
α7 Nicotinic Acetylcholine Receptor Signaling Modulates Ovine Fetal Brain Astrocytes Transcriptome in Response to Endotoxin
Cao, Mingju, MacDonald, James W, Liu, Hai L, Weaver, Molly, Cortes, Marina, Durosier, Lucien D, Burns, Patrick, Fecteau, Gilles, Desrochers, André, Schulkin, Jay, Antonelli, Marta C, Bernier, Raphael A, Dorschner, Michael, Bammler, Theo K, Frasch, Martin G
Published in Frontiers in immunology (09.05.2019)
Published in Frontiers in immunology (09.05.2019)
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Journal Article
Modeling cellular responses to serum and vitamin D in microgravity using a human kidney microphysiological system
Lidberg, Kevin A, Jones-Isaac, Kendan, Yang, Jade, Bain, Jacelyn, Wang, Lu, MacDonald, James W, Bammler, Theo K, Calamia, Justina, Thummel, Kenneth E, Yeung, Catherine K, Countryman, Stefanie, Koenig, Paul, Himmelfarb, Jonathan, Kelly, Edward J
Published in NPJ microgravity (09.07.2024)
Published in NPJ microgravity (09.07.2024)
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Journal Article
Spiny mice activate unique transcriptional programs after severe kidney injury regenerating organ function without fibrosis
Okamura, Daryl M., Brewer, Chris M., Wakenight, Paul, Bahrami, Nadia, Bernardi, Kristina, Tran, Amy, Olson, Jill, Shi, Xiaogang, Yeh, Szu-Ying, Piliponsky, Adrian, Collins, Sarah J., Nguyen, Elizabeth D., Timms, Andrew E., MacDonald, James W., Bammler, Theo K., Nelson, Branden R., Millen, Kathleen J., Beier, David R., Majesky, Mark W.
Published in iScience (19.11.2021)
Published in iScience (19.11.2021)
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Journal Article
Time Course of Inflammatory Gene Expression Following Crush Injury in Murine Skeletal Muscle
Voss, Joachim G, Shagal, Ayelet Goldshmid, Tsuji, Joyce M, MacDonald, James W, Bammler, Theo K, Farin, Fred M, St Pierre Schneider, Barbara
Published in Nursing research (New York) (01.03.2017)
Published in Nursing research (New York) (01.03.2017)
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Journal Article
Candidate genes for panhypopituitarism identified by gene expression profiling
Mortensen, Amanda H, MacDonald, James W, Ghosh, Debashis, Camper, Sally A
Published in Physiological genomics (01.10.2011)
Published in Physiological genomics (01.10.2011)
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Journal Article
CXCL12 Activates a Robust Transcriptional Response in Human Prostate Epithelial Cells
Begley, Lesa A., MacDonald, James W., Day, Mark L., Macoska, Jill A.
Published in The Journal of biological chemistry (14.09.2007)
Published in The Journal of biological chemistry (14.09.2007)
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