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Consensus molecular

K Ina Ly, Derek H Oakley, Alexander B Pine, Matthew P Frosch, Sy Han Chiou, Rebecca A Betensky, Stuart R Pomerantz, Fred H Hochberg, Tracy T Batchelor, Daniel P Cahill, Jorg Dietrich
BACKGROUND: The 2016 World Health Organization Classification of Central Nervous System Tumors categorizes gliomatosis cerebri growth pattern (GC) as a subgroup of diffuse infiltrating gliomas, defined by extent of brain involvement on magnetic resonance imaging (MRI). Clinical and radiographic features in GC patients are highly heterogeneous; however, prognosis has historically been considered poor. SUBJECTS, MATERIALS, AND METHODS: We performed a retrospective search for patients at our institution meeting radiographic criteria of primary, type I GC (defined as diffuse tumor infiltration without associated tumor mass and contrast enhancement on MRI) and analyzed their clinical, imaging, and histopathologic features...
August 10, 2018: Oncologist
Chahrazed Mekadim, Jiří Killer, Radko Pechar, Jakub Mrázek
The order Lactobacillales represents a morphologically, metabolically, and physiologically diverse group of bacteria. Lactic acid bacteria represent the core of this phylogenetic group. They are a part of epiphytic microflora, fermented dairy, meat, fruit and vegetable products, and the digestive tract of humans and animals. Despite the fact that these bacteria form a phenotypically and genotypically heterogeneous group, their phylogenetic relationship enables to propose a common genetic marker usable in classification, typing, and phylogeny...
August 9, 2018: Folia Microbiologica
Jana Biermann, Toshima Z Parris, Szilárd Nemes, Anna Danielsson, Hanna Engqvist, Elisabeth Werner Rönnerman, Eva Forssell-Aronsson, Anikó Kovács, Per Karlsson, Khalil Helou
BACKGROUND: Molecular classification of tumour clonality is currently not evaluated in multiple invasive breast carcinomas, despite evidence suggesting common clonal origins. There is no consensus about which type of data (e.g. copy number, mutation, histology) and especially which statistical method is most suitable to distinguish clonal recurrences from independent primary tumours. METHODS: Thirty-seven invasive breast tumour pairs were stratified according to laterality and time interval between the diagnoses of the two tumours...
August 9, 2018: Breast Cancer Research: BCR
Beata Myśków, Magdalena Góralska, Natalia Lenarczyk, Ilona Czyczyło-Mysza, Stefan Stojałowski
BACKGROUND: Rolling of leaves (RL) is a phenomenon commonly found in grasses. Morphology of the leaf is an important agronomic trait in field crops especially in rice; therefore, majority of the rice breeders are interested in RL. There are only few studies with respect to RL of wheat and barley; however, the information regarding the genetic base of RL with respect to the shape of leaf in rye is lacking. To the best of our knowledge, this is the first study on the localization of loci controlling RL on high density consensus genetic map of rye...
August 9, 2018: BMC Genetics
Mahalakshmi Thillainayagam, Kullappan Malathi, Anand Anbarasu, Harpreet Singh, Renu Bahadur, Sudha Ramaiah
In the present study, we have explored the anti-malarial potential of epoxyazadiradione, the natural entity extracted from the neem seed oil and its chemical derivatives, against Plasmodium falciparum. The Surflex dock analysis of forty one compounds against an indispensable target, plasmepsin I revealed that around 70% of the compounds are found to have good binding capacity with the Consensus score of 5 to 4 with few hydrogen bonds. To elucidate the major structural requirements, vital for binding with the plasmepsin enzyme and to develop the predictive models, 3-Dimentional Quantitative Structure Activity Relationship - Comparative Molecular Field Analysis was carried out using Sybyl X...
August 9, 2018: Journal of Biomolecular Structure & Dynamics
W L Allen, P D Dunne, S McDade, E Scanlon, M Loughrey, H Coleman, C McCann, K McLaughlin, Z Nemeth, N Syed, P Jithesh, K Arthur, R Wilson, V Coyle, D McArt, G I Murray, L Samuel, P Nuciforo, J Jimenez, G Argiles, R Dienstmann, J Tabernero, L Messerini, S Nobili, E Mini, K Sheahan, E Ryan, P G Johnston, S Van Schaeybroeck, M Lawler, D B Longley
Purpose: Transcriptomic profiling of colorectal cancer (CRC) has led to identification of four consensus molecular subtypes (CMS1-4), which have prognostic value in stage II/III disease. More recently, the Colorectal Cancer Intrinsic Subtypes (CRIS) classification system has helped to define the biology specific to the epithelial component of colorectal tumors. However, the clinical value of these classifications in predicting response to standard-of-care adjuvant chemotherapy remains unknown...
June 13, 2018: JCO precision oncology
Jianping Zhang, Yan Long, Liming Wang, Zhao Dang, Tianbao Zhang, Xiaxia Song, Zhanhai Dang, Xinwu Pei
BACKGROUND: Flax is an important field crop that can be used for either oilseed or fiber production. Plant height and technical length are important characters for flax. For linseed flax, plants usually have a short technical length and plant height than those for fiber flax. As an important agronomical character for fiber and linseed flax, plant height is usually a selection target for breeding. However, because of limited technologies and methods available, there has been little research focused on discovering the molecular mechanism controlling plant height...
August 7, 2018: BMC Plant Biology
Gregory M Chen, Lavanya Kannan, Ludwig Geistlinger, Victor Kofia, Zhaleh Safikhani, Deena M A Gendoo, Giovanni Parmigiani, Michael J Birrer, Benjamin Haibe-Kains, Levi Waldron
PURPOSE: The majority of ovarian carcinomas are of high-grade serous histology, which is associated with poor prognosis. Surgery and chemotherapy are the mainstay of treatment, and molecular characterization is necessary to lead the way to targeted therapeutic options. To this end, various computational methods for gene expression-based subtyping of high-grade serous ovarian carcinoma (HGSOC) have been proposed, but their overlap and robustness remain unknown. EXPERIMENTAL DESIGN: We assess three major subtype classifiers by meta-analysis of publicly available expression data, and assess statistical criteria of subtype robustness and classifier concordance...
July 3, 2018: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
Hong Wang, Yan Li, Na Lv, Yonghui Li, Lili Wang, Li Yu
Azacitidine and decitabine, two hypomethylating agents, are known to be effective in the treatment of high-risk myelodysplastic syndromes (MDS) and acute myeloid leukemia (AML) patients who cannot endure intensive cytotoxic chemotherapy or are not eligible for transplantation. However, the treatment response rate is low. The molecular mechanisms underlying the resistance to demethylation therapy are unclear. Though a wide range of predictors of treatment response have been investigated, no consensus has been reached...
August 6, 2018: Annals of Hematology
Cristian De Gregorio, David Contador, Mario Campero, Marcelo Ezquer, Fernando Ezquer
Diabetes mellitus (DM) is one of most frequent chronic diseases with an increasing incidence in most countries. Diabetic neuropathy (DN) is one of the earliest and main complications of diabetic patients, which is characterized by progressive, distal-to-proximal degeneration of peripheral nerves. The cellular and molecular mechanisms that trigger DN are highly complex, heterogeneous and not completely known. Animal models have constituted a valuable tool for understanding diabetes pathophysiology; however, the temporal course of DN progression in animal models of type 2 diabetes (T2DM) is not completely understood...
August 6, 2018: Biology Open
Nicholas J Short, Michael E Rytting, Jorge E Cortes
For several decades, few substantial therapeutic advances have been made for patients with acute myeloid leukaemia. However, since 2017 unprecedented growth has been seen in the number of drugs available for the treatment of acute myeloid leukaemia, with several new drugs receiving regulatory approval. In addition to advancing our therapeutic armamentarium, an increased understanding of the biology and genomic architecture of acute myeloid leukaemia has led to refined risk assessment of this disease, with consensus risk stratification guidelines now incorporating a growing number of recurrent molecular aberrations that aid in the selection of risk-adapted management strategies...
August 2, 2018: Lancet
Marcin Wlodarczyk, Jakub Wlodarczyk, Pawel Siwinski, Jakub Fichna, Aleksandra Sobolewska-Wlodarczyk
Colorectal cancer (CRC) is a heterogeneous disease entity in terms of both molecular carcinogenesis and morphologic carcinogenesis multistep pathways. A better understanding of pathophysiology of tumors is necessary to develop modern and successful means of treatment in metastatic CRC. Over the last 5 years there has been a surge in interest in the molecular classification of colorectal cancer, as its clinical importance both for predicting prognosis and in guiding personalized treatment had been acknowledged...
August 3, 2018: Current Drug Targets
Martina Zügel, Constantinos N Maganaris, Jan Wilke, Karin Jurkat-Rott, Werner Klingler, Scott C Wearing, Thomas Findley, Mary F Barbe, Jürgen Michael Steinacker, Andry Vleeming, Wilhelm Bloch, Robert Schleip, Paul William Hodges
The fascial system builds a three-dimensional continuum of soft, collagen-containing, loose and dense fibrous connective tissue that permeates the body and enables all body systems to operate in an integrated manner. Injuries to the fascial system cause a significant loss of performance in recreational exercise as well as high-performance sports, and could have a potential role in the development and perpetuation of musculoskeletal disorders, including lower back pain. Fascial tissues deserve more detailed attention in the field of sports medicine...
August 2, 2018: British Journal of Sports Medicine
Juan P Jiménez, Alberto Botto, Luisa Herrera, Caroline Leighton, José L Rossi, Yamil Quevedo, Jaime R Silva, Felipe Martínez, Rodrigo Assar, Luis A Salazar, Manuel Ortiz, Ulises Ríos, Paulina Barros, Karina Jaramillo, Patrick Luyten
Recent research in psychiatric genetics has led to a move away from simple diathesis-stress models to more complex models of psychopathology incorporating a focus on gene-environment interactions and epigenetics. Our increased understanding of the way biology encodes the impact of life events on organisms has also generated more sophisticated theoretical models concerning the molecular processes at the interface between "nature" and "nurture." There is also increasing consensus that psychotherapy entails a specific type of learning in the context of an emotional relationship (i...
2018: Frontiers in Genetics
Binghao Bao, Hongbo Chao, Hao Wang, Weiguo Zhao, Lina Zhang, Nadia Raboanatahiry, Xiaodong Wang, Baoshan Wang, Haibo Jia, Maoteng Li
Fatty acid (FA) composition is the typical quantitative trait in oil seed crops, of which study is not only closely related to oil content, but is also more critical for the quality improvement of seed oil. The double haploid (DH) population named KN with a high density SNP linkage map was applied for quantitative trait loci (QTL) analysis of FA composition in this study. A total of 406 identified QTL were detected for eight FA components with an average confidence interval (CI) of 2.92 cM, the explained phenotypic variation (PV) value ranged from 1...
2018: Frontiers in Plant Science
Thomas W P Wood, Tetsuya Nakamura
The fish-to-tetrapod transition is one of the fundamental problems in evolutionary biology. A significant amount of paleontological data has revealed the morphological trajectories of skeletons, such as those of the skull, vertebrae, and appendages in vertebrate history. Shifts in bone differentiation, from dermal to endochondral bones, are key to explaining skeletal transformations during the transition from water to land. However, the genetic underpinnings underlying the evolution of dermal and endochondral bones are largely missing...
2018: Frontiers in Cell and Developmental Biology
Yi Tan, Brett E Pickett, Susmita Shrivastava, Lionel Gresh, Angel Balmaseda, Paolo Amedeo, Lihui Hu, Vinita Puri, Nadia B Fedorova, Rebecca A Halpin, Matthew P LaPointe, Marshall R Cone, Lea Heberlein-Larson, Laura D Kramer, Alexander T Ciota, Aubree Gordon, Reed S Shabman, Suman R Das, Eva Harris
Chikungunya virus (CHIKV) has been detected sporadically since the 1950s and includes three distinct co-circulating genotypes. In late 2013, the Asian genotype of CHIKV was responsible for the Caribbean outbreak (CO) that rapidly became an epidemic throughout the Americas. There is a limited understanding of the molecular evolution of CHIKV in the Americas during this epidemic. We sequenced 185 complete CHIKV genomes collected mainly from Nicaragua in Central America and Florida in the United States during the 2014-2015 Caribbean/Americas epidemic...
July 30, 2018: PLoS Neglected Tropical Diseases
Kazeem O Sulaiman, Temitope U Kolapo, Abdulmujeeb T Onawole, Ataul Islam, Rukayat O Adegoke, Suaibu O Badmus
Ebola virus (EBOV) is a lethal human pathogen with a risk of global spread of its zoonotic infections, and Ebolavirus Zaire specifically has the highest fatality rate amongst other species. There is a need for continuous effort towards having therapies, as a single licensed treatment to neutralize the EBOV is yet to come into reality. This present study virtually screened the MCULE database containing almost 36 million compounds against the structure of a Zaire Ebola viral protein (VP) 35 and a consensus scoring of both MCULE and CLCDDW docking programs remarked five compounds as potential hits...
July 30, 2018: Journal of Biomolecular Structure & Dynamics
Victor Jun Yu Lim, Weina Du, Yu Zong Chen, Hao Fan
G-protein-coupled receptor (GPCR) is an important target class of proteins for drug discovery, with over 27% of FDA-approved drugs targeting GPCRs. However, being a membrane protein, it is difficult to obtain the 3D crystal structures of GPCRs for virtual screening of ligands by molecular docking. Thus, we evaluated the virtual screening performance of homology models of human GPCRs with respect to the corresponding crystal structures. Among the 19 GPCRs involved in this study, we observed that 10 GPCRs have homology models that have better or comparable performance with respect to the corresponding X-ray structures, making homology models a viable choice for virtual screening...
July 27, 2018: Proteins
Murilo R Rocha, Pedro Barcellos-de-Souza, Annie Cristhine M Sousa-Squiavinato, Priscila V Fernandes, Ivanir M de Oliveira, Mariana Boroni, Jose A Morgado-Diaz
Annexin A2 (ANXA2) is upregulated in several malignancies, including colorectal cancer (CRC). However, there is little knowledge on the molecular mechanisms involved to its upregulation. The aim of this study was to identify the mechanism through which ANXA2 overexpression leads to CRC progression and evaluate its potential prognostic value. We used human CRC samples to analyse the correlation between ANXA2 levels and tumour staging. ANXA2 expression was increased in CRC tissues compared to normal colon tissues...
July 26, 2018: Scientific Reports
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