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https://www.readbyqxmd.com/read/28938016/a-feed-forward-regulation-of-endothelin-receptors-by-c-jun-in-human-non-pigmented-ciliary-epithelial-cells-and-retinal-ganglion-cells
#1
Junming Wang, Hai-Ying Ma, Raghu R Krishnamoorthy, Thomas Yorio, Shaoqing He
c-Jun, c-Jun N-terminal kinase(JNK) and endothelin B (ETB) receptor have been shown to contribute to the pathogenesis of glaucoma. Previously, we reported that an increase of c-Jun and CCAAT/enhancer binding protein β (C/EBPβ) immunohistostaining is associated with upregulation of the ETB receptor within the ganglion cell layer of rats with elevated intraocular pressure (IOP). In addition, both transcription factors regulate the expression of the ETB receptor in human non-pigmented ciliary epithelial cells (HNPE)...
2017: PloS One
https://www.readbyqxmd.com/read/28936641/empathy-and-the-aesthetic-why-does-art-still-move-us
#2
Despina Stamatopoulou
In this article I will argue for the affective-motivation (background affective attitude or orientation) hypothesis that incubates the aesthetic experience and sets the deep frame of our engagement with art. For this, I look at these microgenetic-early passages of (a) affective perception as mapped into the early emergence of tertiary qualities that underlie a sensorimotor synchronization-a coupling of action, emotion and perception via mirroring that result in dynamic embodied anticipatory control and a feeling of proximity/connectedness and (b) developmental passages that are characterized by spatiotemporal coordination and proximity of the self-other/interactive object and thus structure intentionality, shape experience, in an engaging world of action potentialities forming a background affective attitude...
September 21, 2017: Cognitive Processing
https://www.readbyqxmd.com/read/28928130/roles-for-innate-immunity-in-combination-immunotherapies
#3
REVIEW
Kelly D Moynihan, Darrell J Irvine
Immunity to infectious agents involves a coordinated response of innate and adaptive immune cells working in concert, with many feed-forward and regulatory interactions between both arms of the immune system. In contrast, many therapeutic strategies to augment immunity against tumors have focused predominantly on stimulation of adaptive immunity. However, a growing appreciation of the potential contributions of innate immune effectors to antitumor immunity, especially in the context of combination immunotherapy, is leading to novel strategies to elicit a more integrated immune response against cancer...
September 19, 2017: Cancer Research
https://www.readbyqxmd.com/read/28925399/dock4-promotes-loss-of-proliferation-in-glioblastoma-progenitor-cells-through-nuclear-beta-catenin-accumulation-and-subsequent-mir-302-367-cluster-expression
#4
D N Debruyne, L Turchi, F Burel-Vandenbos, M Fareh, F Almairac, V Virolle, D Figarella-Branger, N Baeza-Kallee, P Lagadec, V Kubiniek, P Paquis, D Fontaine, M-P Junier, H Chneiweiss, T Virolle
Glioblastomas (GBM) are lethal primitive brain tumours characterized by a strong intra-tumour heterogeneity. We observed in GBM tissues the coexistence of functionally divergent micro-territories either enriched in more differentiated and non-mitotic cells or in mitotic undifferentiated OLIG2 positive cells while sharing similar genomic abnormalities. Understanding the formation of such functionally divergent micro-territories in glioblastomas (GBM) is essential to comprehend GBM biogenesis, plasticity and to develop therapies...
September 18, 2017: Oncogene
https://www.readbyqxmd.com/read/28923002/deep-learning-methods-for-protein-torsion-angle-prediction
#5
Haiou Li, Jie Hou, Badri Adhikari, Qiang Lyu, Jianlin Cheng
BACKGROUND: Deep learning is one of the most powerful machine learning methods that has achieved the state-of-the-art performance in many domains. Since deep learning was introduced to the field of bioinformatics in 2012, it has achieved success in a number of areas such as protein residue-residue contact prediction, secondary structure prediction, and fold recognition. In this work, we developed deep learning methods to improve the prediction of torsion (dihedral) angles of proteins...
September 18, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28922754/rice-phytochrome-interacting-factor-like1-ospil1-is-involved-in-the-promotion-of-chlorophyll-biosynthesis-through-feed-forward-regulatory-loops
#6
Yasuhito Sakuraba, Eun-Young Kim, Su-Hyun Han, Weilan Piao, Gynheung An, Daisuke Todaka, Kazuko Yamaguchi-Shinozaki, Nam-Chon Paek
In phototrophic plants, the highly conserved and tightly regulated process of chlorophyll (Chl) biosynthesis comprises multi-step reactions involving more than 15 enzymes. Since the efficiency of Chl biosynthesis strongly affects plant productivity, understanding the underlying regulatory mechanisms in crop plants can be useful for strategies to increase grain and biomass yields. Here, we show that rice (Oryza sativa) Phytochrome-Interacting Factor-Like1 (OsPIL1), a basic helix-loop-helix transcription factor, promotes Chl biosynthesis...
July 10, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/28900120/recurrent-network-dynamics-reconciles-visual-motion-segmentation-and-integration
#7
N V Kartheek Medathati, James Rankin, Andrew I Meso, Pierre Kornprobst, Guillaume S Masson
In sensory systems, a range of computational rules are presumed to be implemented by neuronal subpopulations with different tuning functions. For instance, in primate cortical area MT, different classes of direction-selective cells have been identified and related either to motion integration, segmentation or transparency. Still, how such different tuning properties are constructed is unclear. The dominant theoretical viewpoint based on a linear-nonlinear feed-forward cascade does not account for their complex temporal dynamics and their versatility when facing different input statistics...
September 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28899360/biological-networks-in-parkinson-s-disease-an-insight-into-the-epigenetic-mechanisms-associated-with-this-disease
#8
Paulami Chatterjee, Debjani Roy, Malay Bhattacharyya, Sanghamitra Bandyopadhyay
BACKGROUND: Parkinson's disease (PD) is the second most prevalent neurodegenerative disorders in the world. Studying PD from systems biology perspective involving genes and their regulators might provide deeper insights into the complex molecular interactions associated with this disease. RESULT: We have studied gene co-expression network obtained from a PD-specific microarray data. The co-expression network identified 11 hub genes, of which eight genes are not previously known to be associated with PD...
September 12, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28898853/partially-consolidated-bioprocessing-of-mixed-lignocellulosic-feedstocks-for-ethanol-production
#9
Avanthi Althuri, Lohit Kumar Srinivas Gujjala, Rintu Banerjee
Rapid urbanization and industrialization have accelerated the energy demand which cannot be met by decreasing fossil fuels thereby substantiate the need for lignocellulosic ethanol. The present study is one such attempt towards bioethanol production in an eco-friendly manner using enzymes in which a mixture of lignocellulosic biomass namely, Ricinus communis, Saccharum officinarum (tops) and Saccharum spontaneum were taken as a substrate. The mixed biomass was processed through partially consolidated bioprocessing (PCBP) approach which involves a non-isothermal simultaneous pretreatment and saccharification step where a concoction of laccase (Pleurotus djamor) and holocellulase (Trichoderma reseei RUT C30) was used followed by co-fermentation within the same reactor...
August 24, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28893410/an-artificial-neural-network-to-predict-resting-energy-expenditure-in-obesity
#10
Emmanuel Disse, Séverine Ledoux, Cécile Bétry, Cyrielle Caussy, Christine Maitrepierre, Muriel Coupaye, Martine Laville, Chantal Simon
BACKGROUND & AIMS: The resting energy expenditure (REE) determination is important in nutrition for adequate dietary prescription. The gold standard i.e. indirect calorimetry is not available in clinical settings. Thus, several predictive equations have been developed, but they lack of accuracy in subjects with extreme weight including obese populations. Artificial neural networks (ANN) are useful predictive tools in the area of artificial intelligence, used in numerous clinical fields...
September 1, 2017: Clinical Nutrition: Official Journal of the European Society of Parenteral and Enteral Nutrition
https://www.readbyqxmd.com/read/28891000/clinical-application-of-modified-bag-of-features-coupled-with-hybrid-neural-based-classifier-in-dengue-fever-classification-using-gene-expression-data
#11
Sankhadeep Chatterjee, Nilanjan Dey, Fuqian Shi, Amira S Ashour, Simon James Fong, Soumya Sen
Dengue fever detection and classification have a vital role due to the recent outbreaks of different kinds of dengue fever. Recently, the advancement in the microarray technology can be employed for such classification process. Several studies have established that the gene selection phase takes a significant role in the classifier performance. Subsequently, the current study focused on detecting two different variations, namely, dengue fever (DF) and dengue hemorrhagic fever (DHF). A modified bag-of-features method has been proposed to select the most promising genes in the classification process...
September 11, 2017: Medical & Biological Engineering & Computing
https://www.readbyqxmd.com/read/28890684/neural-correlates-of-early-sound-encoding-and-their-relationship-to-speech-in-noise-perception
#12
Emily B J Coffey, Alexander M P Chepesiuk, Sibylle C Herholz, Sylvain Baillet, Robert J Zatorre
Speech-in-noise (SIN) perception is a complex cognitive skill that affects social, vocational, and educational activities. Poor SIN ability particularly affects young and elderly populations, yet varies considerably even among healthy young adults with normal hearing. Although SIN skills are known to be influenced by top-down processes that can selectively enhance lower-level sound representations, the complementary role of feed-forward mechanisms and their relationship to musical training is poorly understood...
2017: Frontiers in Neuroscience
https://www.readbyqxmd.com/read/28887948/psoriasis-pathogenesis-and-the-development-of-novel-targeted-immune-therapies
#13
REVIEW
Jason E Hawkes, Tom C Chan, James G Krueger
Psoriasis is caused by a complex interplay between the immune system, psoriasis-associated susceptibility loci, autoantigens, and multiple environmental factors. Over the last 2 decades, research has unequivocally shown that psoriasis represents a bona fide T cell-mediated disease primarily driven by pathogenic T cells that produce high levels of IL-17 in response to IL-23. The discovery of the central role for the IL-23/type 17 T-cell axis in the development of psoriasis has led to a major paradigm shift in the pathogenic model for this condition...
September 2017: Journal of Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/28884763/on-the-role-of-topology-in-regulating-transcriptional-cascades
#14
Mahan Ghafari, Alireza Mashaghi
We study the impact of topology on the response of a transcriptional cascade with certain circuit topologies to a constant and time-varying input signal. We systematically analyze the response of the output to activating and repressing cascades. We identify two types of responses for a linear cascade, namely the "Decaying mode", where the input signal becomes exceedingly weaker as it propagates, and the "Bistable mode", where the input signal can either be amplified or die out in the pathway. We examine how the transition occurs from one mode to the other as we add coherent and/or incoherent feed-forward loops in an otherwise linear cascade...
September 20, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28878352/s1pr1-drives-a-feed-forward-signalling-loop-to-regulate-batf3-and-the-transcriptional-programme-of-hodgkin-lymphoma-cells
#15
K Vrzalikova, M Ibrahim, M Vockerodt, T Perry, S Margielewska, L Lupino, E Nagy, E Soilleux, D Liebelt, R Hollows, A Last, G Reynolds, M Abdullah, H Curley, M Care, D Krappmann, R Tooze, J Allegood, S Spiegel, W Wei, C B J Woodman, P G Murray
The Hodgkin/Reed-Sternberg (HRS) cells of classical Hodgkin lymphoma (HL) are characterised by the aberrant activation of multiple signalling pathways. Here we show that a subset of HL displays altered expression of sphingosine-1-phosphate (S1P) receptors (S1PR). S1P activates phosphatidylinositide 3-kinase (PI3-K) in these cells that is mediated by the increased expression of S1PR1 and the decreased expression of S1PR2. We also showed that genes regulated by PI3-K signalling pathway in HL cell lines significantly overlap with the transcriptional programme of primary HRS cells...
September 7, 2017: Leukemia: Official Journal of the Leukemia Society of America, Leukemia Research Fund, U.K
https://www.readbyqxmd.com/read/28869249/glp-1-and-the-kidney-from-physiology-to-pharmacology-and-outcomes-in-diabetes
#16
REVIEW
Marcel H A Muskiet, Lennart Tonneijck, Mark M Smits, Michaël J B van Baar, Mark H H Kramer, Ewout J Hoorn, Jaap A Joles, Daniël H van Raalte
The gastrointestinal tract - the largest endocrine network in human physiology - orchestrates signals from the external environment to maintain neural and hormonal control of homeostasis. Advances in understanding entero-endocrine cell biology in health and disease have important translational relevance. The gut-derived incretin hormone glucagon-like peptide 1 (GLP-1) is secreted upon meal ingestion and controls glucose metabolism by modulating pancreatic islet cell function, food intake and gastrointestinal motility, amongst other effects...
October 2017: Nature Reviews. Nephrology
https://www.readbyqxmd.com/read/28868547/investigation-of-a-common-gene-expression-signature-in-gastrointestinal-cancers-using-systems-biology-approaches
#17
Kaveh Baghaei, Nazanin Hosseinkhan, Hamid Asadzadeh Aghdaei, M R Zali
According to GLOBOCAN 2012, the incidence and the mortality rate of colorectal, stomach and liver cancers are the highest among the total gastrointestinal (GI) cancers. Here we aimed to find the common genes and pathways that are simultaneously deregulated in these three malignancies using systems biology approaches. Here we conducted a differential expression analysis on high-quality gene expression datasets of gastric cancer (GC), colorectal cancer (CRC) and hepatocellular carcinoma (HCC). To address the inter gene correlations that were neglected in differential expression studies, we also applied differential co-expression analysis on the understudied datasets...
September 4, 2017: Molecular BioSystems
https://www.readbyqxmd.com/read/28867179/rage-maintains-high-levels-of-nf%C3%AE%C2%BAb-and-oncogenic-kras-activity-in-pancreatic-cancer
#18
Nancy Azizan, Melissa A Suter, Yan Liu, Craig D Logsdon
Oncogenic KRas activity is central to several cancer types including pancreatic ductal adenocarcinoma (PDAC) but has been determined to be "undruggable". Recent studies have indicated that oncogenic KRas is not constitutively active but relies on a feed-forward stimulatory mechanism involving NFκB mediated inflammation. In the current study, we investigated the role of the receptor for advanced glycation end-products (RAGE) in maintaining oncogenic signaling in PDAC. We observed that there was a shift in the levels of specific RAGE isoforms and altered cellular localization in PDAC...
August 31, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28865443/investigating-microrna-and-transcription-factor-co-regulatory-networks-in-colorectal-cancer
#19
Hao Wang, Jiamao Luo, Chun Liu, Huilin Niu, Jing Wang, Qi Liu, Zhongming Zhao, Hua Xu, Yanqing Ding, Jingchun Sun, Qingling Zhang
BACKGROUND: Colorectal cancer (CRC) is one of the most common malignancies worldwide with poor prognosis. Studies have showed that abnormal microRNA (miRNA) expression can affect CRC pathogenesis and development through targeting critical genes in cellular system. However, it is unclear about which miRNAs play central roles in CRC's pathogenesis and how they interact with transcription factors (TFs) to regulate the cancer-related genes. RESULTS: To address this issue, we systematically explored the major regulation motifs, namely feed-forward loops (FFLs), that consist of miRNAs, TFs and CRC-related genes through the construction of a miRNA-TF regulatory network in CRC...
September 2, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28855849/arnt-is-a-potential-direct-hif-1-target-gene-in-human-hep3b-hepatocellular-carcinoma-cells
#20
Markus Mandl, Reinhard Depping
BACKGROUND: The transcription factor aryl hydrocarbon receptor nuclear translocator (ARNT) participates in the hypoxia-inducible factor (HIF) pathway which senses a decline in cellular oxygen tension. In hypoxia, HIF-1α and ARNT form the transcriptional active complex HIF-1 followed by the expression of target genes. ARNT is considered as constitutively expressed and unaffected by hypoxia. However, certain tumour cell lines derived from different entities are capable to elevate ARNT expression under hypoxic conditions which implies a survival benefit...
2017: Cancer Cell International
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