Search Results - "Koestler, Devin C"

DNA methylation arrays as surrogate measures of cell mixture distribution by Houseman, Eugene Andres, Accomando, William P, Koestler, Devin C, Christensen, Brock C, Marsit, Carmen J, Nelson, Heather H, Wiencke, John K, Kelsey, Karl T

“…There has been a long-standing need in biomedical research for a method that quantifies the normally mixed composition of leukocytes beyond what is possible by…”
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An optimized library for reference-based deconvolution of whole-blood biospecimens assayed using the Illumina HumanMethylationEPIC BeadArray by Salas, Lucas A, Koestler, Devin C, Butler, Rondi A, Hansen, Helen M, Wiencke, John K, Kelsey, Karl T, Christensen, Brock C

“…Genome-wide methylation arrays are powerful tools for assessing cell composition of complex mixtures. We compare three approaches to select reference libraries…”
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Enhanced cell deconvolution of peripheral blood using DNA methylation for high-resolution immune profiling by Salas, Lucas A., Zhang, Ze, Koestler, Devin C., Butler, Rondi A., Hansen, Helen M., Molinaro, Annette M., Wiencke, John K., Kelsey, Karl T., Christensen, Brock C.

“…DNA methylation microarrays can be employed to interrogate cell-type composition in complex tissues. Here, we expand reference-based deconvolution of blood DNA…”
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The Microbiomes of Pancreatic and Duodenum Tissue Overlap and Are Highly Subject Specific but Differ between Pancreatic Cancer and Noncancer Subjects by Del Castillo, Erika, Meier, Richard, Chung, Mei, Koestler, Devin C, Chen, Tsute, Paster, Bruce J, Charpentier, Kevin P, Kelsey, Karl T, Izard, Jacques, Michaud, Dominique S

“…In mice, bacteria from the mouth can translocate to the pancreas and impact pancreatic cancer progression. In humans, oral bacteria associated with periodontal…”
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pwrEWAS: a user-friendly tool for comprehensive power estimation for epigenome wide association studies (EWAS) by Graw, Stefan, Henn, Rosalyn, Thompson, Jeffrey A, Koestler, Devin C

“…When designing an epigenome-wide association study (EWAS) to investigate the relationship between DNA methylation (DNAm) and some exposure(s) or phenotype(s),…”
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Sustained O-GlcNAcylation reprograms mitochondrial function to regulate energy metabolism by Tan, Ee Phie, McGreal, Steven R., Graw, Stefan, Tessman, Robert, Koppel, Scott J., Dhakal, Pramod, Zhang, Zhen, Machacek, Miranda, Zachara, Natasha E., Koestler, Devin C., Peterson, Kenneth R., Thyfault, John P., Swerdlow, Russell H., Krishnamurthy, Partha, DiTacchio, Luciano, Apte, Udayan, Slawson, Chad

“…Dysfunctional mitochondria and generation of reactive oxygen species (ROS) promote chronic diseases, which have spurred interest in the molecular mechanisms…”
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Equivalent change enrichment analysis: assessing equivalent and inverse change in biological pathways between diverse experiments by Thompson, Jeffrey A, Koestler, Devin C

“…In silico functional genomics have become a driving force in the way we interpret and use gene expression data, enabling researchers to understand which…”
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Mitochondrial Genomic Backgrounds Affect Nuclear DNA Methylation and Gene Expression by Vivian, Carolyn J, Brinker, Amanda E, Graw, Stefan, Koestler, Devin C, Legendre, Christophe, Gooden, Gerald C, Salhia, Bodour, Welch, Danny R

“…Mitochondrial DNA (mtDNA) mutations and polymorphisms contribute to many complex diseases, including cancer. Using a unique mouse model that contains nDNA from…”
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HiTIMED: hierarchical tumor immune microenvironment epigenetic deconvolution for accurate cell type resolution in the tumor microenvironment using tumor-type-specific DNA methylation data by Zhang, Ze, Wiencke, John K, Kelsey, Karl T, Koestler, Devin C, Christensen, Brock C, Salas, Lucas A

“…Cellular compositions of solid tumor microenvironments are heterogeneous, varying across patients and tumor types. High-resolution profiling of the tumor…”
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Synergistic anti-proliferative activity of JQ1 and GSK2801 in triple-negative breast cancer by Yellapu, Nanda Kumar, Ly, Thuc, Sardiu, Mihaela E, Pei, Dong, Welch, Danny R, Thompson, Jeffery A, Koestler, Devin C

“…Triple-negative breast cancer (TNBC) constitutes 10-20% of breast cancers and is challenging to treat due to a lack of effective targeted therapies. Previous…”
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Licofelone Enhances the Efficacy of Paclitaxel in Ovarian Cancer by Reversing Drug Resistance and Tumor Stem-like Properties by Hirst, Jeff, Pathak, Harsh B, Hyter, Stephen, Pessetto, Ziyan Y, Ly, Thuc, Graw, Stefan, Koestler, Devin C, Krieg, Adam J, Roby, Katherine F, Godwin, Andrew K

“…Drug development for first-line treatment of epithelial ovarian cancer (EOC) has been stagnant for almost three decades. Traditional cell culture methods for…”
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Associations between Gut Microbial Colonization in Early Life and Respiratory Outcomes in Cystic Fibrosis by Hoen, Anne G., PhD, Li, Jing, MS, Moulton, Lisa A., RN, O'Toole, George A., PhD, Housman, Molly L., MS, Koestler, Devin C., PhD, Guill, Margaret F., MD, Moore, Jason H., PhD, Hibberd, Patricia L., MD, PhD, Morrison, Hilary G., PhD, Sogin, Mitchell L., PhD, Karagas, Margaret R., PhD, Madan, Juliette C., MD, MS

“…Objective To examine patterns of microbial colonization of the respiratory and intestinal tracts in early life in infants with cystic fibrosis (CF) and their…”
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Systematic evaluation and validation of reference and library selection methods for deconvolution of cord blood DNA methylation data by Gervin, Kristina, Salas, Lucas A, Bakulski, Kelly M, van Zelm, Menno C, Koestler, Devin C, Wiencke, John K, Duijts, Liesbeth, Moll, Henriëtte A, Kelsey, Karl T, Kobor, Michael S, Lyle, Robert, Christensen, Brock C, Felix, Janine F, Jones, Meaghan J

“…Umbilical cord blood (UCB) is commonly used in epigenome-wide association studies of prenatal exposures. Accounting for cell type composition is critical in…”
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DNA Methylation, Isocitrate Dehydrogenase Mutation, and Survival in Glioma by CHRISTENSEN, Brock C, SMITH, Ashley A, KELSEY, Karl T, WIENCKE, John K, SHICHUN ZHENG, KOESTLER, Devin C, HOUSEMAN, E. Andres, MARSIT, Carmen J, WIEMELS, Joseph L, NELSON, Heather H, KARAGAS, Margaret R, WRENSCH, Margaret R

“…Although much is known about molecular and chromosomal characteristics that distinguish glioma histological subtypes, DNA methylation patterns of gliomas and…”
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Placental FKBP5 genetic and epigenetic variation is associated with infant neurobehavioral outcomes in the RICHS cohort by Paquette, Alison G, Lester, Barry M, Koestler, Devin C, Lesseur, Corina, Armstrong, David A, Marsit, Carmen J

“…Adverse maternal environments can lead to increased fetal exposure to maternal cortisol, which can cause infant neurobehavioral deficits. The placenta…”
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Epigenome-wide scan identifies differentially methylated regions for lung cancer using pre-diagnostic peripheral blood by Zhao, Naisi, Ruan, Mengyuan, Koestler, Devin C., Lu, Jiayun, Marsit, Carmen J., Kelsey, Karl T., Platz, Elizabeth A., Michaud, Dominique S.

“…Background: DNA methylation markers have been associated with lung cancer risk and may identify aetiologically relevant genomic regions, or alternatively, be…”
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A novel Bayesian adaptive design incorporating both primary and secondary endpoints for randomized IIB chemoprevention study of women at increased risk for breast cancer by Gajewski, Byron J, Kimler, Bruce F, Koestler, Devin C, Mudaranthakam, Dinesh Pal, Young, Kate, Fabian, Carol J

“…Our randomized controlled clinical trial will explore the potential of bazedoxifene plus conjugated estrogen to modulate breast tissue-based risk biomarkers as…”
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AHRR methylation in heavy smokers: associations with smoking, lung cancer risk, and lung cancer mortality by Grieshober, Laurie, Graw, Stefan, Barnett, Matt J, Thornquist, Mark D, Goodman, Gary E, Chen, Chu, Koestler, Devin C, Marsit, Carmen J, Doherty, Jennifer A

“…A low level of methylation at cg05575921 in the aryl-hydrocarbon receptor repressor (AHRR) gene is robustly associated with smoking, and some studies have…”
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DNA methylation ageing clocks and pancreatic cancer risk: pooled analysis of three prospective nested case-control studies by Chung, Mei, Ruan, Mengyuan, Zhao, Naisi, Koestler, Devin C., De Vivo, Immaculata, Kelsey, Karl T., Michaud, Dominique S.

“…DNA methylation (DNAm) age may reflect age-related variations in biological changes and abnormalities related to ageing. DNAm age acceleration measures have…”
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DNA Methylation Array Analysis Identifies Profiles of Blood-Derived DNA Methylation Associated With Bladder Cancer by MARSIT, Carmen J, KOESTLER, Devin C, CHRISTENSEN, Brock C, KARAGAS, Margaret R, HOUSEMAN, E. Andres, KELSEY, Karl T

“…Epigenetic alterations in tissues targeted for cancer play a causal role in carcinogenesis. Changes in DNA methylation in nontarget tissues, specifically…”
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