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https://www.readbyqxmd.com/read/28331894/wetland-monitoring-with-global-navigation-satellite-system-reflectometry
#1
Son V Nghiem, Cinzia Zuffada, Rashmi Shah, Clara Chew, Stephen T Lowe, Anthony J Mannucci, Estel Cardellach, G Robert Brakenridge, Gary Geller, Ake Rosenqvist
Information about wetland dynamics remains a major missing gap in characterizing, understanding, and projecting changes in atmospheric methane and terrestrial water storage. A review of current satellite methods to delineate and monitor wetland change shows some recent advances, but much improved sensing technologies are still needed for wetland mapping, not only to provide more accurate global inventories but also to examine changes spanning multiple decades. Global Navigation Satellite Systems Reflectometry (GNSS-R) signatures from aircraft over the Ebro River Delta in Spain and satellite measurements over the Mississippi River and adjacent watersheds demonstrate that inundated wetlands can be identified under different vegetation conditions including a dense rice canopy and a thick forest with tall trees, where optical sensors and monostatic radars provide limited capabilities...
January 2017: Earth Space Sci
https://www.readbyqxmd.com/read/28320778/the-epitranscriptome-of-noncoding-rnas-in-cancer
#2
REVIEW
Manel Esteller, Pier Paolo Pandolfi
The activity of RNA is controlled by different types of post-transcriptional modifications, such as the addition of methyl groups and other chemical and structural changes, that have been recently described in human cells by high-throughput sequencing. Herein, we will discuss how the so-called epitranscriptome is disrupted in cancer and what the contribution of its writers, readers, and erasers to the process of cellular transformation is, particularly focusing on the epigenetic modifications of ncRNAs.Significance: Chemical modifications of RNA play a central role in the control of messenger and ncRNA activity and, thus, are tightly regulated in cells...
March 20, 2017: Cancer Discovery
https://www.readbyqxmd.com/read/28291583/factors-predictive-of-high-disease-activity-early-in-the-course-of-sle-in-patients-from-a-latin-american-cohort
#3
Victor R Pimentel-Quiroz, Manuel F Ugarte-Gil, Guillermo J Pons-Estel, Enrique R Soriano, Verónica Saurit, Emilia I Sato, Lilian T Lavras Costallat, José Fernando Molina, Antonio Iglesias-Gamarra, Gil Reyes-Llerena, Oscar J Neira, Leonor A Barile, Luis H Silveira, María Ines Segami, Rosa Chacón-Díaz, Daniel Wojdyla, Graciela S Alarcón, Bernardo A Pons-Estel
AIMS: To determine the factors predictive of disease activity early in the course of SLE (baseline visit). METHODS: Patients from GLADEL, a multi-national, multi-ethnic, Latin-American lupus cohort were included. Disease activity was evaluated at baseline with the SLEDAI score. Demographic characteristics (age at diagnosis, gender, ethnicity, marital status, educational level, medical coverage and socioeconomic status) were assessed. Disease duration was defined as the time between the fourth ACR criterion and baseline...
February 2, 2017: Seminars in Arthritis and Rheumatism
https://www.readbyqxmd.com/read/28288143/dnmt3a-mutations-mediate-the-epigenetic-reactivation-of-the-leukemogenic-factor-meis1-in-acute-myeloid-leukemia
#4
H J Ferreira, H Heyn, M Vizoso, C Moutinho, E Vidal, A Gomez, A Martínez-Cardús, L Simó-Riudalbas, S Moran, E Jost, M Esteller
No abstract text is available yet for this article.
March 13, 2017: Oncogene
https://www.readbyqxmd.com/read/28253259/scalable-design-of-paired-crispr-guide-rnas-for-genomic-deletion
#5
Carlos Pulido-Quetglas, Estel Aparicio-Prat, Carme Arnan, Taisia Polidori, Toni Hermoso, Emilio Palumbo, Julia Ponomarenko, Roderic Guigo, Rory Johnson
CRISPR-Cas9 technology can be used to engineer precise genomic deletions with pairs of single guide RNAs (sgRNAs). This approach has been widely adopted for diverse applications, from disease modelling of individual loci, to parallelized loss-of-function screens of thousands of regulatory elements. However, no solution has been presented for the unique bioinformatic design requirements of CRISPR deletion. We here present CRISPETa, a pipeline for flexible and scalable paired sgRNA design based on an empirical scoring model...
March 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28211912/dna-methylation-map-in-circulating-leukocytes-mirrors-subcutaneous-adipose-tissue-methylation-pattern-a-genome-wide-analysis-from-non-obese-and-obese-patients
#6
A B Crujeiras, A Diaz-Lagares, J Sandoval, F I Milagro, S Navas-Carretero, M C Carreira, A Gomez, D Hervas, M P Monteiro, F F Casanueva, M Esteller, J A Martinez
The characterization of the epigenetic changes within the obesity-related adipose tissue will provide new insights to understand this metabolic disorder, but adipose tissue is not easy to sample in population-based studies. We aimed to evaluate the capacity of circulating leukocytes to reflect the adipose tissue-specific DNA methylation status of obesity susceptibility. DNA samples isolated from subcutaneous adipose tissue and circulating leukocytes were hybridized in the Infinium HumanMethylation 450 BeadChip...
February 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28203724/endocrine-changes-fetal-growth-and-uterine-artery-hemodynamics-after-chronic-estrogen-suppression-during-the-last-trimester-of-equine-pregnancy%C3%A2
#7
Alejandro Esteller-Vico, Barry A Ball, Mats H T Troedsson, Edward L Squires
No abstract text is available yet for this article.
February 1, 2017: Biology of Reproduction
https://www.readbyqxmd.com/read/28178655/chl1-hypermethylation-as-a-potential-biomarker-of-poor-prognosis-in-breast-cancer
#8
Esperanza Martín-Sánchez, Saioa Mendaza, Ane Ulazia-Garmendia, Iñaki Monreal-Santesteban, Idoia Blanco-Luquin, Alicia Córdoba, Francisco Vicente-García, Noemí Pérez-Janices, David Escors, Diego Megías, Paula López-Serra, Manel Esteller, José Juan Illarramendi, David Guerrero-Setas
The CHL1 gene encodes a cell-adhesion molecule proposed as being a putative tumour-suppressor gene in breast cancer (BC). However, neither the underlying molecular mechanisms nor the clinical value of CHL1 downregulation in BC has been explored. The methylation status of three CpG sites in the CHL1 promoter was analysed by pyrosequencing in neoplastic biopsies from 142 patients with invasive BC and compared with that of non-neoplastic tissues. We found higher CHL1 methylation levels in breast tumours than in non-neoplastic tissues, either from mammoplasties or adjacent-to-tumour, which correlated with lower levels of protein expression in tumours measured by immunohistochemistry...
February 2, 2017: Oncotarget
https://www.readbyqxmd.com/read/28173075/metformin-pharmacogenomics-a-genome-wide-association-study-to-identify-genetic-and-epigenetic-biomarkers-involved-in-metformin-anticancer-response-using-human-lymphoblastoid-cell-lines
#9
Nifang Niu, Tongzheng Liu, Junmei Cairns, Reynold C Ly, Xianglin Tan, Min Deng, Brooke L Fridley, Krishna R Kalari, Ryan P Abo, Gregory Jenkins, Anthony Batzler, Erin E Carlson, Poulami Barman, Sebastian Moran, Holger Heyn, Manel Esteller, Liewei Wang
No abstract text is available yet for this article.
November 1, 2016: Human Molecular Genetics
https://www.readbyqxmd.com/read/28172721/p091-usefulness-of-transcriptional-whole-blood-biomarkers-as-a-non-invasive-surrogate-marker-of-mucosal-healing-and-endoscopic-response-in-ulcerative-colitis
#10
N Planell, M C Masamunt, R Franco Leal, L Rodríguez, M Esteller, J J Lozano, A Ramírez, M D L Setsuko Ayrizono, C Saddy Rodrigues Coy, I Alfaro, I Ordás, S Visvanathan, E Ricart, J Guardiola, J Panés, A Salas
No abstract text is available yet for this article.
February 1, 2017: Journal of Crohn's & Colitis
https://www.readbyqxmd.com/read/28166834/downregulation-of-mir-130b-301b-cluster-is-mediated-by-aberrant-promoter-methylation-and-impairs-cellular-senescence-in-prostate-cancer
#11
João Ramalho-Carvalho, Inês Graça, Antonio Gomez, Jorge Oliveira, Rui Henrique, Manel Esteller, Carmen Jerónimo
BACKGROUND: Numerous DNA-damaging cellular stresses, including oncogene activation and DNA-damage response (DDR), may lead to cellular senescence. Previous observations linked microRNA deregulation with altered senescent patterns, prompting us to investigate whether epigenetic repression of microRNAs expression might disrupt senescence in prostate cancer (PCa) cells. METHODS: Differential methylation mapping in prostate tissues was carried using Infinium HumanMethylation450 BeadChip...
February 6, 2017: Journal of Hematology & Oncology
https://www.readbyqxmd.com/read/28143614/mir-193b-promoter-methylation-accurately-detects-prostate-cancer-in-urine-sediments-and-mir-34b-c-or-mir-129-2-promoter-methylation-define-subsets-of-clinically-aggressive-tumors
#12
Jorge Torres-Ferreira, João Ramalho-Carvalho, Antonio Gomez, Francisco Duarte Menezes, Rui Freitas, Jorge Oliveira, Luís Antunes, Maria José Bento, Manel Esteller, Rui Henrique, Carmen Jerónimo
BACKGROUND: Contemporary challenges of prostate cancer (PCa) include overdiagnosis and overtreatment, entailing the need for novel clinical tools to improve risk stratification and therapy selection. PCa diagnosis and prognostication might be perfected using epigenetic biomarkers, among which aberrant DNA methylation of microRNA promoters has not been systematically explored. Herein, we identified aberrantly methylated microRNAs promoters in PCa and assessed its diagnostic and prognostic biomarker potential...
January 31, 2017: Molecular Cancer
https://www.readbyqxmd.com/read/28139759/the-intervening-domain-from-mecp2-enhances-the-dna-affinity-of-the-methyl-binding-domain-and-provides-an-independent-dna-interaction-site
#13
Rafael Claveria-Gimeno, Pilar M Lanuza, Ignacio Morales-Chueca, Olga C Jorge-Torres, Sonia Vega, Olga Abian, Manel Esteller, Adrian Velazquez-Campoy
Methyl-CpG binding protein 2 (MeCP2) preferentially interacts with methylated DNA and it is involved in epigenetic regulation and chromatin remodelling. Mutations in MeCP2 are linked to Rett syndrome, the leading cause of intellectual retardation in girls and causing mental, motor and growth impairment. Unstructured regions in MeCP2 provide the plasticity for establishing interactions with multiple binding partners. We present a biophysical characterization of the methyl binding domain (MBD) from MeCP2 reporting the contribution of flanking domains to its structural stability and dsDNA interaction...
January 31, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28105729/whole-genome-grey-and-white-matter-dna-methylation-profiles-in-dorsolateral-prefrontal-cortex
#14
Jose Vicente Sanchez-Mut, Holger Heyn, Enrique Vidal, Raúl Delgado-Morales, Sebastian Moran, Sergi Sayols, Juan Sandoval, Isidre Ferrer, Manel Esteller, Johannes Gräff
The brain's neocortex is anatomically organized into grey and white matter, which are mainly composed by neuronal and glial cells, respectively. The neocortex can be further divided in different Brodmann areas according to their cytoarchitectural organization, which are associated with distinct cortical functions. There is increasing evidence that brain development and function are governed by epigenetic processes, yet their contribution to the functional organization of the neocortex remains incompletely understood...
January 20, 2017: Synapse
https://www.readbyqxmd.com/read/28059796/a-common-variant-in-the-mc1r-gene-p-v92m-is-associated-with-alzheimer-s-disease-risk
#15
Gemma Tell-Marti, Joan Anton Puig-Butille, Miriam Potrony, Estel Plana, Celia Badenas, Anna Antonell, Raquel Sanchez-Valle, José L Molinuevo, Alberto Lleó, Daniel Alcolea, Juan Fortea, Ruben Fernandez-Santiago, Jordi Clarimón, Albert Lladó, Susana Puig
Despite the recent identification of some novel risk genes for Alzheimer's disease (AD), the genetic etiology of late-onset Alzheimer's disease (LOAD) remains largely unknown. The inclusion of these novel risk genes to the risk attributable to the APOE gene accounts for roughly half of the total genetic variance in LOAD. The evidence indicates that undiscovered genetic factors may contribute to AD susceptibility. In the present study, we sequenced the MC1R gene in 525 Spanish LOAD patients and in 160 controls...
December 3, 2017: Journal of Alzheimer's Disease: JAD
https://www.readbyqxmd.com/read/28044062/opening-up-the-dna-methylome-of-dementia
#16
R Delgado-Morales, M Esteller
Dementia is a complex clinical condition characterized by several cognitive impairments that interfere with patient independence in executing everyday tasks. Various neurodegenerative disorders have dementia in common among their clinical manifestations. In addition, these diseases, such as Alzheimer's disease, Parkinson's disease, dementia with Lewy bodies and frontotemporal dementia, share molecular alterations at the neuropathological level. In recent years, the field of neuroepigenetics has expanded massively and it is now clear that epigenetic processes, such as DNA methylation, are mechanisms involved in both normal and pathological brain function...
April 2017: Molecular Psychiatry
https://www.readbyqxmd.com/read/28008913/collisional-cross-section-of-water-molecules-in-vapour-studied-by-means-of-1-h-relaxation-in-nmr
#17
Daniele Mammoli, Estel Canet, Roberto Buratto, Pascal Miéville, Lothar Helm, Geoffrey Bodenhausen
In gas phase, collisions that affect the rotational angular momentum lead to the return of the magnetization to its equilibrium (relaxation) in Nuclear Magnetic Resonance (NMR). To the best of our knowledge, the longitudinal relaxation rates R1 = 1/T1 of protons in H2O and HDO have never been measured in gas phase. We report R1 in gas phase in a field of 18.8 T, i.e., at a proton Larmor frequency ν0 = 800 MHz, at temperatures between 353 and 373 K and pressures between 9 and 101 kPa. By assuming that spin rotation is the dominant relaxation mechanism, we estimated the effective cross-section σJ for the transfer of angular momentum due to H2O-H2O and HDO-D2O collisions...
December 23, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27999094/the-epigenetic-landscape-of-alu-repeats-delineates-the-structural-and-functional-genomic-architecture-of-colon-cancer-cells
#18
Mireia Jordà, Anna Díez-Villanueva, Izaskun Mallona, Berta Martín, Sergi Lois, Víctor Barrera, Manel Esteller, Tanya Vavouri, Miguel A Peinado
Cancer cells exhibit multiple epigenetic changes with prominent local DNA hypermethylation and widespread hypomethylation affecting large chromosomal domains. Epigenome studies often disregard the study of repeat elements owing to technical complexity and their undefined role in genome regulation. We have developed NSUMA (Next-generation Sequencing of UnMethylated Alu), a cost-effective approach allowing the unambiguous interrogation of DNA methylation in more than 130,000 individual Alu elements, the most abundant retrotransposon in the human genome...
January 2017: Genome Research
https://www.readbyqxmd.com/read/27991928/stem-cell-like-transcriptional-reprogramming-mediates-metastatic-resistance-to-mtor-inhibition
#19
F Mateo, E J Arenas, H Aguilar, J Serra-Musach, G Ruiz de Garibay, J Boni, M Maicas, S Du, F Iorio, C Herranz-Ors, A Islam, X Prado, A Llorente, A Petit, A Vidal, I Català, T Soler, G Venturas, A Rojo-Sebastian, H Serra, D Cuadras, I Blanco, J Lozano, F Canals, A M Sieuwerts, V de Weerd, M P Look, S Puertas, N García, A S Perkins, N Bonifaci, M Skowron, L Gómez-Baldó, V Hernández, A Martínez-Aranda, M Martínez-Iniesta, X Serrat, J Cerón, J Brunet, M P Barretina, M Gil, C Falo, A Fernández, I Morilla, S Pernas, M J Plà, X Andreu, M A Seguí, R Ballester, E Castellà, M Nellist, S Morales, J Valls, A Velasco, X Matias-Guiu, A Figueras, J V Sánchez-Mut, M Sánchez-Céspedes, A Cordero, J Gómez-Miragaya, L Palomero, A Gómez, T F Gajewski, E E W Cohen, M Jesiotr, L Bodnar, M Quintela-Fandino, N López-Bigas, R Valdés-Mas, X S Puente, F Viñals, O Casanovas, M Graupera, J Hernández-Losa, S Ramón Y Cajal, L García-Alonso, J Saez-Rodriguez, M Esteller, A Sierra, N Martín-Martín, A Matheu, A Carracedo, E González-Suárez, M Nanjundan, J Cortés, C Lázaro, M D Odero, J W M Martens, G Moreno-Bueno, M H Barcellos-Hoff, A Villanueva, R R Gomis, M A Pujana
Inhibitors of the mechanistic target of rapamycin (mTOR) are currently used to treat advanced metastatic breast cancer. However, whether an aggressive phenotype is sustained through adaptation or resistance to mTOR inhibition remains unknown. Here, complementary studies in human tumors, cancer models and cell lines reveal transcriptional reprogramming that supports metastasis in response to mTOR inhibition. This cancer feature is driven by EVI1 and SOX9. EVI1 functionally cooperates with and positively regulates SOX9, and promotes the transcriptional upregulation of key mTOR pathway components (REHB and RAPTOR) and of lung metastasis mediators (FSCN1 and SPARC)...
December 19, 2016: Oncogene
https://www.readbyqxmd.com/read/27933180/serum-levels-of-immunoglobulins-and-severity-of-community-acquired-pneumonia
#20
Mari C de la Torre, Pere Torán, Mateu Serra-Prat, Elisabet Palomera, Estel Güell, Ester Vendrell, Joan Carles Yébenes, Antoni Torres, Jordi Almirall
INSTRUCTION: There is evidence of a relationship between severity of infection and inflammatory response of the immune system. The objective is to assess serum levels of immunoglobulins and to establish its relationship with severity of community-acquired pneumonia (CAP) and clinical outcome. METHODS: This was an observational and cross-sectional study in which 3 groups of patients diagnosed with CAP were compared: patients treated in the outpatient setting (n=54), patients requiring in-patient care (hospital ward) (n=173), and patients requiring admission to the intensive care unit (ICU) (n=191)...
2016: BMJ Open Respiratory Research
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