Amplified and Homozygously Deleted Genes in Glioblastoma: Impact on Gene Expression Levels

BACKGROUND: Glioblastoma multiforme (GBM) displays multiple amplicons and homozygous deletions that involve relevant pathogenic genes and other genes whose role remains unknown. METHODOLOGY: Single-nucleotide polymorphism (SNP)-arrays were used to determine the frequency of recurrent amplicons and homozygous deletions in GBM (n = 46), and to evaluate the impact of copy number alterations (CNA) on mRNA levels of the genes involved. PRINCIPAL FINDINGS: Recurrent amplicons were detected for chromosomes 7 (50%), 12 (22%), 1 (11%), 4 (9%), 11 (4%), and 17 (4%), whereas homozygous deletions involved chromosomes 9p21 (52%) and 10q (22%). Most genes that displayed a high correlation between DNA CNA and mRNA levels were coded in the amplified chromosomes. For some amplicons the impact of DNA CNA on mRNA expression was restricted to a single gene (e.g., EGFR at 7p11.2), while for others it involved multiple genes (e.g., 11 and 5 genes at 12q14.1-q15 and 4q12, respectively). Despite homozygous del(9p21) and del(10q23.31) included multiple genes, association between these DNA CNA and RNA expression was restricted to the MTAP gene. CONCLUSIONS: Overall, our results showed a high frequency of amplicons and homozygous deletions in GBM with variable impact on the expression of the genes involved, and they contributed to the identification of other potentially relevant genes

Identifying future research directions for biodiversity, ecosystem services and sustainability: perspectives from early-career researchers

We aimed to identify priority research questions in the field of biodiversity, ecosystem services and sustainability (BESS), based on a workshop held during the NRG BESS Conference for Early Career Researchers on BESS, and to compare these to existing horizon scanning exercises. This work highlights the need for improved data availability through collaboration and knowledge exchange, which, in turn, can support the integrated valuation and sustainable management of ecosystems in response to global change. In addition, clear connectivity among different research themes in this field further emphasizes the need to consider a wider range of topics simultaneously to ensure the sustainable management of ecosystems for human wellbeing. In contrast to other horizon scanning exercises, our focus was more interdisciplinary and more concerned with the limits of sustainability and dynamic relationships between social and ecological systems. The identified questions could provide a framework for researchers, policy makers, funding agencies and the private sector to advance knowledge in biodiversity and ES research and to develop and implement policies to enable sustainable future development

Ultra-fast synthesis of Ti/Ru0.3Ti0.7O2 anodes with superior electrochemical properties using an ionic liquid and laser calcination

Here, we combine CO2 laser heating and an ionic liquid solvent (i.e., methylimidazolium hydrogensulfate HMIM+ HSO4–) as an innovative route to produce Ti/Ru0.3Ti0.7O2 anodes. For comparison purposes, the anodes were also prepared using conventional thermal treatment (in a furnace), and by the standard polymeric precursor method (also known as the Pechini method). For the laser heating, the anodes were heated at a power density of 0.4 W mm−2 up to 550 °C and kept at this temperature for 40 s, followed by instantaneous cooling. Using these conditions, the total time spent to produce an anode (considering cooling) is just 9.7 min. It represents a remarkable reduction in 446-fold and 359-fold when compared with the conventional heating for Pechini and IL methods, respectively. The laser-prepared anodes presented an increase of 63.4% and 53.8% in the voltammetric charge, while the charge transfer resistance decreases 9.6-fold and 17.3-fold using IL and Pechini methods, respectively, when compared with their correspondent furnace-made ones. Finally, superior electrocatalytic activity toward the removal of the model pollutant atrazine is observed for the laser-prepared anodes. The anode produced using laser and the IL method is the most efficient, removing 81% of atrazine in 60 min, and presents the highest kinetic rate (0.062 min−1) at the lowest energy consumption (0.179 kWh L–1). The excellent electrocatalytic response of the anodes innovatively synthesized in this study characterizes them as an encouraging advance in the search for efficient materials to be applied in the electrochemical oxidation of organic compoundsAquí, combinamos el calentamiento por láser de CO 2 y un disolvente líquido iónico (es decir, hidrogenosulfato de metilimidazolio HMIM + HSO 4 - ) como una ruta innovadora para producir ánodos de Ti / Ru 0,3 Ti 0,7 O 2 . Para fines de comparación, los ánodos también se prepararon utilizando un tratamiento térmico convencional (en un horno) y por el método estándar de precursor polimérico (también conocido como método Pechini). Para el calentamiento por láser, los ánodos se calentaron a una densidad de potencia de 0,4 W mm -2hasta 550 ° C y se mantiene a esta temperatura durante 40 s, seguido de enfriamiento instantáneo. Usando estas condiciones, el tiempo total empleado para producir un ánodo (considerando el enfriamiento) es de solo 9,7 min. Representa una reducción notable de 446 veces y 359 veces en comparación con el calentamiento convencional para los métodos Pechini e IL, respectivamente. Los ánodos preparados con láser presentaron un aumento de 63,4% y 53,8% en la carga voltamétrica, mientras que la resistencia de transferencia de carga disminuye 9,6 veces y 17,3 veces usando los métodos IL y Pechini, respectivamente, en comparación con sus correspondientes fabricados en horno. Finalmente, se observa una actividad electrocatalítica superior hacia la eliminación del contaminante modelo atrazina para los ánodos preparados con láser. El ánodo producido mediante láser y el método IL es el más eficiente, eliminando el 81% de la atrazina en 60 min.−1 ) con el menor consumo de energía (0,179 kWh L –1 ). La excelente respuesta electrocatalítica de los ánodos sintetizados de manera innovadora en este estudio los caracteriza como un avance alentador en la búsqueda de materiales eficientes para ser aplicados en la oxidación electroquímica de compuestos orgánicos

Comparative Anatomical Analyses of the Forearm Muscles of Cebus libidinosus (Rylands et al. 2000): Manipulatory Behavior and Tool Use

The present study describes the flexor and extensor muscles in Cebus libidinosus' forearm and compares them with those from humans, chimpanzees and baboons. The data is presented in quantitative anatomical indices for similarity. The capuchin forearm muscles showed important similarities with chimpanzees and humans, particularly those that act on thumb motion and allow certain degree of independence from other hand structures, even though their configuration does not enable a true opposable thumb. The characteristics of Cebus' forearm muscles corroborate the evolutionary convergence towards an adaptive behavior (tool use) between Cebus genus and apes

Jet energy measurement with the ATLAS detector in proton-proton collisions at root s=7 TeV

The jet energy scale and its systematic uncertainty are determined for jets measured with the ATLAS detector at the LHC in proton-proton collision data at a centre-of-mass energy of √s = 7TeV corresponding to an integrated luminosity of 38 pb-1. Jets are reconstructed with the anti-kt algorithm with distance parameters R=0. 4 or R=0. 6. Jet energy and angle corrections are determined from Monte Carlo simulations to calibrate jets with transverse momenta pT≥20 GeV and pseudorapidities {pipe}η{pipe}<4. 5. The jet energy systematic uncertainty is estimated using the single isolated hadron response measured in situ and in test-beams, exploiting the transverse momentum balance between central and forward jets in events with dijet topologies and studying systematic variations in Monte Carlo simulations. The jet energy uncertainty is less than 2. 5 % in the central calorimeter region ({pipe}η{pipe}<0. 8) for jets with 60≤pT<800 GeV, and is maximally 14 % for pT<30 GeV in the most forward region 3. 2≤{pipe}η{pipe}<4. 5. The jet energy is validated for jet transverse momenta up to 1 TeV to the level of a few percent using several in situ techniques by comparing a well-known reference such as the recoiling photon pT, the sum of the transverse momenta of tracks associated to the jet, or a system of low-pT jets recoiling against a high-pT jet. More sophisticated jet calibration schemes are presented based on calorimeter cell energy density weighting or hadronic properties of jets, aiming for an improved jet energy resolution and a reduced flavour dependence of the jet response. The systematic uncertainty of the jet energy determined from a combination of in situ techniques is consistent with the one derived from single hadron response measurements over a wide kinematic range. The nominal corrections and uncertainties are derived for isolated jets in an inclusive sample of high-pT jets. Special cases such as event topologies with close-by jets, or selections of samples with an enhanced content of jets originating from light quarks, heavy quarks or gluons are also discussed and the corresponding uncertainties are determined. © 2013 CERN for the benefit of the ATLAS collaboration

Measurement of the inclusive and dijet cross-sections of b-jets in pp collisions at sqrt(s) = 7 TeV with the ATLAS detector

The inclusive and dijet production cross-sections have been measured for jets containing b-hadrons (b-jets) in proton-proton collisions at a centre-of-mass energy of sqrt(s) = 7 TeV, using the ATLAS detector at the LHC. The measurements use data corresponding to an integrated luminosity of 34 pb^-1. The b-jets are identified using either a lifetime-based method, where secondary decay vertices of b-hadrons in jets are reconstructed using information from the tracking detectors, or a muon-based method where the presence of a muon is used to identify semileptonic decays of b-hadrons inside jets. The inclusive b-jet cross-section is measured as a function of transverse momentum in the range 20 < pT < 400 GeV and rapidity in the range |y| < 2.1. The bbbar-dijet cross-section is measured as a function of the dijet invariant mass in the range 110 < m_jj < 760 GeV, the azimuthal angle difference between the two jets and the angular variable chi in two dijet mass regions. The results are compared with next-to-leading-order QCD predictions. Good agreement is observed between the measured cross-sections and the predictions obtained using POWHEG + Pythia. MC@NLO + Herwig shows good agreement with the measured bbbar-dijet cross-section. However, it does not reproduce the measured inclusive cross-section well, particularly for central b-jets with large transverse momenta.Comment: 10 pages plus author list (21 pages total), 8 figures, 1 table, final version published in European Physical Journal

Observation of associated near-side and away-side long-range correlations in √sNN=5.02 TeV proton-lead collisions with the ATLAS detector

Two-particle correlations in relative azimuthal angle (Δϕ) and pseudorapidity (Δη) are measured in √sNN=5.02  TeV p+Pb collisions using the ATLAS detector at the LHC. The measurements are performed using approximately 1  μb-1 of data as a function of transverse momentum (pT) and the transverse energy (ΣETPb) summed over 3.1<η<4.9 in the direction of the Pb beam. The correlation function, constructed from charged particles, exhibits a long-range (2<|Δη|<5) “near-side” (Δϕ∼0) correlation that grows rapidly with increasing ΣETPb. A long-range “away-side” (Δϕ∼π) correlation, obtained by subtracting the expected contributions from recoiling dijets and other sources estimated using events with small ΣETPb, is found to match the near-side correlation in magnitude, shape (in Δη and Δϕ) and ΣETPb dependence. The resultant Δϕ correlation is approximately symmetric about π/2, and is consistent with a dominant cos⁡2Δϕ modulation for all ΣETPb ranges and particle pT