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Ingenuity pathway analysis

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https://www.readbyqxmd.com/read/29346407/relaxin-reverses-inflammatory-and-immune-signals-in-aged-hearts
#1
Brian Martin, Beth Ann Gabris-Weber, Rajiv Reddy, Guillermo Romero, Ansuman Chattopadhyay, Guy Salama
BACKGROUND: 'Healthy' aging drives structural and functional changes in the heart including maladaptive electrical remodeling, fibrosis and inflammation, which lower the threshold for cardiovascular diseases such as heart failure (HF) and atrial fibrillation (AF). Despite mixed results in recent clinical trials, Relaxin-therapy for 2-days could reduce mortality by 37% at 180-days post-treatment, in patients with acute decompensated HF. Relaxin's short life-span (hours) but long-lasting protective actions led us to test the hypothesis that relaxin acts at a genomic level to reverse maladaptive remodeling in aging and HF...
2018: PloS One
https://www.readbyqxmd.com/read/29345255/pure-mechanistic-analysis-of-additive-neuroprotective-effects-between-baicalin-and-jasminoidin-in-ischemic-stroke-mice
#2
Peng-Qian Wang, Qiong Liu, Wen-Juan Xu, Ya-Nan Yu, Ying-Ying Zhang, Bing Li, Jun Liu, Zhong Wang
Both baicalin (BA) and jasminoidin (JA) are active ingredients in Chinese herb medicine Scutellaria baicalensis and Fructus gardeniae, respectively. They have been shown to exert additive neuroprotective action in ischemic stroke models. In this study we used transcriptome analysis to explore the pure therapeutic mechanisms of BA, JA and their combination (BJ) contributing to phenotype variation and reversal of pathological processes. Mice with middle cerebral artery obstruction were treated with BA, JA, their combination (BJ), or concha margaritifera (CM)...
January 18, 2018: Acta Pharmacologica Sinica
https://www.readbyqxmd.com/read/29344429/pathway-analysis-of-gene-expression-of-e14-versus-e18-fetal-fibroblasts
#3
Michael S Hu, Mimi R Borrelli, Michael Januszyk, Anna Luan, Samir Malhotra, Graham G Walmsley, Wan Xing Hong, Ruth Tevlin, Geoffrey C Gurtner, Michael T Longaker, Hermann P Lorenz
Objective: Fetuses early in gestation heal skin wounds without forming scars. The biological mechanisms behind this process are largely unknown. Fibroblasts, however, are cells known to be intimately involved in wound healing and scar formation. We examined fibroblasts in different stages of development to characterize differences in gene expression that may result in the switch from regenerative wound repair to repair with scarring. Approach: Fibroblasts were isolated and cultured from the back skin of BALB/c wild-type mouse fetuses at embryonic day (E)14 and E18 (n = 10)...
January 1, 2018: Advances in Wound Care
https://www.readbyqxmd.com/read/29344347/epigenetic-alterations-in-tramp-mice-epigenome-dna-methylation-profiling-using-medip-seq
#4
Wenji Li, Ying Huang, Davit Sargsyan, Tin Oo Khor, Yue Guo, Limin Shu, Anne Yuqing Yang, Chengyue Zhang, Ximena Paredes-Gonzalez, Michael Verzi, Ronald P Hart, Ah-Ng Kong
Purpose: We investigated the genomic DNA methylation profile of prostate cancer in transgenic adenocarcinoma of the mouse prostate (TRAMP) cancer model and to analyze the crosstalk among targeted genes and the related functional pathways. Methods: Prostate DNA samples from 24-week-old TRAMP and C57BL/6 male mice were isolated. The DNA methylation profiles were analyzed by methylated DNA immunoprecipitation (MeDIP) followed by next-generation sequencing (MeDIP-seq)...
2018: Cell & Bioscience
https://www.readbyqxmd.com/read/29342213/circulating-neutrophil-transcriptome-may-reveal-intracranial-aneurysm-signature
#5
Vincent M Tutino, Kerry E Poppenberg, Kaiyu Jiang, James N Jarvis, Yijun Sun, Ashish Sonig, Adnan H Siddiqui, Kenneth V Snyder, Elad I Levy, John Kolega, Hui Meng
BACKGROUND: Unruptured intracranial aneurysms (IAs) are typically asymptomatic and undetected except for incidental discovery on imaging. Blood-based diagnostic biomarkers could lead to improvements in IA management. This exploratory study examined circulating neutrophils to determine whether they carry RNA expression signatures of IAs. METHODS: Blood samples were collected from patients receiving cerebral angiography. Eleven samples were collected from patients with IAs and 11 from patients without IAs as controls...
2018: PloS One
https://www.readbyqxmd.com/read/29337425/distinct-gene-expression-profiles-and-regulation-networks-of-nasal-polyps-in-eosinophilic-and-non-eosinophilic-chronic-rhinosinusitis
#6
Naoko Okada, Tsuguhisa Nakayama, Daiya Asaka, Natsuki Inoue, Tadao Tsurumoto, Shinya Takaishi, Nobuyoshi Otori, Hiromi Kojima, Akio Matsuda, Keisuke Oboki, Hirohisa Saito, Kenji Matsumoto, Mamoru Yoshikawa
BACKGROUND: Chronic rhinosinusitis with nasal polyps (CRSwNP) is known to have 2 phenotypes in East Asia. Eosinophilic CRSwNP (ECRSwNP), defined as tissue eosinophilia and easily recurrent, is distinguished from other non-eosinophilic CRSwNP (NECRSwNP) types. However, the pathogenesis of each remains unclear. METHODS: Nasal polyp tissues from ECRS (ECRSwNP) and NECRS (NECRSwNP) patients were obtained, and their comprehensive gene expression profiles were investigated by microarray analysis...
January 16, 2018: International Forum of Allergy & Rhinology
https://www.readbyqxmd.com/read/29329366/delineating-differential-regulatory-signatures-of-the-human-transcriptome-in-the-choriodecidua-and-myometrium-at-term-labor
#7
Sylvia Lui, Cyntia Duval, Farkhondeh Farrokhnia, Sylvie Girard, Lynda K Harris, Clare L Tower, Adam Stevens, Rebecca L Jones
Background: Preterm deliveries remain the leading cause of neonatal morbidity and mortality. Current therapies target only myometrial contractions and are largely ineffective. As labor involves multiple coordinated events across maternal and fetal tissues, identifying fundamental regulatory pathways of normal term labor is vital to understanding successful parturition and consequently labor pathologies. We aimed to identify transcriptomic signatures of human normal term labor of two tissues: in the fetal-facing choriodecidua and the maternal myometrium...
January 10, 2018: Biology of Reproduction
https://www.readbyqxmd.com/read/29321036/maternal-engineered-nanomaterial-inhalation-during-gestation-alters-the-fetal-transcriptome
#8
P A Stapleton, Q A Hathaway, C E Nichols, A B Abukabda, M V Pinti, D L Shepherd, C R McBride, J Yi, V C Castranova, J M Hollander, T R Nurkiewicz
BACKGROUND: The integration of engineered nanomaterials (ENM) is well-established and widespread in clinical, commercial, and domestic applications. Cardiovascular dysfunctions have been reported in adult populations after exposure to a variety of ENM. As the diversity of these exposures continues to increase, the fetal ramifications of maternal exposures have yet to be determined. We, and others, have explored the consequences of ENM inhalation during gestation and identified many cardiovascular and metabolic outcomes in the F1 generation...
January 10, 2018: Particle and Fibre Toxicology
https://www.readbyqxmd.com/read/29317699/inflammatory-proteomic-network-analysis-of-statin-treated-and-lipopolysaccharide-activated-macrophages
#9
Abu Hena M Kamal, Jayanta K Chakrabarty, S M Nashir Udden, Md Hasan Zaki, Saiful M Chowdhury
A significant component of immune biology research is the investigation of protein encoding genes that play central roles in contributing inflammatory response. A gel-free quantitative bottom-up proteomics study was performed on immune cell macrophages after the combined treatment of lipopolysaccharide (LPS) and statin drugs using mass spectrometry and a detailed bioinformatics analyses were conducted. Systematic bioinformatics analysis was applied for discovering novel relationships among proteins and effects of statin and lipopolysaccharide in macrophage cells...
January 9, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29309562/transcriptomic-analysis-reveals-novel-mechanisms-mediating-islet-dysfunction-in-the-intrauterine-growth-restricted-iugr-rat
#10
Cetewayo S Rashid, Yu-Chin Lien, Amita Bansal, Lane J Jaeckle-Santos, Changhong Li, Kyoung-Jae Won, Rebecca A Simmons
Intrauterine growth restriction (IUGR) increases the risk of developing Type 2 Diabetes in adulthood. Previous studies employing bilateral uterine artery ligation in a rat model of IUGR have revealed age-associated decline in glucose homeostasis and islet function. To elucidate novel mechanisms contributing to IUGR pathogenesis, the islet transcriptome was sequenced at 2 weeks of age, when in vivo glucose tolerance is mildly impaired, and at 10 weeks of age, when rats are hyperglycemic and have reduced β-cell mass...
January 4, 2018: Endocrinology
https://www.readbyqxmd.com/read/29304863/gm-csf-overexpression-after-influenza-a-virus-infection-prevents-mortality-and-moderates-m1-like-airway-monocyte-macrophage-polarization
#11
E Scott Halstead, Todd M Umstead, Michael L Davies, Yuka Imamura Kawasawa, Patricia Silveyra, Judie Howyrlak, Linlin Yang, Weichao Guo, Sanmei Hu, Eranda Kurundu Hewage, Zissis C Chroneos
BACKGROUND: Influenza A viruses cause life-threatening pneumonia and lung injury in the lower respiratory tract. Application of high GM-CSF levels prior to infection has been shown to reduce morbidity and mortality from pathogenic influenza infection in mice, but the mechanisms of protection and treatment efficacy have not been established. METHODS: Mice were infected intranasally with influenza A virus (PR8 strain). Supra-physiologic levels of GM-CSF were induced in the airways using the double transgenic GM-CSF (DTGM) or littermate control mice starting on 3 days post-infection (dpi)...
January 5, 2018: Respiratory Research
https://www.readbyqxmd.com/read/29301248/differences-in-the-plasma-proteome-of-patients-with-hypothyroidism-before-and-after-thyroid-hormone-replacement-a-proteomic-analysis
#12
Assim A Alfadda, Hicham Benabdelkamel, Afshan Masood, Anwar A Jammah, Aishah A Ekhzaimy
Thyroid hormone is a potent stimulator of metabolism, playing a critical role in regulating energy expenditure and in key physiological mechanisms, such as growth and development. Although administration of thyroid hormone in the form of levo thyroxine (l-thyroxine) has been used to treat hypothyroidism for many years, the precise molecular basis of its physiological actions remains uncertain. Our objective was to define the changes in circulating protein levels that characterize alterations in thyroid hormone status...
January 1, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29299995/mirna-and-proteomic-dysregulation-in-non-small-cell-lung-cancer-in-response-to-cigarette-smoke
#13
Niraj Babu, Jayshree Advani, Hitendra S Solanki, Krishna Patel, Ankit P Jain, Aafaque Ahmad Khan, Aneesha Radhakrishnan, Nandini A Sahasrabuddhe, Premendu Prakash Mathur, Bipin Nair, T S Keshava Prasad, Xiaofei Chang, David Sidransky, Harsha Gowda, Aditi Chatterjee
BACKGROUND: Dysregulation of miRNAs is associated with the development of non-small cell lung cancer (NSCLC). It is imperative to study the dysregulation of miRNAs by cigarette smoke which will affect their targets, either leading to the overexpression of oncoproteins or downregulation of tumor suppressor proteins. OBJECTIVE AND METHODS: In this study, we carried out miRNA sequencing and SILAC-based proteomic analysis of H358 cells chronically exposed to cigarette smoke condensate...
January 3, 2018: MicroRNA
https://www.readbyqxmd.com/read/29295516/impact-of-consuming-extra-virgin-olive-oil-or-nuts-within-a-mediterranean-diet-on-dna-methylation-in-peripheral-white-blood-cells-within-the-predimed-navarra-randomized-controlled-trial-a-role-for-dietary-lipids
#14
Ana Arpón, Fermín I Milagro, Cristina Razquin, Dolores Corella, Ramón Estruch, Montserrat Fitó, Amelia Marti, Miguel A Martínez-González, Emilio Ros, Jordi Salas-Salvadó, José-Ignacio Riezu-Boj, J Alfredo Martínez
DNA methylation could be reversible and mouldable by environmental factors, such as dietary exposures. The objective was to analyse whether an intervention with two Mediterranean diets, one rich in extra-virgin olive oil (MedDiet + EVOO) and the other one in nuts (MedDiet + nuts), was influencing the methylation status of peripheral white blood cells (PWBCs) genes. A subset of 36 representative individuals were selected within the PREvención con DIeta MEDiterránea (PREDIMED-Navarra) trial, with three intervention groups in high cardiovascular risk volunteers: MedDiet + EVOO, MedDiet + nuts, and a low-fat control group...
December 23, 2017: Nutrients
https://www.readbyqxmd.com/read/29285290/preliminary-quantitative-proteomics-analysis-in-chronic-and-latent-keshan-disease-by-itraq-labeling-approach
#15
Yuxiao Sun, Chuanyu Gao, Xianqing Wang, Yuhao Liu
Keshan disease is a congestive cardiomyopathy. Dietary selenium deficiency combined with additional stressors are recognized to cause the cardiomyopathies. In this study, clinical condition of individuals with different subtypes including chronic and latent were analyzed. ECG abnormalities, chest radiography, echocardiography and blood selenium concentration were assessed. Subsequently, in effort to uncover proteins that were reliably changed in patients, isobaric tags for absolute and relative quantitation technology was applied...
December 1, 2017: Oncotarget
https://www.readbyqxmd.com/read/29277264/proteomics-and-bioinformatics-analysis-of-altered-protein-expression-in-the-placental-villous-tissue-from-early-recurrent-miscarriage-patients
#16
Hai-Tao Pan, Hai-Gang Ding, Min Fang, Bin Yu, Yi Cheng, Ya-Jing Tan, Qi-Qin Fu, Bo Lu, Hong-Guang Cai, Xin Jin, Xian-Qing Xia, Tao Zhang
INTRODUCTION: Recurrent miscarriage (RM) affects 5% of women, it has an adverse emotional impact on women. Because of the complexities of early development, the mechanism of recurrent miscarriage is still unclear. We hypothesized that abnormal placenta leads to early recurrent miscarriage (ERM). The aim of this study was to identify ERM associated factors in human placenta villous tissue using proteomics. Investigation of these differences in protein expression in parallel profiling is essential to understand the comprehensive pathophysiological mechanism underlying recurrent miscarriage (RM)...
January 2018: Placenta
https://www.readbyqxmd.com/read/29260198/micro-and-nanoscale-topographies-on-silk-regulate-gene-expression-of-human-corneal-epithelial-cells
#17
Kai B Kang, Brian D Lawrence, X Raymond Gao, Yuncin Luo, Qiang Zhou, Aihong Liu, Victor H Guaiquil, Mark I Rosenblatt
Purpose: Corneal basement membrane has topographical features that provide biophysical cues to direct cell adherence, migration, and proliferation. In this study, we hypothesize that varying topographic pitch created on silk films can alter epithelial cell morphology, adhesion, and the genetic expression involved in cytoskeletal dynamics-related pathways. Methods: Silicon wafers with parallel ridge widths of 2000, 1000, and 800 nm were produced and used to pattern silk films via soft lithography...
December 1, 2017: Investigative Ophthalmology & Visual Science
https://www.readbyqxmd.com/read/29251707/transcriptomic-changes-following-valproic-acid-treatment-promote-neurogenesis-and-minimize-secondary-brain-injury
#18
Vahagn C Nikolian, Isabel S Dennahy, Gerald A Higgins, Aaron M Williams, Michael Weykamp, Patrick E Georgoff, Hassan Eidy, Mohamed H Ghandour, Panpan Chang, Hasan B Alam
BACKGROUND: Early treatment with valproic acid (VPA) has demonstrated benefit in pre-clinical models of traumatic brain injury (TBI), including smaller brain lesion size, decreased edema, reduced neurologic disability, and faster recovery. Mechanisms underlying these favorable outcomes are not fully understood. We hypothesized that VPA treatment would upregulate genes involved in cell survival and proliferation and downregulate those associated with cell death and the inflammatory response...
December 14, 2017: Journal of Trauma and Acute Care Surgery
https://www.readbyqxmd.com/read/29251706/valproic-acid-induces-pro-survival-transcriptomic-changes-in-swine-subjected-to-traumatic-injury-and-hemorrhagic-shock
#19
Patrick E Georgoff, Vahagn C Nikolian, Gerald Higgins, Kiril Chtraklin, Hassan Eidy, Mohamed H Ghandour, Aaron Williams, Brian Athey, Hasan B Alam
BACKGROUND: Valproic acid (VPA) is a histone deacetylase inhibitor that improves outcomes in large animal models of trauma. However, its protective mechanism of action is not completely understood. We sought to characterize the genetic changes induced by VPA treatment following traumatic injuries. METHODS: Six female Yorkshire swine were subjected to traumatic brain injury (TBI, controlled cortical impact), polytrauma (liver and splenic laceration, rib fracture, rectus crush), and hemorrhagic shock (HS, 40% total blood volume)...
December 14, 2017: Journal of Trauma and Acute Care Surgery
https://www.readbyqxmd.com/read/29247698/pathway-analysis-of-global-gene-expression-change-in-dendritic-cells-induced-by-the-polysaccharide-from-the-roots-of-actinidia-eriantha
#20
Jing Du, Xiangfeng Chen, Chenying Wang, Hongxiang Sun
ETHNOPHARMACOLOGICAL RELEVANCE: The roots of Actinidia eriantha Benth have been used clinically to treat a variety of cancer in traditional Chinese medicine. The polysaccharide from this drug (AEPS) was previously reported to be a potential antitumor agent with immunomodulatory activity. However, the mechanisms of its antitumor action in immunomodulation have not yet been well-defined. AIM OF THE STUDY: To investigate the effects of AEPS on the phenotypic and functional maturation of dendritic cells and to explore the intracellular signaling mechanisms of its antitumor action in the immunomodulation...
December 13, 2017: Journal of Ethnopharmacology
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