keyword
MENU ▼
Read by QxMD icon Read
search

metabolic network

keyword
https://www.readbyqxmd.com/read/29475039/genes-and-micrornas-associated-with-mouse-cleft-palate-a-systematic-review-and-bioinformatics-analysis
#1
Akiko Suzuki, Nada Abdallah, Mona Gajera, Goo Jun, Peilin Jia, Zhongming Zhao, Junichi Iwata
Cleft palate (CP) is the most prevalent craniofacial deformity, with ethnic and geographic variation in prevalence in humans. Mice have been used as an animal model to study the cause(s) of CP by several approaches, including genetic and chemical-induced approaches. Mouse genetic approaches revealed that significant amounts of genes are involved in the CP pathology. The aim of this study was to identify common features of CP-associated genes and to explore the roles of microRNAs (miRNAs) as important post-transcriptional regulators that may be involved in the regulation of CP genes...
February 20, 2018: Mechanisms of Development
https://www.readbyqxmd.com/read/29474981/physiological-functions-of-fbw7-in-cancer-and-metabolism
#2
REVIEW
Kouhei Shimizu, Naoe Taira Nihira, Hiroyuki Inuzuka, Wenyi Wei
FBW7 is one of the most well characterized F-box proteins that serve as substrate recognition subunits of SCF (Skp1-Cullin 1-F-box proteins) E3 ubiquitin ligase complexes. SCFFBW7 plays key roles in regulating cell cycle progression, differentiation, and stem cell maintenance largely through targeting a broad range of oncogenic substrates for proteasome-dependent degradation. The identification of an increasing number of FBW7 substrates for ubiquitination, and intensive in vitro and in vivo studies have revealed a network of signaling components controlled by FBW7 that contributes to metabolic regulation as well as its tumor suppressor role...
February 20, 2018: Cellular Signalling
https://www.readbyqxmd.com/read/29473820/transcriptional-profiling-of-the-clpx-mutant-in-bacillus-anthracis-reveals-regulatory-connection-with-the-lrgab-operon
#3
Kevin M Claunch, Madeline Bush, Christopher R Evans, Jacob A Malmquist, Matthew C Hale, Shauna M McGillivray
ClpX functions as either an independent chaperone or a component of the ClpXP protease, a conserved intracellular protease that acts as a global regulator in the bacterial cell by degrading regulatory proteins, stress response proteins and rate-limiting enzymes. Previously, we found that loss of clpX in Bacillus anthracis Sterne leads to increased susceptibility to antimicrobial agents that target the cell envelope. The aim of this study was to identify genes within the regulatory network of clpX that contribute to antimicrobial resistance...
February 23, 2018: Microbiology
https://www.readbyqxmd.com/read/29472900/spatial-heterogeneity-and-co-occurrence-of-mucosal-and-luminal-microbiome-across-swine-intestinal-tract
#4
Li Zhang, Weida Wu, Yuan-Kun Lee, Jingjing Xie, Hongfu Zhang
Pigs are one of the most important economic livestock. Gut microbiota is not only critical to the health but also the production efficiency of pigs. Manipulating gut microbiota relies on the full view of gut microbiome and the understanding of drive forces shaping microbial communities. 16s rDNA sequencing was used to profile microbiota along the longitudinal and radical axes to obtain the topographical map of microbiome in different intestinal compartments in young pigs. Alpha and beta-diversities revealed distinct differences in microbial compositions between the distal ileum and cecum and colon, as well as between the lumen and mucosa...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29472553/systemic-homeostasis-in-metabolome-ionome-and-microbiome-of-wild-yellowfin-goby-in-estuarine-ecosystem
#5
Feifei Wei, Kenji Sakata, Taiga Asakura, Yasuhiro Date, Jun Kikuchi
Data-driven approaches were applied to investigate the temporal and spatial changes of 1,022 individuals of wild yellowfin goby and its potential interaction with the estuarine environment in Japan. Nuclear magnetic resonance (NMR)-based metabolomics revealed that growth stage is a primary factor affecting muscle metabolism. Then, the metabolic, elemental and microbial profiles of the pooled samples generated according to either the same habitat or sampling season as well as the river water and sediment samples from their habitats were measured using NMR spectra, inductively coupled plasma optical emission spectrometry and next-generation 16 S rRNA gene sequencing...
February 22, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29471100/dynamic-fmri-networks-predict-success-in-a-behavioral-weight-loss-program-among-older-adults
#6
Fatemeh Mokhtari, W Jack Rejeski, Yingying Zhu, Guorong Wu, Sean L Simpson, Jonathan H Burdette, Paul J Laurienti
More than one-third of adults in the United States are obese, with a higher prevalence among older adults. Obesity among older adults is a major cause of physical dysfunction, hypertension, diabetes, and coronary heart diseases. Many people who engage in lifestyle weight loss interventions fail to reach targeted goals for weight loss, and most will regain what was lost within 1-2 years following cessation of treatment. This variability in treatment efficacy suggests that there are important phenotypes predictive of success with intentional weight loss that could lead to tailored treatment regimen, an idea that is consistent with the concept of precision-based medicine...
February 19, 2018: NeuroImage
https://www.readbyqxmd.com/read/29470286/genetic-variants-associated-with-obesity-and-insulin-resistance-in-hispanic-boys-with-nonalcoholic-fatty-liver-disease
#7
John C Rausch, Joel E Lavine, Naga Chalasani, Xiuqing Guo, Soonil Kwon, Jeffrey B Schwimmer, Jean P Molleston, Rohit Loomba, Elizabeth M Brunt, Yii-Der Ida Chen, Mark O Goodarzi, Kent D Taylor, Katherine P Yates, Jerome I Rotter
BACKGROUND AND OBJECTIVES: Nonalcoholic fatty liver disease (NAFLD) disproportionately affects Hispanic boys. Further, obesity and insulin resistance are major risk factors for NAFLD. No gene localization studies had been performed on children with biopsy-proven NAFLD. This study aims to identify genomic variants associated with increased adiposity and insulin resistance in a population of children with varying histologic severity of NAFLD. METHODS: We conducted a genome-wide association scan (GWAS) including 624,297 single-nucleotide polymorphisms (SNPs) distributed among all 22 autosomal chromosomes in 234 Hispanic boys (up to 18 years of age) who were consecutively recruited in a prospective cohort study in the Nonalcoholic Steatohepatitis Clinical Research Network Studies...
February 21, 2018: Journal of Pediatric Gastroenterology and Nutrition
https://www.readbyqxmd.com/read/29469990/differential-metabolic-pathway-analysis-of-the-proteomes-of-leishmania-donovani-and-leptomonas-seymouri
#8
Neeloo Singh, Renu Goel, Ekta Jain
PURPOSE: Although in trypanosomatids, monoxeny (Leptomonas) is ancestral to dixeny (Leishmania), however clinical cases of visceral leishmanisis with Leptomonas co-infection are increasingly being reported from India. Using a proteogenomic approach, we carried out a detailed proteome analysis of these two kinetoplastid parasites viz. Leishmania and its sister Leptomonas, to catalog the key proteins associated with and therefore possibly responsible for phenotype changes in Leptomonas evolution and domestication as co-infection with Leishmania...
February 22, 2018: Proteomics. Clinical Applications
https://www.readbyqxmd.com/read/29468564/early-presymptomatic-changes-in-the-proteome-of-mitochondria-associated-membrane-in-the-app-ps1-mouse-model-of-alzheimer-s-disease
#9
Katalin Völgyi, Kata Badics, Fernando J Sialana, Péter Gulyássy, Edina Brigitta Udvari, Viktor Kis, László Drahos, Gert Lubec, Katalin Adrienna Kékesi, Gábor Juhász
Intracellular β-amyloid (Aβ) accumulation is an early event in Alzheimer's disease (AD) progression. Recently, it has been uncovered that presenilins (PSs), the key components of the amyloid precursor protein (APP) processing and the β-amyloid producing γ-secretase complex, are highly enriched in a special sub-compartment of the endoplasmic reticulum (ER) functionally connected to mitochondria, called mitochondria-associated ER membrane (MAM). A current hypothesis of pathogenesis of Alzheimer's diseases (AD) suggests that MAM is involved in the initial phase of AD...
February 22, 2018: Molecular Neurobiology
https://www.readbyqxmd.com/read/29467935/a-robust-gene-expression-based-prognostic-risk-score-predicts-overall-survival-of-lung-adenocarcinoma-patients
#10
En-Guo Chen, Pin Wang, Haizhou Lou, Yunshan Wang, Hong Yan, Lei Bi, Liang Liu, Bin Li, Antoine M Snijders, Jian-Hua Mao, Bo Hang
Identification of reliable predictive biomarkers and new therapeutic targets is a critical step for significant improvement in patient outcomes. Here, we developed a multi-step bioinformatics analytic strategy to mine large omics and clinical data to build a prognostic scoring system for predicting the overall survival (OS) of lung adenocarcinoma (LuADC) patients. In latter we first identified 1327 significantly and robustly deregulated genes, 600 of which were significantly associated with the OS of LuADC patients...
January 23, 2018: Oncotarget
https://www.readbyqxmd.com/read/29467475/publisher-correction-evolutionary-adaptations-to-new-environments-generally-reverse-plastic-phenotypic-changes
#11
Wei-Chin Ho, Jianzhi Zhang
The originally published HTML version of this Article contained errors in the three equations in the Methods sub-section 'Metabolic network analysis', whereby the Greek letter eta (η) was inadvertently used in place of beta (β) during the production process. These errors have now been corrected in the HTML version of the Article; the PDF was correct at the time of publication.
February 21, 2018: Nature Communications
https://www.readbyqxmd.com/read/29467471/network-analysis-of-coronary-artery-disease-risk-genes-elucidates-disease-mechanisms-and-druggable-targets
#12
Harri Lempiäinen, Ingrid Brænne, Tom Michoel, Vinicius Tragante, Baiba Vilne, Tom R Webb, Theodosios Kyriakou, Johannes Eichner, Lingyao Zeng, Christina Willenborg, Oscar Franzen, Arno Ruusalepp, Anuj Goel, Sander W van der Laan, Claudia Biegert, Stephen Hamby, Husain A Talukdar, Hassan Foroughi Asl, Gerard Pasterkamp, Hugh Watkins, Nilesh J Samani, Timo Wittenberger, Jeanette Erdmann, Heribert Schunkert, Folkert W Asselbergs, Johan L M Björkegren
Genome-wide association studies (GWAS) have identified over two hundred chromosomal loci that modulate risk of coronary artery disease (CAD). The genes affected by variants at these loci are largely unknown and an untapped resource to improve our understanding of CAD pathophysiology and identify potential therapeutic targets. Here, we prioritized 68 genes as the most likely causal genes at genome-wide significant loci identified by GWAS of CAD and examined their regulatory roles in 286 metabolic and vascular tissue gene-protein sub-networks ("modules")...
February 21, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29467382/krab-type-zinc-finger-proteins-pita-and-pisa-specifically-regulate-p53-dependent-glycolysis-and-mitochondrial-respiration
#13
Shan Wang, Zhiqiang Peng, Siying Wang, Lihua Yang, Yuhan Chen, Xue Kong, Shanshan Song, Pei Pei, Chunyan Tian, Hui Yan, Peipei Ding, Weiguo Hu, Cui Hua Liu, Xin Zhang, Fuchu He, Lingqiang Zhang
Few p53 regulators participate in selective control of p53-mediated cellular metabolism. How p53-mediated aerobic and glycolytic pathways are negatively regulated remains largely unclear. Here, we identified two KRAB-type zinc-finger proteins, PITA (p53 inhibitor of TIGAR activation) and PISA (p53 inhibitor of SCO2 activation), as selective regulators of p53 in metabolic control. PITA and PISA interact with p53 and specifically suppress transcription of the glycolysis regulator TIGAR and the oxidation phosphorylation regulator SCO2, respectively...
February 21, 2018: Cell Research
https://www.readbyqxmd.com/read/29467369/transcriptomic-signature-of-drought-response-in-pearl-millet-pennisetum-glaucum-l-and-development-of-web-genomic-resources
#14
Sarika Jaiswal, Tushar J Antala, M K Mandavia, Meenu Chopra, Rahul Singh Jasrotia, Rukam S Tomar, Jashminkumar Kheni, U B Angadi, M A Iquebal, B A Golakia, Anil Rai, Dinesh Kumar
Pearl millet, (Pennisetum glaucum L.), an efficient (C4) crop of arid/semi-arid regions is known for hardiness. Crop is valuable for bio-fortification combating malnutrition and diabetes, higher caloric value and wider climatic resilience. Limited studies are done in pot-based experiments for drought response at gene-expression level, but field-based experiment mimicking drought by withdrawal of irrigation is still warranted. We report de novo assembly-based transcriptomic signature of drought response induced by irrigation withdrawal in pearl millet...
February 21, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29467100/epileptogenesis-in-neonatal-brain
#15
REVIEW
Anna-Maria Katsarou, Aristea S Galanopoulou, Solomon L Moshé
Epilepsy is a chronic neurological disorder affecting 65 million people worldwide. The etiologies of seizures can often be identified as genetic, metabolic, structural, immunologic or infectious, but in many cases the cause is unknown with the current diagnostic tools. Epileptogenesis is a process during which genetic or other acquired etiologies/insults lead to functional, structural, or network reorganization changes in the brain that may lead to the development of, or progression of, spontaneous seizures...
December 23, 2017: Seminars in Fetal & Neonatal Medicine
https://www.readbyqxmd.com/read/29466876/srebp2-contributes-to-cisplatin-resistance-in-ovarian-cancer-cells
#16
Lei Zheng, Li Li, Yun Lu, Fangfang Jiang, Xiu-An Yang
This study is to investigate transcription factors involved in cisplatin resistance in ovarian cancer cells. The transcriptome of cisplatin resistant and sensitive A2780 epithelial ovarian cancer cells was obtained from GSE15372. Ovarian transcriptome data GSE62944 was downloaded from TCGA and applied for transcription regulatory network analysis. The analysis results were confirmed using quantitative polymerase chain reaction. The roles of SREBP2 in cisplatin-resistant cells were investigated by RNA inference and cell viability analysis...
January 1, 2018: Experimental Biology and Medicine
https://www.readbyqxmd.com/read/29466788/metformin-induced-changes-of-the-coding-transcriptome-and-non-coding-rnas-in-the-livers-of-non-alcoholic-fatty-liver-disease-mice
#17
Jun Guo, Yuan Zhou, Yafen Cheng, Weiwei Fang, Gang Hu, Jie Wei, Yajun Lin, Yong Man, Lixin Guo, Mingxiao Sun, Qinghua Cui, Jian Li
BACKGROUND/AIMS: Recent studies have suggested that changes in non-coding mRNA play a key role in the progression of non-alcoholic fatty liver disease (NAFLD). Metformin is now recommended and effective for the treatment of NAFLD. We hope the current analyses of the non-coding mRNA transcriptome will provide a better presentation of the potential roles of mRNAs and long non-coding RNAs (lncRNAs) that underlie NAFLD and metformin intervention. METHODS: The present study mainly analysed changes in the coding transcriptome and non-coding RNAs after the application of a five-week metformin intervention...
February 16, 2018: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/29466699/unveiling-network-based-functional-features-through-integration-of-gene-expression-into-protein-networks
#18
REVIEW
Mahdi Jalili, Tom Gebhardt, Olaf Wolkenhauer, Ali Salehzadeh-Yazdi
Decoding health and disease phenotypes is one of the fundamental objectives in biomedicine. Whereas high-throughput omics approaches are available, it is evident that any single omics approach might not be adequate to capture the complexity of phenotypes. Therefore, integrated multi-omics approaches have been used to unravel genotype-phenotype relationships such as global regulatory mechanisms and complex metabolic networks in different eukaryotic organisms. Some of the progress and challenges associated with integrated omics studies have been reviewed previously in comprehensive studies...
February 18, 2018: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29466423/proteomic-analysis-of-the-human-retina-reveals-region-specific-susceptibilities-to-metabolic-and-oxidative-stress-related-diseases
#19
Gabriel Velez, Daniel A Machlab, Peter H Tang, Yang Sun, Stephen H Tsang, Alexander G Bassuk, Vinit B Mahajan
Differences in regional protein expression within the human retina may explain molecular predisposition of specific regions to ophthalmic diseases like age-related macular degeneration, cystoid macular edema, retinitis pigmentosa, and diabetic retinopathy. To quantify protein levels in the human retina and identify patterns of differentially-expressed proteins, we collected foveomacular, juxta-macular, and peripheral retina punch biopsies from healthy donor eyes and analyzed protein content by liquid chromatography-tandem mass spectrometry (LC-MS/MS)...
2018: PloS One
https://www.readbyqxmd.com/read/29466329/circadian-clock-neurons-constantly-monitor-environmental-temperature-to-set-sleep-timing
#20
Swathi Yadlapalli, Chang Jiang, Andrew Bahle, Pramod Reddy, Edgar Meyhofer, Orie T Shafer
Circadian clocks coordinate behaviour, physiology and metabolism with Earth's diurnal cycle. These clocks entrain to both light and temperature cycles, and daily environmental temperature oscillations probably contribute to human sleep patterns. However, the neural mechanisms through which circadian clocks monitor environmental temperature and modulate behaviour remain poorly understood. Here we elucidate how the circadian clock neuron network of Drosophila melanogaster processes changes in environmental temperature...
February 21, 2018: Nature
keyword
keyword
17074
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"