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Systems biology cancer

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https://www.readbyqxmd.com/read/28732076/eincr1-is-an-egf-inducible-lincrna-overexpressed-in-lung-adenocarcinomas
#1
Karol Nowicki-Osuch, Yaoyong Li, Mairi Challinor, David T Gerrard, Neil A Hanley, Andrew D Sharrocks
Long non-coding RNAs are being increasingly recognised as important molecules involved in regulating a diverse array of biological functions. For example, many long non-coding RNAs have been associated with tumourigenesis and in this context their molecular functions often involves impacting on chromatin and transcriptional control processes. One important cellular control system that is often deregulated in cancer cells is the ERK MAP kinase pathway. Here we have investigated whether ERK pathway signaling in response to EGF stimulation, leads to changes in the production of long non-coding RNAs...
2017: PloS One
https://www.readbyqxmd.com/read/28731050/genomic-abnormalities-in-invasive-endocervical-adenocarcinoma-correlate-with-pattern-of-invasion-biologic-and-clinical-implications
#2
Anjelica Hodgson, Yutaka Amemiya, Arun Seth, Matthew Cesari, Bojana Djordjevic, Carlos Parra-Herran
The pattern-based classification system for HPV-related endocervical adenocarcinoma, which classifies tumors based on the destructiveness of stromal invasion, is predictive of the risk of nodal metastases and adverse outcome. Previous studies have demonstrated clinically important molecular alterations in endocervical adenocarcinoma, including KRAS and PIK3CA mutations; however, correlation between the molecular landscape and pathological variables including pattern of invasion has not been thoroughly explored...
July 21, 2017: Modern Pathology: An Official Journal of the United States and Canadian Academy of Pathology, Inc
https://www.readbyqxmd.com/read/28729699/pten-foxo3-akt-pathway-regulates-cell-death-and-mediates-morphogenetic-differentiation-of-colorectal-cancer-cells-under-simulated-microgravity
#3
Raj Pranap Arun, Divya Sivanesan, Prasanna Vidyasekar, Rama Shanker Verma
Gravity is a major physical factor determining the stress and strain around cells. Both in space experiments and ground simulation, change in gravity impacts the viability and function of various types of cells as well as in vivo conditions. Cancer cells have been shown to die under microgravity. This can be exploited for better understanding of the biology and identification of novel avenues for therapeutic intervention. Here, we described the effect of microgravity simulated using Rotational Cell Culture System-High Aspect Ratio Vessel (RCCS-HARV) on the viability and morphological changes of colorectal cancer cells...
July 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28729417/mathematical-modeling-of-tumor-tumor-distant-interactions%C3%A2-supports-a-systemic-control-of-tumor-growth
#4
Sebastien Benzekry, Clare Lamont, Dominique Barbolosi, Lynn Hlatky, Philip Hahnfeldt
Interactions between different tumors within the same organism have major clinical implications, especially in the context of surgery and metastatic disease. Three main explanatory theories (competition, angiogenesis inhibition and proliferation inhibition) have been proposed but precise determinants of the phenomenon remain poorly understood. Here we formalized these theories into mathematical models and performed biological experiments to test them with empirical data. In syngeneic mice bearing two simultaneously implanted tumors, growth of only one of the tumors was significantly suppressed (61% size reduction at day 15, p<0...
July 20, 2017: Cancer Research
https://www.readbyqxmd.com/read/28727484/construction-and-analysis-of-circular-rna-molecular-regulatory-networks-in-liver-cancer
#5
Shuangchun Ren, Zhuoyuan Xin, Yinyan Xu, Jianting Xu, Guoqing Wang
Liver cancer is the sixth most prevalent cancer, and the third most frequent cause of cancer-related deaths. Circular RNAs (circRNAs), a kind of special endogenous ncRNAs, have been coming back to the forefront of cancer genomics research. In this study, we employed a systems biology approach to construct and analyze the circRNA molecular regulatory networks in the context of liver cancer. We detected a total of 127 differentially expressed circRNAs and 3,235 differentially expressed mRNAs. We selected the top-5 upregulated circRNAs to construct a circRNA-miRNA-mRNA network...
July 20, 2017: Cell Cycle
https://www.readbyqxmd.com/read/28726978/analysis-of-the-substrate-specificity-of-factor-vii-activating-protease-fsap-and-design-of-specific-and-sensitive-peptide-substrates
#6
Emrah Kara, Dipankar Manna, Geir Åge Løset, Eric L Schneider, Charles S Craik, Sandip Kanse
Factor VII (FVII) activating protease (FSAP) is a circulating serine protease that is likely to be involved in a number of disease conditions such as stroke, atherosclerosis, liver fibrosis, thrombosis and cancer. To date, no systematic information is available about the substrate specificity of FSAP. Applying phage display and positional scanning substrate combinatorial library (PS-SCL) approaches we have characterised the specificity of FSAP towards small peptides. Results were evaluated in the context of known protein substrates as well as molecular modelling of the peptides in the active site of FSAP...
July 20, 2017: Thrombosis and Haemostasis
https://www.readbyqxmd.com/read/28726916/a-novel-3-d-bio-microfluidic-system-mimicking-in-vivo-heterogeneous-tumour-microstructures-reveals-complex-tumour-stroma-interactions
#7
Qihui Fan, Ruchuan Liu, Yang Jiao, Chunxiu Tian, James D Farrell, Wenwen Diao, Xiaochen Wang, Fengrong Zhang, Wei Yuan, Haibo Han, Jinfeng Chen, Yue Yang, Xixiang Zhang, Fangfu Ye, Ming Li, Zhongcan Ouyang, Liyu Liu
A 3-D microfluidic system consisting of microchamber arrays embedded in a collagen hydrogel with tuneable biochemical gradients that mimics the tumour microenvironment of mammary glands was constructed for the investigation on the interactions between invasive breast cancer cells and stromal cells. The hollow microchambers in collagen provide a very similar 3-D environment to that in vivo that regulates collective cellular dynamics and behaviour, while the microfluidic channels surrounding the collagen microchamber arrays allow one to impose complex concentration gradients of specific biological molecules or drugs...
July 20, 2017: Lab on a Chip
https://www.readbyqxmd.com/read/28726077/bioscore-a-staging-system-for-breast-cancer-patients-that-reflects-the-prognostic-significance-of-underlying-tumor-biology
#8
Elizabeth A Mittendorf, Mariana Chavez-MacGregor, Jose Vila, Min Yi, Daphne Y Lichtensztajn, Christina A Clarke, Sharon H Giordano, Kelly K Hunt
BACKGROUND: Biologic factors guide treatment decisions and have a significant impact on prognosis for breast cancer patients. This study was undertaken to develop a staging system incorporating biologic factors in addition to standard anatomic factors in the American Joint Committee on Cancer (AJCC) pathologic stage (PS) to assess disease-specific survival (DSS). METHODS: Overall, 3327 patients treated with surgery as an initial intervention at MD Anderson Cancer Center from 2007 to 2013 were identified...
July 19, 2017: Annals of Surgical Oncology
https://www.readbyqxmd.com/read/28725482/systems-biology-driving-drug-development-from-design-to-the-clinical-testing-of-the-anti-erbb3-antibody-seribantumab-mm-121
#9
REVIEW
Birgit Schoeberl, Art Kudla, Kristina Masson, Ashish Kalra, Michael Curley, Gregory Finn, Emily Pace, Brian Harms, Jaeyeon Kim, Jeff Kearns, Aaron Fulgham, Olga Burenkova, Viara Grantcharova, Defne Yarar, Violette Paragas, Jonathan Fitzgerald, Marisa Wainszelbaum, Kip West, Sara Mathews, Rachel Nering, Bambang Adiwijaya, Gabriela Garcia, Bill Kubasek, Victor Moyo, Akos Czibere, Ulrik B Nielsen, Gavin MacBeath
The ErbB family of receptor tyrosine kinases comprises four members: epidermal growth factor receptor (EGFR/ErbB1), human EGFR 2 (HER2/ErbB2), ErbB3/HER3, and ErbB4/HER4. The first two members of this family, EGFR and HER2, have been implicated in tumorigenesis and cancer progression for several decades, and numerous drugs have now been approved that target these two proteins. Less attention, however, has been paid to the role of this family in mediating cancer cell survival and drug tolerance. To better understand the complex signal transduction network triggered by the ErbB receptor family, we built a computational model that quantitatively captures the dynamics of ErbB signaling...
2017: NPJ Systems Biology and Applications
https://www.readbyqxmd.com/read/28725148/isolation-biological-evaluation-and-validated-hptlc-quantification-of-the-marker-constituent-of-the-edible-saudi-plant-sisymbrium-irio-l
#10
Shaza M Al-Massarani, Ali A El Gamal, Perwez Alam, Ebtesam S Al-Sheddi, Mai M Al-Oqail, Nida N Farshori
Phytochemical investigation and chromatographic purification of the n-hexane fraction of the aerial parts of the edible Saudi plant Sisymbrium irio led to the isolation of β-sitosterol (1), stigmasterol (2) and β-sitosterol-β-d-glucoside (3). The cytotoxic effects of the n-hexane, dichloromethane, ethyl acetate and n-butanol fractions were tested against three cancer cell lines viz., MCF-7, HCT-116 and HepG2, using the crystal violet staining (CVS) method, while the antibacterial activity against a number of pathogenic bacterial strains, was also estimated using the broth microdilution assay...
July 2017: Saudi Pharmaceutical Journal: SPJ: the Official Publication of the Saudi Pharmaceutical Society
https://www.readbyqxmd.com/read/28724431/biological-embedding-of-childhood-adversity-from-physiological-mechanisms-to-clinical-implications
#11
REVIEW
Anne E Berens, Sarah K G Jensen, Charles A Nelson
BACKGROUND: Adverse psychosocial exposures in early life, namely experiences such as child maltreatment, caregiver stress or depression, and domestic or community violence, have been associated in epidemiological studies with increased lifetime risk of adverse outcomes, including diabetes, heart disease, cancers, and psychiatric illnesses. Additional work has shed light on the potential molecular mechanisms by which early adversity becomes "biologically embedded" in altered physiology across body systems...
July 20, 2017: BMC Medicine
https://www.readbyqxmd.com/read/28724201/variations-in-the-bioactive-compounds-composition-and-biological-activities-of-loofah-luffa-cylindrica-fruits-in-relation-to-maturation-stages
#12
Takoua Ben Hlel, Feten Belhadj, Fatih Gül, Muhammed Altun, Ayşe ŞahinYağlıoğlu, Ibrahim Demirtaş, M Nejib Marzouki
The present work aimed to determine the antioxidant and antiproliferative potential of Luffa cylindrica fruits collected at two different maturation stages and to identify and compare their functional components composition. The methanolic extracts of L. cylindrica fruits harvested at 60 to 65 days after seeding (S1) and 85 to 90 days after seeding (S2) were investigated for their antioxidant activity using various assays. Furthermore, the antiproliferative activity of the extracts against HeLa human cervical cancer cells was explored with xCELLigence real time cell analyzer while the effect of the samples on the membrane integrity of the same cell line was assessed using LDH cytotoxicity leakage assay...
July 19, 2017: Chemistry & Biodiversity
https://www.readbyqxmd.com/read/28722430/multi-amplified-sensing-of-microrna-by-a-small-dna-fragment-driven-enzymatic-cascade-reaction
#13
Eunjung Kim, Philip D Howes, Spencer W Crowder, Molly M Stevens
Combining technological developments such as nanomaterials, DNA nanotechnology, and functional enzymes has great potential to facilitate next generation high performance molecular diagnostic systems. In this work, we describe a microRNA (miRNA) detection assay that combines target recycling and isothermal amplification in an elegantly designed enzyme-mediated cascade reaction. Target recycling is driven by the action of duplex-specific nuclease (DSN), resulting in highly amplified translation of input miRNA to short output DNA fragments...
January 27, 2017: ACS Sensors
https://www.readbyqxmd.com/read/28721912/exosomes-and-exosomal-micrornas-in-prostate-cancer-radiation-therapy
#14
REVIEW
Bijaya Malla, Kathrin Zaugg, Erik Vassella, Daniel M Aebersold, Alan Dal Pra
Despite current risk stratification systems using traditional clinicopathologic factors, many localized and locally advanced prostate cancers fail radical treatment (ie, radical prostatectomy, radiation therapy with or without androgen deprivation therapy). Therefore, a pressing need exists for enhanced methods of disease stratification through novel prognostic and predictive tools that can reliably be applied in clinical practice. Exosomes are 50- to 150-nm small vesicles released by cancer cells that reflect the genetic and nongenetic materials of parent cancer cells...
August 1, 2017: International Journal of Radiation Oncology, Biology, Physics
https://www.readbyqxmd.com/read/28720081/identification-of-an-easy-to-use-3d-culture-model-to-investigate-invasion-and-anticancer-drug-response-in-chondrosarcomas
#15
Eva Lhuissier, Céline Bazille, Juliette Aury-Landas, Nicolas Girard, Julien Pontin, Martine Boittin, Karim Boumediene, Catherine Baugé
BACKGROUND: Cytotoxic efficacy of anticancer drugs has been widely studied with monolayer-cultured cancer cells. However, the efficacy of drugs under two-dimensional (2D) culture condition usually differs from that of three-dimensional (3D) one. In the present study, an in vitro tumor tissue model was constructed using alginate hydrogel, and in vitro cytotoxic efficacy of two anticancer drugs (cisplatin and DZNep) was investigated in chondrosarcomas, and compared to in vivo response. METHODS: Three cell lines derived from human chondrosarcomas, CH2879, JJ012 and SW1353, were embedded in alginate hydrogel...
July 18, 2017: BMC Cancer
https://www.readbyqxmd.com/read/28718729/the-novel-autophagy-inhibitor-elaiophylin-exerts-antitumor-activity-against-multiple-myeloma-with-mutant-tp53-in-part-through-endoplasmic-reticulum-stress-induced-apoptosis
#16
Wang Gaoxiang, Zhou Pan, Chen Xing, Lei Zhao, Tan Jiaqi, Yang Yang, Yong Fang, Jianfeng Zhou
Elaiophylin is a natural compound and a novel and potent inhibitor of late stage autophagy with outstanding antitumor activity in human ovarian cancer cells. However, the possible biological effects and functional linkage between elaiophylin and multiple myeloma (MM) have not been explored. This study aimed to assess the effect of elaiophylin on MM cells with mutant TP53 and the possible molecular mechanism. The results suggested that elaiophylin exerted anti-myeloma activity by inducing apoptosis and proliferation arrest...
July 18, 2017: Cancer Biology & Therapy
https://www.readbyqxmd.com/read/28718407/cell-and-tissue-biology-paves-a-path-to-breast-cancer-prevention
#17
Michael E Todhunter, Mark A LaBarge
We hypothesize that breast cancer susceptibility stems from interactions between difficult-to-modify cultural and dietary habits and aging processes that are modifiable. We propose a pathway to prevention that uses human organotypic systems that recapitulate hallmarks of aging in order to better understand and to modulate the biological consequences of aging in breast.
May 2017: Trends in Cancer
https://www.readbyqxmd.com/read/28718378/microrna-613-is-downregulated-in-hcmv-positive-glioblastoma-and-inhibits-tumour-progression-by-targeting-arginase-2
#18
Yan Wang, Peng Zhao, Dongmeng Qian, Ming Hu, Li Zhang, Hailei Shi, Bin Wang
Glioblastoma is the most common and malignant tumour that occurs primarily in nervous system and has a high morbidity. Research on glioblastoma has recently focused on human cytomegalovirus, belonging to the beta subfamily of Herpesviridae that plays crucial roles in cancer development and progression. This study aimed to investigate the role of human cytomegalovirus-associated microRNA-613 in glioblastoma. In this study, we demonstrate that microRNA-613 expression was frequently reduced in human cytomegalovirus-positive glioblastoma specimens/cells compared with human cytomegalovirus-negative glioblastoma tissue/cells, and a significant correlation was observed between the reduction in microRNA-613 expression and the presence of unfavourable variables, including tumour size (p = 0...
July 2017: Tumour Biology: the Journal of the International Society for Oncodevelopmental Biology and Medicine
https://www.readbyqxmd.com/read/28718351/exosomal-hsp60-a-potentially-useful-biomarker-for-diagnosis-assessing-prognosis-and-monitoring-response-to-treatment
#19
Caruso Bavisotto, F Cappello, Ajl Macario, E Conway de Macario, M Logozzi, S Fais, C Campanella
Cell-to-cell communication is imperative for life and it is mediated by sending and receiving information via the secretion and subsequent receptor-mediated detection of biological molecules. Exosomes (EXs) secreted from cells to the extracellular environment play an important role in intercellular communication in normal and pathological conditions. Areas covered: New evidence indicates that tumor cells-derived EXs contribute to cancer progression through the modulation of tumor microenvironment. The exosomal heat shock protein 60 (HSP60) is very likely a key player in intercellular cross-talk, particularly during the progress of diseases, such as cancer...
July 18, 2017: Expert Review of Molecular Diagnostics
https://www.readbyqxmd.com/read/28718278/matrix-stiffness-differentially-regulates-cellular-uptake-behavior-of-nanoparticles-in-two-breast-cancer-cell-lines
#20
Yu Wang, Tao Gong, Zhirong Zhang, Yao Fu
Matrix stiffness regulates cell behavior in various biological contexts. In breast tumors, the deposition of extracellular matrix (ECM) correlates with increasing matrix stiffness and poor survival. Nanoparticulate carriers represent a promising therapeutic vehicle for disease diagnosis and efficient anticancer drug delivery. However, how matrix stiffness influences cellular uptake of nanoparticle remains largely unexplored. Here, we selected photopolymerized polyacrylamide gels with varying stiffness as model substrates, and studied the impact of matrix stiffness on cell morphology, nanoparticle uptake efficiency in two representative breast cancer cell lines with varying invasiveness, i...
July 18, 2017: ACS Applied Materials & Interfaces
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