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Introduction To Gene Enrichment Analysis Tools, Rolando Garcia-Milian 2015 Yale University

Introduction To Gene Enrichment Analysis Tools, Rolando Garcia-Milian

Rolando Garcia-Milian

Bioinformatics enrichment tools play an important role in identifying, annotating, and functionally analyzing large list of genes generated by high-throughput technologies (e.g. microarrary, RNA-seq, ChIP-chip). This workshop will provide an overview of the principle, type of enrichments, and the infrastructure of enrichment tools. By using concrete examples, it will also introduce some of the most popular tools for gene enrichment analysis such as DAVID, GSEA, and WebGestalt.


Physician’S Narcotic Prescribing Practice Patterns Of Putnam County, Tennessee1, Sam Barnes MD, James B. Talmage MD, Tor Guimaraes Ph.D 2015 Occupational Health Center

Physician’S Narcotic Prescribing Practice Patterns Of Putnam County, Tennessee1, Sam Barnes Md, James B. Talmage Md, Tor Guimaraes Ph.D

Tennessee Medicine E-Journal

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Targeting Cell Cycle Proteins In Breast Cancer Cells With Sirna By Using Lipid-Substituted Polyethylenimines, Manoj Parmar, Hamidreza Montazeri Aliabadi, Parvin Mahdipoor, Cezary Kucharski, Robert Maranchuk, Judith C. Hugh, Hasan Uludag 2015 Chapman University

Targeting Cell Cycle Proteins In Breast Cancer Cells With Sirna By Using Lipid-Substituted Polyethylenimines, Manoj Parmar, Hamidreza Montazeri Aliabadi, Parvin Mahdipoor, Cezary Kucharski, Robert Maranchuk, Judith C. Hugh, Hasan Uludag

Pharmacy Faculty Articles and Research

The cell cycle proteins are key regulators of cell cycle progression whose de-regulation is one of the causes of breast cancer. RNA interference (RNAi) is an endogenous mechanism to regulate gene expression and it could serve as the basis of regulating aberrant proteins including cell cycle proteins. Since the delivery of small interfering RNA (siRNA) is a main barrier for implementation of RNAi therapy, we explored the potential of a non-viral delivery system, 2.0 kDa polyethylenimines substituted with linoleic acid and caprylic acid, for this purpose. Using a library of siRNAs against cell cycle proteins, we identified cell division ...


"Targeting Cell Cycle Proteins In Breast Cancer Cells With Sirna By Using Lipid-Substituted Polyethylenimines" Data Files, Manoj Parmar, Hamidreza Montazeri Aliabadi, Parvin Mahdipoor, Cezary Kucharski, Robert Maranchuk, Judith C. Hugh, Hasan Uludag 2015 Chapman University

"Targeting Cell Cycle Proteins In Breast Cancer Cells With Sirna By Using Lipid-Substituted Polyethylenimines" Data Files, Manoj Parmar, Hamidreza Montazeri Aliabadi, Parvin Mahdipoor, Cezary Kucharski, Robert Maranchuk, Judith C. Hugh, Hasan Uludag

Pharmacy Faculty Data Sets

The cell cycle proteins are key regulators of cell cycle progression whose de-regulation is one of the causes of breast cancer. RNA interference (RNAi) is an endogenous mechanism to regulate gene expression and it could serve as the basis of regulating aberrant proteins including cell cycle proteins. Since the delivery of small interfering RNA (siRNA) is a main barrier for implementation of RNAi therapy, we explored the potential of a non-viral delivery system, 2.0 kDa polyethylenimines substituted with linoleic acid and caprylic acid, for this purpose. Using a library of siRNAs against cell cycle proteins, we identified cell division ...


The Coca Plant And Bolivian Identity, Matthew G. Russo 2015 Bowling Green State University

The Coca Plant And Bolivian Identity, Matthew G. Russo

International ResearchScape Journal

ABSTRACT

The political battle rages between the U.S. government, the U.N. and the Bolivian President, Evo Morales, about his efforts to protect, legalize and preserve the symbol of the Andean indigenous identity: the coca plant. The human rights of indigenous populations are being violated by culturally insensitive governments in compliance with U.S. and U.N. law. The questions posed are: Is coca cocaine? What are the economic benefits of the production of coca and who benefits? What is the relationship between coca and Bolivian identity? What would be the impact in the global community if coca is ...


Effects Of Cannabidiol On Contractions And Calcium Signaling In Rat Ventricular Myocytes, Ramez M. Ali, Lina T. Al Kury, Keun-Hang Susan Yang, Anwar Qureshi, Mohanraj Rajesh, Sehamuddin Galadari, Yaroslav M. Shuba, Frank Christopher Howarth, Murat Oz 2015 UAE University, Al Ain, Abu Dhabi, UAE

Effects Of Cannabidiol On Contractions And Calcium Signaling In Rat Ventricular Myocytes, Ramez M. Ali, Lina T. Al Kury, Keun-Hang Susan Yang, Anwar Qureshi, Mohanraj Rajesh, Sehamuddin Galadari, Yaroslav M. Shuba, Frank Christopher Howarth, Murat Oz

Mathematics, Physics, and Computer Science Faculty Articles and Research

Cannabidiol (CBD), a major nonpsychotropic cannabinoid found in Cannabis plant, has been shown to influence cardiovascular functions under various physiological and pathological conditions. In the present study, the effects of CBD on contractility and electrophysiological properties of rat ventricular myocytes were investigated. Video edge detection was used to measure myocyte shortening. Intracellular Ca2+ was measured in cells loaded with the Ca2+ sensitive fluorescent indicator fura-2 AM. Whole-cell patch clamp was used to measure action potential and Ca2+ currents. Radioligand binding was employed to study pharmacological characteristics of CBD binding. CBD (1 μM) caused a significant decrease in the amplitudes of ...


Pharmaceutical Stability Of Promethazine In Iv Infusion Fluids, Josh Knoebel, Ruth Choi, Michael Kapraly, Brandon Kime, Kaysie J. Brittenham, Denise S. Simpson, Rebecca J. Gryka, Samson Amos 2014 Cedarville University

Pharmaceutical Stability Of Promethazine In Iv Infusion Fluids, Josh Knoebel, Ruth Choi, Michael Kapraly, Brandon Kime, Kaysie J. Brittenham, Denise S. Simpson, Rebecca J. Gryka, Samson Amos

Pharmacy and Nursing Student Research and Evidence-Based Medicine Poster Session

BACKGROUND: Promethazine is an antiemetic often administered intravenously in healthcare facilities for postoperative nausea and vomiting. Due to potential adverse events that may result with intravenous push administration, some safety-minded healthcare facilities have elected to use alternative methods of administration. One such method is the intravenous piggyback (IVPB). However, limited stability data exist for promethazine in intravenous solutions.

OBJECTIVE: To analyze the stability over time of promethazine dissolved in commonly used intravenous infusion fluids when exposed to various light and temperature conditions.

PROPOSED METHODS: Promethazine will be formulated into IVPB bags of normal saline, dextrose 5% in water and Lactated ...


A Measure Of The Amount Of Vitamin K Leached Out From Cooked Greens In Potlicker, Douglas Anderson, Kara Bobka, Matthew Johnson, Chelsea Manion, Samuel Tesfaye, Rebecca Widder, Joshua Willoughby 2014 Cedarville University

A Measure Of The Amount Of Vitamin K Leached Out From Cooked Greens In Potlicker, Douglas Anderson, Kara Bobka, Matthew Johnson, Chelsea Manion, Samuel Tesfaye, Rebecca Widder, Joshua Willoughby

Pharmacy and Nursing Student Research and Evidence-Based Medicine Poster Session

Vitamin K, a fat-soluble vitamin synthesized by plants, is found in large quantities within green leafy vegetables, such as collard, mustard, turnip and spinach. These greens are commonly cooked with fat to enhance flavor. The vitamin K in these greens can leach out during cooking into the liquid portion of the pot, which is referred to as potlicker. Vitamin K activates clotting factors (II, VII, IX, and X,), which can lead to the formation of a thromboembolism (blood clot). People at a higher risk of forming blood clots are often prescribed warfarin, an anti-coagulant that acts as a competitive inhibitor ...


Low Molecular Weight Glucosamine/L-Lactide Copolymers As Potential Carriers For The Development Of A Sustained Rifampicin Release System: Mycobacterium Smegmatis As A Tuberculosis Model, Jorge Ragusa 2014 University of Nebraska-Lincoln

Low Molecular Weight Glucosamine/L-Lactide Copolymers As Potential Carriers For The Development Of A Sustained Rifampicin Release System: Mycobacterium Smegmatis As A Tuberculosis Model, Jorge Ragusa

Chemical & Biomolecular Engineering Theses, Dissertations, & Student Research

Tuberculosis, a highly contagious disease, ranks as the second leading cause of death from an infectious disease, and remains a major global health problem. In 2013, 9 million new cases were diagnosed and 1.5 million people died worldwide from tuberculosis. This dissertation aims at developing a new, ultrafine particle-based efficient antibiotic delivery system for the treatment of tuberculosis. The carrier material to make the rifampicin (RIF)-loaded particles is a low molecular weight star-shaped polymer produced from glucosamine (molecular core building unit) and L-lactide (GluN-LLA). Stable particles with a very high 50% drug loading capacity were made via electrohydrodynamic ...


Data Sources Regarding The Nonmedical Use Of Pharmaceutical Opioids In The United States, Teresa D. Schmidt, Amanuel Zimam, Alexandra Nielsen, Wayne Wakeland 2014 Portland State University

Data Sources Regarding The Nonmedical Use Of Pharmaceutical Opioids In The United States, Teresa D. Schmidt, Amanuel Zimam, Alexandra Nielsen, Wayne Wakeland

Systems Science Faculty Publications and Presentations

Objective—Recent increases in the nonmedical use of pharmaceutical opioids and the adverse outcomes associated with them have stimulated a large amount of research and data collection on this public health problem. Systematic organization of the available data sources is needed to facilitate ongoing research, analysis, and evaluation. This work offers a systematic categorization of data sources regarding the nonmedical use of pharmaceutical opioids in the United States.

Methods—A list of keywords regarding the nonmedical use of pharmaceutical opioids was used to conduct systematic searches in PubMed®. Filtration of search results generated 92 peer-reviewed academic articles, published between January ...


“So You Think You Have A Drug You Want To Develop”, Mark S. Klempner 2014 University of Massachusetts Medical School

“So You Think You Have A Drug You Want To Develop”, Mark S. Klempner

UMass Center for Clinical and Translational Science Seminar Series

Mark Klempner, MD, Executive Vice Chancellor, MassBiologics of UMass Medical School and Professor of Medicine, describes MassBiologics and their process for developing a new medicine. MassBiologics is the only non-profit, FDA-licensed manufacturer of vaccines and biologics in the United States.


Human Breast Progenitor Cell Numbers Are Regulated By Wnt And Tbx3, Lisa M. Arendt, Jessica St. Laurent, Ania Wronski, Silvia Caballero, Stephen Lyle, Stephen P. Naber, Charlotte Kuperwasser 2014 Tufts University School of Medicine

Human Breast Progenitor Cell Numbers Are Regulated By Wnt And Tbx3, Lisa M. Arendt, Jessica St. Laurent, Ania Wronski, Silvia Caballero, Stephen Lyle, Stephen P. Naber, Charlotte Kuperwasser

Open Access Articles

BACKGROUND: Although human breast development is mediated by hormonal and non-hormonal means, the mechanisms that regulate breast progenitor cell activity remain to be clarified. This limited understanding of breast progenitor cells has been due in part to the lack of appropriate model systems to detect and characterize their properties.

METHODS: To examine the effects of WNT signaling and TBX3 expression on progenitor activity in the breast, primary human mammary epithelial cells (MEC) were isolated from reduction mammoplasty tissues and transduced with lentivirus to overexpress WNT1 or TBX3 or reduce expression of their cognate receptors using shRNA. Changes in progenitor activity ...


Reassessment Of The Role Of Tsc, Mtorc1 And Micrornas In Amino Acids-Meditated Translational Control Of Top Mrnas, Ilona Patursky-Polischuk, Judith Kasir, Rachel Miloslavski, Zvi Hayouka, Mirit Hausner-Hanochi, Miri Stolovich-Rain, Pinchas Tsukerman, Moshe Biton, Rajini R. Mudhasani, Stephen N. Jones, Oded Meyuhas 2014 he Hebrew University-Hadassah Medical School

Reassessment Of The Role Of Tsc, Mtorc1 And Micrornas In Amino Acids-Meditated Translational Control Of Top Mrnas, Ilona Patursky-Polischuk, Judith Kasir, Rachel Miloslavski, Zvi Hayouka, Mirit Hausner-Hanochi, Miri Stolovich-Rain, Pinchas Tsukerman, Moshe Biton, Rajini R. Mudhasani, Stephen N. Jones, Oded Meyuhas

Open Access Articles

TOP mRNAs encode components of the translational apparatus, and repression of their translation comprises one mechanism, by which cells encountering amino acid deprivation downregulate the biosynthesis of the protein synthesis machinery. This mode of regulation involves TSC as knockout of TSC1 or TSC2 rescued TOP mRNAs translation in amino acid-starved cells. The involvement of mTOR in translational control of TOP mRNAs is demonstrated by the ability of constitutively active mTOR to relieve the translational repression of TOP mRNA upon amino acid deprivation. Consistently, knockdown of this kinase as well as its inhibition by pharmacological means blocked amino acid-induced translational activation ...


Hepatic Carboxylesterase 1 Is Induced By Glucose And Regulates Postprandial Glucose Levels, Jiesi Xu, Liya Yin, Yang Xu, Yuanyuan Li, Munaf Zalzala, Gang Cheng, Yanqiao Zhang 2014 University of Akron Main Campus

Hepatic Carboxylesterase 1 Is Induced By Glucose And Regulates Postprandial Glucose Levels, Jiesi Xu, Liya Yin, Yang Xu, Yuanyuan Li, Munaf Zalzala, Gang Cheng, Yanqiao Zhang

Department of Chemical and Biomolecular Engineering

Metabolic syndrome, characterized by obesity, hyperglycemia, dyslipidemia and hypertension, increases the risks for cardiovascular disease, diabetes and stroke. Carboxylesterase 1 (CES1) is an enzyme that hydrolyzes triglycerides and cholesterol esters, and is important for lipid metabolism. Our previous data show that over-expression of mouse hepatic CES1 lowers plasma glucose levels and improves insulin sensitivity in diabetic ob/ob mice. In the present study, we determined the physiological role of hepatic CES1 in glucose homeostasis. Hepatic CES1 expression was reduced by fasting but increased in diabetic mice. Treatment of mice with glucose induced hepatic CES1 expression. Consistent with the in vivo ...


B-Type Natriuretic Peptide And C-Reactive Protein In The Prediction Of Atrial Fibrillation Risk: The Charge-Af Consortium Of Community-Based Cohort Studies, Moritz F. Sinner, Emelia J. Benjamin, Alvaro Alonso, David D. McManus 2014 Ludwig-MaximiliansUniversity

B-Type Natriuretic Peptide And C-Reactive Protein In The Prediction Of Atrial Fibrillation Risk: The Charge-Af Consortium Of Community-Based Cohort Studies, Moritz F. Sinner, Emelia J. Benjamin, Alvaro Alonso, David D. Mcmanus

Meyers Primary Care Institute Publications and Presentations

AIMS: B-type natriuretic peptide (BNP) and C-reactive protein (CRP) predict atrial fibrillation (AF) risk. However, their risk stratification abilities in the broad community remain uncertain. We sought to improve risk stratification for AF using biomarker information.

METHODS AND RESULTS: We ascertained AF incidence in 18 556 Whites and African Americans from the Atherosclerosis Risk in Communities Study (ARIC, n=10 675), Cardiovascular Health Study (CHS, n = 5043), and Framingham Heart Study (FHS, n = 2838), followed for 5 years (prediction horizon). We added BNP (ARIC/CHS: N-terminal pro-B-type natriuretic peptide; FHS: BNP), CRP, or both to a previously reported AF risk ...


Quantifying The Effect Of A Novel Topical Hyaluronic-Acid Phosphatidylethanolamine Cream On The Epidermis, Caitlin J. Symonette 2014 The University of Western Ontario

Quantifying The Effect Of A Novel Topical Hyaluronic-Acid Phosphatidylethanolamine Cream On The Epidermis, Caitlin J. Symonette

University of Western Ontario - Electronic Thesis and Dissertation Repository

With aging, keratinocytes have diminished proliferative capacity resulting in atrophic skin with reduced barrier function. This investigation evaluates the effect of daily topical applications of a novel high-molecular weight hyaluronan cream (HA-PE) on keratinocyte renewal and epidermal thickness. Unmodified hyaluronan and HA-PE were mixed separately into a vehicle cream. Each topical formulation was applied daily onto the shaved backs of aged female C57BL6 mice. Full-thickness biopsies of treated skin were obtained for analysis of keratinocyte proliferation, keratinocyte differentiation, and local inflammation at days 1, 5, and 10 of cream application. In addition, a cardiac puncture was performed for serum C-reactive ...


Treating Cocaine Dependency With Psychopharmacotherapy And Behavioral Therapy, Robyn Liebman 2014 Chapman University

Treating Cocaine Dependency With Psychopharmacotherapy And Behavioral Therapy, Robyn Liebman

e-Research: A Journal of Undergraduate Work

Cocaine is an addictive drug that affects more than 14 million people globally, according to the United Nations. This paper is a conceptual meta-analysis of numerous studies that tested the effects of psychopharmacological therapy along with behavioral therapy in the treatment of cocaine addiction. It is hypothesized that cocaine dependent individuals treated with a combination of psychopharmacological and behavioral therapies will be less likely to use cocaine. Measurements of cocaine use throughout the experiments were generally assessed by urine screenings. Results indicate that there is more evidence that a combination of psychopharmacological and behavioral therapies will reduce cocaine use. There ...


Il-1 Signaling In Obesity-Induced Hepatic Lipogenesis And Steatosis, Kimberly A. Negrin, Rachel J. Roth Flach, Marina T. DiStefano, Anouch Matevossian, Randall H. Friedline, Dae Young Jung, Jason K. Kim, Michael P. Czech 2014 University of Massachusetts Medical School

Il-1 Signaling In Obesity-Induced Hepatic Lipogenesis And Steatosis, Kimberly A. Negrin, Rachel J. Roth Flach, Marina T. Distefano, Anouch Matevossian, Randall H. Friedline, Dae Young Jung, Jason K. Kim, Michael P. Czech

Open Access Articles

Non-alcoholic fatty liver disease is prevalent in human obesity and type 2 diabetes, and is characterized by increases in both hepatic triglyceride accumulation (denoted as steatosis) and expression of pro-inflammatory cytokines such as IL-1beta. We report here that the development of hepatic steatosis requires IL-1 signaling, which upregulates Fatty acid synthase to promote hepatic lipogenesis. Using clodronate liposomes to selectively deplete liver Kupffer cells in ob/ob mice, we observed remarkable amelioration of obesity-induced hepatic steatosis and reductions in liver weight, triglyceride content and lipogenic enzyme expressions. Similar results were obtained with diet-induced obese mice, although visceral adipose tissue macrophage ...


Cx3cl1 (Fractalkine) Protein Expression In Normal And Degenerating Mouse Retina: In Vivo Studies, Marina Zieger, Peter K. Ahnelt, Pavel Uhrin 2014 University of Massachusetts Medical School

Cx3cl1 (Fractalkine) Protein Expression In Normal And Degenerating Mouse Retina: In Vivo Studies, Marina Zieger, Peter K. Ahnelt, Pavel Uhrin

Open Access Articles

We aimed to investigate fractalkine (CX3CL1) protein expression in wild type (wt) retina and its alterations during retinal degeneration in mouse model (rd10) of retinitis pigmentosa. Forms of retinal protein CX3CL1, total protein and mRNA levels of CX3CL1 were analyzed at postnatal days (P) 5, 10, 14, 22, 30, 45, and 60 by Western blotting and real-time PCR. Cellular sources of CX3CL1 were investigated by in situ hybridization histochemistry (ISH) and using transgenic (CX3CL1cherry) mice. The immunoblots revealed that in both, wt and rd10 retinas, a membrane integrated approximately 100 kDa CX3CL1 form and a cleaved approximately 85 kDa CX3CL1 ...


Pharmacological And Pre-Clinical Testing Of 5-Nidr As A New Therapeutic Agent Against Brain Cancer, Seol Casey Kim, Anthony Berdis, Jung-Suk Choi 2014 Cleveland State University

Pharmacological And Pre-Clinical Testing Of 5-Nidr As A New Therapeutic Agent Against Brain Cancer, Seol Casey Kim, Anthony Berdis, Jung-Suk Choi

Undergraduate Research Posters 2014

Approximately 4,000 children in the United States are diagnosed annually with a brain tumor. Brain cancers are the deadliest of all pediatric cancers as they have survival rates of less than 20%. Although surgery and radiation therapy are widely used to treat adult patients, chemotherapy is the primary therapeutic option for children. One important chemotherapeutic agent is temozolomide, an alkylating agent that causes cell death by damaging DNA. In this project, we tested the ability of a specific non-natural nucleoside developed in our lab, designated 5-NIdR, to increase the efficacy of temozolomide against brain cancer. Cell-based studies demonstrate that ...


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