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https://www.readbyqxmd.com/read/27906523/developmental-evolution
#1
REVIEW
Robert Lickliter
Biologists and psychologists are re-thinking the long-standing premise of genes as the primary cause of development, a view widely embraced in 20th-century biology. This shift in thinking is based in large part on: (1) the growing appreciation of the complex, distributed regulatory dynamics of gene expression; and (2) the growing appreciation of the probabilistic, contingent, and situated nature of development. We now appreciate that what actually unfolds during individual development represents only one of many possibilities...
December 1, 2016: Wiley Interdisciplinary Reviews. Cognitive Science
https://www.readbyqxmd.com/read/27905186/severe-asthma-current-management-targeted-therapies-and-future-directions-a-roundtable-report
#2
REVIEW
Vanessa M McDonald, Steven Maltby, Helen K Reddel, Gregory G King, Peter A B Wark, Lorraine Smith, John W Upham, Alan L James, Guy B Marks, Peter G Gibson
Asthma is a chronic respiratory disease characterized by respiratory symptoms, airway inflammation, airway obstruction and airway hyper-responsiveness. Asthma is common and directly affects 10% of Australians, 1-5% of adults in Asia and 300 million people worldwide. It is a heterogeneous disorder with many clinical, molecular, biological and pathophysiological phenotypes. Current management strategies successfully treat the majority of patients with asthma who have access to them. However, there is a subset of an estimated 5-10% of patients with asthma who have severe disease and are disproportionately impacted by symptoms, exacerbations and overall illness burden...
November 30, 2016: Respirology: Official Journal of the Asian Pacific Society of Respirology
https://www.readbyqxmd.com/read/27903221/in-vitro-generated-mesenchymal-stem-cells-suitable-tools-to-target-insulin-dependent-diabetes-mellitus
#3
Shruti D Dave, Patel C N, Patel J V, Thakkar U G
A synergy of a pre-accumulated genes with an autoimmunity advancing to slow abolition of pancreatic beta-cells causes insulin deficiency and results enrooting insulin dependent diabetes mellitus (IDDM). As per WHO data worldwide about 150 million people are diabetic and the number may rise to more than double by the year 2025. Any absolute cure for IDDM is not available yet, and one of the credible advent in the field include cell-based therapy. At this conjecture, mesenchymal stem cells (MSC) seems to have a specific and beneficial characteristics due to their in vivo as well as in vitro potential to mimic a pancreatic endocrine phenotype and immune-regulatory actions...
November 21, 2016: Current Stem Cell Research & Therapy
https://www.readbyqxmd.com/read/27900850/hybridization-between-pollination-syndromes-as-an-ecological-and-evolutionary-resource
#4
Quentin Cronk, Ji Yong Yang
In plants, pollination syndromes (the correlated presence of many features of relevance to pollination mode, for instance pollination by a particular animal clade) are a striking feature of plant biodiversity, providing great floral phenotypic diversity (Fenster et al. ). Adaptation to a particular animal pollinator provides an explanation for why recently diverged plants can have such extreme differentiation in floral form. One might expect such elaborate adaptations to provide a high degree of pollinator specificity and hence reproductive isolation, but there are many cases where substantial gene flow exists between extreme floral morphs (see Table 1), and the resulting hybrids may be highly fertile...
December 2016: Molecular Ecology
https://www.readbyqxmd.com/read/27899624/microscope-in-2017-an-expanding-and-evolving-integrated-resource-for-community-expertise-of-microbial-genomes
#5
David Vallenet, Alexandra Calteau, Stéphane Cruveiller, Mathieu Gachet, Aurélie Lajus, Adrien Josso, Jonathan Mercier, Alexandre Renaux, Johan Rollin, Zoe Rouy, David Roche, Claude Scarpelli, Claudine Médigue
The annotation of genomes from NGS platforms needs to be automated and fully integrated. However, maintaining consistency and accuracy in genome annotation is a challenging problem because millions of protein database entries are not assigned reliable functions. This shortcoming limits the knowledge that can be extracted from genomes and metabolic models. Launched in 2005, the MicroScope platform (http://www.genoscope.cns.fr/agc/microscope) is an integrative resource that supports systematic and efficient revision of microbial genome annotation, data management and comparative analysis...
November 29, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27898882/genome-scan-for-postmortem-carcass-traits-in-nellore-cattle
#6
G A Fernandes Júnior, R B Costa, G M F de Camargo, R Carvalheiro, G J M Rosa, F Baldi, D A Garcia, D G M Gordo, R Espigolan, L Takada, A F B Magalhães, T Bresolin, F L B Feitosa, L A L Chardulo, H N de Oliveira, L G de Albuquerque
Carcass traits measured after slaughter are economically relevant traits in beef cattle. In general, the slaughter house payment system is based on HCW. Ribeye area (REA) is associated with the amount of the meat in the carcass, and a minimum of backfat thickness (BFT) is necessary to protect the carcass during cooling. The aim of this study was to identify potential genomic regions harboring candidate genes affecting those traits in Nellore cattle. The data set used in the present study consisted of 1,756 Nellore males with phenotype records...
October 2016: Journal of Animal Science
https://www.readbyqxmd.com/read/27898762/an-expanded-maize-gene-expression-atlas-based-on-rna-sequencing-and-its-use-to-explore-root-development
#7
Scott C Stelpflug, Rajandeep S Sekhon, Brieanne Vaillancourt, Candice N Hirsch, C Robin Buell, Natalia de Leon, Shawn M Kaeppler
Comprehensive and systematic transcriptome profiling provides valuable insight into biological and developmental processes that occur throughout the life cycle of a plant. We have enhanced our previously published microarray-based gene atlas of maize ( L.) inbred B73 to now include 79 distinct replicated samples that have been interrogated using RNA sequencing (RNA-seq). The current version of the atlas includes 50 original array-based gene atlas samples, a time-course of 12 stalk and leaf samples postflowering, and an additional set of 17 samples from the maize seedling and adult root system...
March 2016: Plant Genome
https://www.readbyqxmd.com/read/27896968/exploring-the-reproducibility-of-probabilistic-causal-molecular-network-models
#8
Ariella Cohain, Aparna A Divaraniya, Kuixi Zhu, Joseph R Scarpa, Andrew Kasarskis, Jun Zhu, Rui Chang, Joel T Dudley, Eric E Schadt
Network reconstruction algorithms are increasingly being employed in biomedical and life sciences research to integrate large-scale, high-dimensional data informing on living systems. One particular class of probabilistic causal networks being applied to model the complexity and causal structure of biological data is Bayesian networks (BNs). BNs provide an elegant mathematical framework for not only inferring causal relationships among many different molecular and higher order phenotypes, but also for incorporating highly diverse priors that provide an efficient path for incorporating existing knowledge...
2016: Pacific Symposium on Biocomputing
https://www.readbyqxmd.com/read/27896429/copy-number-variability-in-parkinson-s-disease-assembling-the-puzzle-through-a-systems-biology-approach
#9
REVIEW
Valentina La Cognata, Giovanna Morello, Velia D'Agata, Sebastiano Cavallaro
Parkinson's disease (PD), the second most common progressive neurodegenerative disorder of aging, was long believed to be a non-genetic sporadic origin syndrome. The proof that several genetic loci are responsible for rare Mendelian forms has represented a revolutionary breakthrough, enabling to reveal molecular mechanisms underlying this debilitating still incurable condition. While single nucleotide polymorphisms (SNPs) and small indels constitute the most commonly investigated DNA variations accounting for only a limited number of PD cases, larger genomic molecular rearrangements have emerged as significant PD-causing mutations, including submicroscopic Copy Number Variations (CNVs)...
November 28, 2016: Human Genetics
https://www.readbyqxmd.com/read/27895047/innovative-approaches-to-establish-and-characterize-primary-cultures-an-ex-vivo-3d-system-and-the-zebrafish-model
#10
Chiara Liverani, Federico La Manna, Arwin Groenewoud, Laura Mercatali, Gabri Van Der Pluijm, Federica Pieri, Davide Cavaliere, Alessandro De Vita, Chiara Spadazzi, Giacomo Miserocchi, Alberto Bongiovanni, Federica Recine, Nada Riva, Dino Amadori, Ennio Tasciotti, Ewa Snaar-Jagalska, Toni Ibrahim
Patient-derived specimens are an invaluable resource to investigate tumor biology. However, in vivo studies on primary cultures are often limited by the small amount of material available, while conventional in vitro systems might alter the features and behavior that characterize cancer cells. We present our data obtained on primary dedifferentiated liposarcoma cells cultured in a 3D scaffold-based system and injected into a zebrafish model. Primary cells were characterized in vitro for their morphological features, sensitivity to drugs and biomarker expression, and in vivo for their engraftment and invasiveness abilities...
November 28, 2016: Biology Open
https://www.readbyqxmd.com/read/27893988/endothelin-signaling-in-bone
#11
REVIEW
Jasmin Kristianto, Michael G Johnson, Rafia Afzal, Robert D Blank
The endothelin (ET) system includes 3 small peptide hormones and a pair of G protein-coupled receptors. All 3 ETs are secreted as biologically inert precursors that must be activated by proteolytic cleavage after secretion. This reaction can be catalyzed by a pair of specific, membrane-bound extracellular ET converting enzymes or by nonspecific tissue proteases. The ET1/EDNRA axis is essential in development, with knockout mice for either displaying a similar phenotype featuring multiple defects of the craniofacial skeleton and cardiac outflow tract...
November 11, 2016: Translational Research: the Journal of Laboratory and Clinical Medicine
https://www.readbyqxmd.com/read/27892595/the-rate-of-change-in-alcohol-misuse-across-adolescence-is-heritable
#12
Alexis C Edwards, Jon Heron, Vladimir Vladimirov, Aaron R Wolen, Daniel E Adkins, Fazil Aliev, Matthew Hickman, Kenneth S Kendler
BACKGROUND: Alcohol use typically begins during adolescence and escalates into young adulthood. This represents an important period for the establishment of alcohol use and misuse patterns, which can have psychosocial and medical consequences. Although changes in alcohol use during this time have been phenotypically characterized, their genetic nature is poorly understood. METHODS: Participants of the Avon Longitudinal Study of Parents and Children completed the Alcohol Use Disorders Identification Test (AUDIT) 4 times from age 16 to 20...
November 28, 2016: Alcoholism, Clinical and Experimental Research
https://www.readbyqxmd.com/read/27890263/innate-immunity-and-the-new-forward-genetics
#13
REVIEW
Bruce Beutler
As it is a hard-wired system for responses to microbes, innate immunity is particularly susceptible to classical genetic analysis. Mutations led the way to the discovery of many of the molecular elements of innate immune sensing and signaling pathways. In turn, the need for a faster way to find the molecular causes of mutation-induced phenotypes triggered a huge transformation in forward genetics. During the 1980s and 1990s, many heritable phenotypes were ascribed to mutations through positional cloning. In mice, this required three steps...
December 2016: Best Practice & Research. Clinical Haematology
https://www.readbyqxmd.com/read/27887564/the-drosophila-transcriptional-network-is-structured-by-microbiota
#14
Adam J Dobson, John M Chaston, Angela E Douglas
BACKGROUND: Resident microorganisms (microbiota) have far-reaching effects on the biology of their animal hosts, with major consequences for the host's health and fitness. A full understanding of microbiota-dependent gene regulation requires analysis of the overall architecture of the host transcriptome, by identifying suites of genes that are expressed synchronously. In this study, we investigated the impact of the microbiota on gene coexpression in Drosophila. RESULTS: Our transcriptomic analysis, of 17 lines representative of the global genetic diversity of Drosophila, yielded a total of 11 transcriptional modules of co-expressed genes...
November 25, 2016: BMC Genomics
https://www.readbyqxmd.com/read/27886907/differential-diagnosis-of-chronic-urticaria-and-angioedema-based-on-molecular-biology-pharmacology-and-proteomics
#15
REVIEW
David H Dreyfus
Differential diagnosis of urticaria and angioedema has been based on the phenotype as either acute or chronic depending on the duration of more than 6 to 8 weeks, respectively. Additional subdivisions include poorly defined terms such as idiopathic, spontaneous, or autoimmune. In this article, the author suggests that an increased understanding of the acquired and innate immune system and data from novel proteomic technology have blurred the lines between these categories of diagnosis. Specific molecular pathways and response to specific medications should be incorporated in classification and diagnosis schemes...
February 2017: Immunology and Allergy Clinics of North America
https://www.readbyqxmd.com/read/27885435/comparison-of-immunophenotypes-of-primary-breast-carcinomas-and-multiple-corresponding-distant-metastases-an-autopsy-study-of-25-patients
#16
B Szekely, Zs I Nagy, Zs Farago, O Kiss, G Lotz, K A Kovacs, L Madaras, N Udvarhelyi, M Dank, Gy Szentmartoni, Zs Baranyai, L Harsanyi, A M Tőkés, Jozsef Timar, A M Szasz, J Kulka
Phenotypical change in metastatic breast carcinoma has widely been accepted as an inherent biological feature rather than technical fault. We analyzed the immunohistochemical phenotype and histopathological features of 25 primary breast carcinomas and 90 corresponding distant metastases in 23 organs retrospectively. Histological slides were reviewed for prognostic and predictive factors. Overall, metastases were more similar to each other and often differed from the primary tumor. We created a 3-step grouping system based on the localization of metastases...
November 24, 2016: Clinical & Experimental Metastasis
https://www.readbyqxmd.com/read/27881753/how-can-we-estimate-natural-selection-on-endocrine-traits-lessons-from-evolutionary-biology
#17
REVIEW
Frances Bonier, Paul R Martin
An evolutionary perspective can enrich almost any endeavour in biology, providing a deeper understanding of the variation we see in nature. To this end, evolutionary endocrinologists seek to describe the fitness consequences of variation in endocrine traits. Much of the recent work in our field, however, follows a flawed approach to the study of how selection shapes endocrine traits. Briefly, this approach relies on among-individual correlations between endocrine phenotypes (often circulating hormone levels) and fitness metrics to estimate selection on those endocrine traits...
November 30, 2016: Proceedings. Biological Sciences
https://www.readbyqxmd.com/read/27881166/using-the-social-amoeba-dictyostelium-to-study-the-functions-of-proteins-linked-to-neuronal-ceroid-lipofuscinosis
#18
REVIEW
Robert J Huber
Neuronal ceroid lipofuscinosis (NCL), also known as Batten disease, is a debilitating neurological disorder that affects both children and adults. Thirteen genetically distinct genes have been identified that when mutated, result in abnormal lysosomal function and an excessive accumulation of ceroid lipofuscin in neurons, as well as other cell types outside of the central nervous system. The NCL family of proteins is comprised of lysosomal enzymes (PPT1/CLN1, TPP1/CLN2, CTSD/CLN10, CTSF/CLN13), proteins that peripherally associate with membranes (DNAJC5/CLN4, KCTD7/CLN14), a soluble lysosomal protein (CLN5), a protein present in the secretory pathway (PGRN/CLN11), and several proteins that display different subcellular localizations (CLN3, CLN6, MFSD8/CLN7, CLN8, ATP13A2/CLN12)...
November 24, 2016: Journal of Biomedical Science
https://www.readbyqxmd.com/read/27879317/correlated-evolution-between-ck1%C3%AE-and-the-serine-rich-motif-contributes-to-regulating-the-mammalian-circadian-clock
#19
Lijuan Xing, Yang An, Guangsen Shi, Jie Yan, Pancheng Xie, Zhipeng Qu, Zhihui Zhang, Zhiwei Liu, Dejing Pan, Ying Xu
Understanding the mechanism underlying the physiological divergence of species is a long-standing issue in evolutionary biology. The circadian clock is a highly conserved system existing in almost all organisms that regulates a wide range of physiological and behavioral events to adapt to the day-night cycle. Here, the interactions between hCK1δ/ϵ/DBT (Drosophila ortholog of CK1δ/ϵ) and serine rich (SR) motifs from hPER2 (ortholog of Drosophila per) were reconstructed in a Drosophila circadian system. The results indicated that in Drosophila, the SR mutant form hPER2S662G does not recapitulate the mouse or human mutant phenotype...
November 22, 2016: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/27870913/genomic-contributors-to-rhythm-outcome-of-atrial-fibrillation-catheter-ablation-pathway-enrichment-analysis-of-gwas-data
#20
Daniela Husser, Petra Büttner, Laura Ueberham, Borislav Dinov, Philipp Sommer, Arash Arya, Gerhard Hindricks, Andreas Bollmann
BACKGROUND: Left atrial enlargement and persistent atrial fibrillation (AF) are well-known predictors for arrhythmia recurrence after AF catheter ablation (LRAF). In this study, by using pathway enrichment analysis of GWAS data, we tested the hypothesis that genetic pathways associated with these phenotypes are also associated with LRAF. METHODS: Samples from 660 patients with paroxysmal (n = 370) or persistent AF (n = 290) undergoing de-novo AF catheter ablation were genotyped for ~1,000,000 SNPs...
2016: PloS One
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