Search Results - "Zimmerman, Kip D."

A practical solution to pseudoreplication bias in single-cell studies by Zimmerman, Kip D., Espeland, Mark A., Langefeld, Carl D.

“…Cells from the same individual share common genetic and environmental backgrounds and are not statistically independent; therefore, they are subsamples or…”
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Hierarchicell: an R-package for estimating power for tests of differential expression with single-cell data by Zimmerman, Kip D, Langefeld, Carl D

“…Study design is a critical aspect of any experiment, and sample size calculations for statistical power that are consistent with that study design are central…”
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Reply to: A balanced measure shows superior performance of pseudobulk methods in single-cell RNA-sequencing analysis by Zimmerman, Kip D., Evans, Ciaran, Langefeld, Carl D.

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Assessment of label-free quantification and missing value imputation for proteomics in non-human primates by Hamid, Zeeshan, Zimmerman, Kip D, Guillen-Ahlers, Hector, Li, Cun, Nathanielsz, Peter, Cox, Laura A, Olivier, Michael

“…Reliable and effective label-free quantification (LFQ) analyses are dependent not only on the method of data acquisition in the mass spectrometer, but also on…”
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Analysis of Trans-Ancestral SLE Risk Loci Identifies Unique Biologic Networks and Drug Targets in African and European Ancestries by Owen, Katherine A., Price, Andrew, Ainsworth, Hannah, Aidukaitis, Bryce N., Bachali, Prathyusha, Catalina, Michelle D., Dittman, James M., Howard, Timothy D., Kingsmore, Kathryn M., Labonte, Adam C., Marion, Miranda C., Robl, Robert D., Zimmerman, Kip D., Langefeld, Carl D., Grammer, Amrie C., Lipsky, Peter E.

“…Systemic lupus erythematosus (SLE) is a multi-organ autoimmune disorder with a prominent genetic component. Individuals of African ancestry (AA) experience the…”
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Single-cell expression quantitative trait loci (eQTL) analysis of SLE-risk loci in lupus patient monocytes by Ghodke-Puranik, Yogita, Jin, Zhongbo, Zimmerman, Kip D, Ainsworth, Hannah C, Fan, Wei, Jensen, Mark A, Dorschner, Jessica M, Vsetecka, Danielle M, Amin, Shreyasee, Makol, Ashima, Ernste, Floranne, Osborn, Thomas, Moder, Kevin, Chowdhary, Vaidehi, Langefeld, Carl D, Niewold, Timothy B

“…Background We performed expression quantitative trait locus (eQTL) analysis in single classical (CL) and non-classical (NCL) monocytes from patients with…”
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Integrative analysis of DNA methylation in discordant twins unveils distinct architectures of systemic sclerosis subsets by Ramos, Paula S, Zimmerman, Kip D, Haddad, Sandra, Langefeld, Carl D, Medsger, Jr, Thomas A, Feghali-Bostwick, Carol A

“…Systemic sclerosis (SSc) is a rare autoimmune fibrosing disease with an incompletely understood genetic and non-genetic etiology. Defining its etiology is…”
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An Isobaric Labeling Approach to Enhance Detection and Quantification of Tissue-Derived Plasma Proteins as Potential Early Disease Biomarkers by Nazli, Sumaiya, Zimmerman, Kip D, Riojas, Angelica M, Cox, Laura A, Olivier, Michael

“…The proteomic analysis of plasma holds great promise to advance precision medicine and identify biomarkers of disease. However, it is likely that many…”
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Bulk and Single-Cell Profiling of Breast Tumors Identifies TREM-1 as a Dominant Immune Suppressive Marker Associated With Poor Outcomes by Pullikuth, Ashok K, Routh, Eric D, Zimmerman, Kip D, Chifman, Julia, Chou, Jeff W, Soike, Michael H, Jin, Guangxu, Su, Jing, Song, Qianqian, Black, Michael A, Print, Cristin, Bedognetti, Davide, Howard-McNatt, Marissa, O'Neill, Stacey S, Thomas, Alexandra, Langefeld, Carl D, Sigalov, Alexander B, Lu, Yong, Miller, Lance D

“…Triggering receptor expressed on myeloid cells (TREM)-1 is a key mediator of innate immunity previously associated with the severity of inflammatory disorders,…”
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Optimization of Imputation Strategies for High-Resolution Gas Chromatography-Mass Spectrometry (HR GC-MS) Metabolomics Data by Ampong, Isaac, Zimmerman, Kip D, Nathanielsz, Peter W, Cox, Laura A, Olivier, Michael

“…Gas chromatography-coupled mass spectrometry (GC-MS) has been used in biomedical research to analyze volatile, non-polar, and polar metabolites in a wide array…”
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Cardiac Molecular Analysis Reveals Aging‐Associated Metabolic Alterations Promoting Glycosaminoglycans Accumulation via Hexosamine Biosynthetic Pathway by Grilo, Luís F., Zimmerman, Kip D., Puppala, Sobha, Chan, Jeannie, Huber, Hillary F., Li, Ge, Jadhav, Avinash Y. L., Wang, Benlian, Li, Cun, Clarke, Geoffrey D., Register, Thomas C., Oliveira, Paulo J., Nathanielsz, Peter W., Olivier, Michael, Pereira, Susana P., Cox, Laura A.

“…Age is a prominent risk factor for cardiometabolic disease, often leading to heart structural and functional changes. However, precise molecular mechanisms…”
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The effectiveness of psychiatric genetic counseling training: An analysis of 13 international workshops by Mack, Tiera, Batallones, Rolan, Morris, Emily, Inglis, Angela, Moldovan, Ramona, McGhee, Kevin, Zimmerman, Kip D., Austin, Jehannine

“…Studies have consistently shown that psychiatric genetic counseling (pGC) helps people with psychiatric conditions by increasing empowerment and self‐efficacy,…”
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Antifibrotic factor KLF4 is repressed by the miR-10/TFAP2A/TBX5 axis in dermal fibroblasts: insights from twins discordant for systemic sclerosis by Malaab, Maya, Renaud, Ludivine, Takamura, Naoko, Zimmerman, Kip D, da Silveira, Willian A, Ramos, Paula S, Haddad, Sandra, Peters-Golden, Marc, Penke, Loka R, Wolf, Bethany, Hardiman, Gary, Langefeld, Carl D, Medsger, Thomas A, Feghali-Bostwick, Carol A

“…Systemic sclerosis (SSc) is a complex disease of unknown aetiology in which inflammation and fibrosis lead to multiple organ damage. There is currently no…”
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Epigenetic methylation in Eosinophilic Esophagitis: Molecular ageing and novel biomarkers for treatment response by Jensen, Elizabeth T., Langefeld, Carl D., Zimmerman, Kip D., Howard, Timothy D., Dellon, Evan S.

“…Background Treatment failure in eosinophilic esophagitis (EoE) is common. We hypothesize that DNA methylation differs between patients by treatment response to…”
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Maternal obesity alters offspring liver and skeletal muscle metabolism in early post‐puberty despite maintaining a normal post‐weaning dietary lifestyle by Ampong, Isaac, Zimmerman, Kip D., Perumalla, Danu S., Wallis, Katharyn E., Li, Ge, Huber, Hillary F., Li, Cun, Nathanielsz, Peter W., Cox, Laura A., Olivier, Michael

“…Maternal obesity (MO) during pregnancy is linked to increased and premature risk of age‐related metabolic diseases in the offspring. However, the underlying…”
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Integrated multi-omics analysis of brain aging in female nonhuman primates reveals altered signaling pathways relevant to age-related disorders by Cox, Laura A., Puppala, Sobha, Chan, Jeannie, Zimmerman, Kip D., Hamid, Zeeshan, Ampong, Isaac, Huber, Hillary F., Li, Ge, Jadhav, Avinash Y.L., Wang, Benlian, Li, Cun, Baxter, Mark G., Shively, Carol, Clarke, Geoffrey D., Register, Thomas C., Nathanielsz, Peter W., Olivier, Michael

“…The prefrontal cortex (PFC) has been implicated as a key brain region responsible for age-related cognitive decline. Little is known about aging-related…”
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miR-181a Mediates Inflammatory Gene Expression After Intracerebral Hemorrhage: An Integrated Analysis of miRNA-seq and mRNA-seq in a Swine ICH Model by Walsh, Kyle B., Zimmerman, Kip D., Zhang, Xiang, Demel, Stacie L., Luo, Yu, Langefeld, Carl D., Wohleb, Eric, Schulert, Grant, Woo, Daniel, Adeoye, Opeolu

“…Intracerebral hemorrhage (ICH) is a severe neurological disorder with no proven treatment. Inflammation after ICH contributes to clinical outcomes, but the…”
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Genetic landscape of Gullah African Americans by Zimmerman, Kip D., Schurr, Theodore G., Chen, Wei‐Min, Nayak, Uma, Mychaleckyj, Josyf C., Quet, Queen, Moultrie, Lee H., Divers, Jasmin, Keene, Keith L., Kamen, Diane L., Gilkeson, Gary S., Hunt, Kelly J., Spruill, Ida J., Fernandes, Jyotika K., Aldrich, Melinda C., Reich, David, Garvey, W. Timothy, Langefeld, Carl D., Sale, Michèle M., Ramos, Paula S.

“…Objectives Gullah African Americans are descendants of formerly enslaved Africans living in the Sea Islands along the coast of the southeastern U.S., from…”
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Moderate maternal nutrient reduction in pregnancy alters fatty acid oxidation and RNA splicing in the nonhuman primate fetal liver by Zimmerman, Kip D, Chan, Jeannie, Glenn, Jeremy P, Birnbaum, Shifra, Li, Cun, Nathanielsz, Peter W, Olivier, Michael, Cox, Laura A

“…Fetal liver tissue collected from a nonhuman primate (NHP) baboon model of maternal nutrient reduction (MNR) at four gestational time points (90, 120, 140, and…”
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Modulation of neural gene networks by estradiol in old rhesus macaque females by Cervera-Juanes, Rita, Zimmerman, Kip D., Wilhelm, Larry, Zhu, Dongqin, Bodie, Jessica, Kohama, Steven G., Urbanski, Henryk F.

“…The postmenopausal decrease in circulating estradiol (E2) levels has been shown to contribute to several adverse physiological and psychiatric effects. To…”
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