Search Results - "Varner, Jeffrey D"

A review of the mammalian unfolded protein response by Chakrabarti, Anirikh, Chen, Aaron W., Varner, Jeffrey D.

“…Proteins requiring post‐translational modifications such as N‐linked glycosylation are processed in the endoplasmic reticulum (ER). A diverse array of cellular…”
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Engineering the spatial organization of metabolic enzymes: mimicking nature's synergy by Conrado, Robert J, Varner, Jeffrey D, DeLisa, Matthew P

“…A growing body of evidence indicates that many cellular reactions within metabolic pathways are catalyzed not by free-floating ‘soluble’ enzymes, but via one…”
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Multi-scale computational study of the Warburg effect, reverse Warburg effect and glutamine addiction in solid tumors by Shan, Mengrou, Dai, David, Vudem, Arunodai, Varner, Jeffrey D, Stroock, Abraham D

“…Cancer metabolism has received renewed interest as a potential target for cancer therapy. In this study, we use a multi-scale modeling approach to interrogate…”
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Reduced order modeling and analysis of the human complement system by Sagar, Adithya, Dai, Wei, Minot, Mason, LeCover, Rachel, Varner, Jeffrey D

“…Complement is an important pathway in innate immunity, inflammation, and many disease processes. However, despite its importance, there are few validated…”
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Convergent Approaches to Delineate the Metabolic Regulation of Tumor Invasion by Hyaluronic Acid Biosynthesis by Shimpi, Adrian A., Tan, Matthew L., Vilkhovoy, Michael, Dai, David, Roberts, LaDeidra Monet, Kuo, Joe Chin‐Hun, Huang, Lingting, Varner, Jeffrey D., Paszek, Matthew, Fischbach, Claudia

“…Metastasis is the leading cause of breast cancer‐related deaths and is often driven by invasion and cancer‐stem like cells (CSCs). Both the CSC phenotype and…”
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Population Heterogeneity in the Epithelial to Mesenchymal Transition Is Controlled by NFAT and Phosphorylated Sp1 by Gould, Russell, Bassen, David M, Chakrabarti, Anirikh, Varner, Jeffrey D, Butcher, Jonathan

“…Epithelial to mesenchymal transition (EMT) is an essential differentiation program during tissue morphogenesis and remodeling. EMT is induced by soluble…”
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Physicochemical regulation of endothelial sprouting in a 3D microfluidic angiogenesis model by Verbridge, Scott S., Chakrabarti, Anirikh, DelNero, Peter, Kwee, Brian, Varner, Jeffrey D., Stroock, Abraham D., Fischbach, Claudia

“…Both physiological and pathological tissue remodeling (e.g., during wound healing and cancer, respectively) require new blood vessel formation via…”
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Computationally derived points of fragility of a human cascade are consistent with current therapeutic strategies by Luan, Deyan, Zai, Michael, Varner, Jeffrey D

“…The role that mechanistic mathematical modeling and systems biology will play in molecular medicine and clinical development remains uncertain. In this study,…”
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6-Formylindolo(3,2-b)Carbazole (FICZ) Modulates the Signalsome Responsible for RA-Induced Differentiation of HL-60 Myeloblastic Leukemia Cells by Bunaciu, Rodica P, Jensen, Holly A, MacDonald, Robert J, LaTocha, Dorian H, Varner, Jeffrey D, Yen, Andrew

“…6-Formylindolo(3,2-b)carbazole (FICZ) is a photoproduct of tryptophan and an endogenous high affinity ligand for aryl hydrocarbon receptor (AhR). It was…”
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Toward a genome scale sequence specific dynamic model of cell-free protein synthesis in Escherichia coli by Horvath, Nicholas, Vilkhovoy, Michael, Wayman, Joseph A., Calhoun, Kara, Swartz, James, Varner, Jeffrey D.

“…In this study, we developed a dynamic mathematical model of E. coli cell-free protein synthesis (CFPS). Model parameters were estimated from a dataset…”
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Differential Contributions of Intrinsic and Extrinsic Pathways to Thrombin Generation in Adult, Maternal and Cord Plasma Samples by Rice, Nicklaus T, Szlam, Fania, Varner, Jeffrey D, Bernstein, Peter S, Szlam, Arthur D, Tanaka, Kenichi A

“…Thrombin generation (TG) is a pivotal process in achieving hemostasis. Coagulation profiles during pregnancy and early neonatal period are different from that…”
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Endothelial cells metabolically regulate breast cancer invasion toward a microvessel by Tan, Matthew L., Jenkins-Johnston, Niaa, Huang, Sarah, Schutrum, Brittany, Vadhin, Sandra, Adhikari, Abhinav, Williams, Rebecca M., Zipfel, Warren R., Lammerding, Jan, Varner, Jeffrey D., Fischbach, Claudia

“…Breast cancer metastasis is initiated by invasion of tumor cells into the collagen type I-rich stroma to reach adjacent blood vessels. Prior work has…”
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Computational modeling and analysis of insulin induced eukaryotic translation initiation by Lequieu, Joshua, Chakrabarti, Anirikh, Nayak, Satyaprakash, Varner, Jeffrey D

“…Insulin, the primary hormone regulating the level of glucose in the bloodstream, modulates a variety of cellular and enzymatic processes in normal and diseased…”
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Improving designer glycan production in Escherichia coli through model-guided metabolic engineering by Wayman, Joseph A., Glasscock, Cameron, Mansell, Thomas J., DeLisa, Matthew P., Varner, Jeffrey D.

“…Asparagine-linked (N-linked) glycosylation is the most common protein modification in eukaryotes, affecting over two-thirds of the proteome. Glycosylation is…”
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Effective Biophysical Modeling of Cell Free Transcription and Translation Processes by Adhikari, Abhinav, Vilkhovoy, Michael, Vadhin, Sandra, Lim, Ha Eun, Varner, Jeffrey D

“…Transcription and translation are at the heart of metabolism and signal transduction. In this study, we developed an effective biophysical modeling approach to…”
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Analysis of the molecular networks in androgen dependent and independent prostate cancer revealed fragile and robust subsystems by Tasseff, Ryan, Nayak, Satyaprakash, Salim, Saniya, Kaushik, Poorvi, Rizvi, Noreen, Varner, Jeffrey D

“…Androgen ablation therapy is currently the primary treatment for metastatic prostate cancer. Unfortunately, in nearly all cases, androgen ablation fails to…”
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Retinoic acid therapy resistance progresses from unilineage to bilineage in HL-60 leukemic blasts by Jensen, Holly A, Bunaciu, Rodica P, Ibabao, Christopher N, Myers, Rebecca, Varner, Jeffrey D, Yen, Andrew

“…Emergent resistance can be progressive and driven by global signaling aberrations. All-trans retinoic acid (RA) is the standard therapeutic agent for acute…”
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The Src-family kinase inhibitor PP2 rescues inducible differentiation events in emergent retinoic acid-resistant myeloblastic leukemia cells by Jensen, Holly A, Styskal, Lauren E, Tasseff, Ryan, Bunaciu, Rodica P, Congleton, Johanna, Varner, Jeffrey D, Yen, Andrew

“…Retinoic acid is an embryonic morphogen and dietary factor that demonstrates chemotherapeutic efficacy in inducing maturation in leukemia cells. Using HL60…”
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Induced myelomonocytic differentiation in leukemia cells is accompanied by noncanonical transcription factor expression by Jensen, Holly A., Yourish, Harmony B., Bunaciu, Rodica P., Varner, Jeffrey D., Yen, Andrew

“…•We surveyed common myeloid leukemia cell lines undergoing differentiation therapy.•Lineage progression in induced leukemia cell lines differs from…”
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A test of highly optimized tolerance reveals fragile cell-cycle mechanisms are molecular targets in clinical cancer trials by Nayak, Satyaprakash, Salim, Saniya, Luan, Deyan, Zai, Michael, Varner, Jeffrey D

“…Robustness, a long-recognized property of living systems, allows function in the face of uncertainty while fragility, i.e., extreme sensitivity, can…”
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