Sostoyanie sloya atlanticheskikh vod v Severnom Ledovitom okeane v 2007-2009 gg. (The state of Atlantic water layer in the Arctic Ocean in 2007-2009, in Russian)

Oceanographic studies during IPY 2007/2009 provided new information on spatial variability of hydrographic parameters. Detailed pattern of irregularities in the Atlantic Water (AW) layer was documented in the Nansen Basin. Spatial scales of temperature distribution and the depth of the upper boundary of AW were estimated. In the Canadian Basin spatial variations of temperature were less pronounced. During IPY 2007/2008 the area occupied by AW has increased. According to our estimations the positive temperature anomaly in some regions was as high as 1,5°C, which is about 70% of temperature maximum in 1950-1959. The upper boundary of AW (zero degree isotherm) rose by 40-120 m around the Mendeleyev Ridge and in the Amundsen Basin. At the same time, in the Canada Basin and in the western Fram Strait the AW thickness decreased by similar value. Heat content of the AW layer around the major part of the Arctic Ocean exceeded mean climatic value, except for the compact area north of Franz Josef Land, where small negative anomaly was observed. Throughout 2008 mean temperature and maximum temperature in the AW layer were higher than mean climatic values. At the same time, the state of AW layer in the inflow region, east of Fram Strait along the continental margin to the Laptev Sea, substantially changed in comparison with 2007. Mean and maximum temperature of AW dropped by 0,25/0,5°C. Heat content and the Thickness of AW layer have also decreased. Basing on the obtained results, we conclude that during 2008/2009 there was a neneral reverse trend in AW parameters towards mean climatic results

Ekstremaľnye izmeneniya temperatury i solenosti vody arkticheskogo poverkhnostnogo sloya v 2007-2009 gg. (The extreme changes of temperature and salinity in the Arctic Ocean surface layer in 2007-2009, in Russian)

This paper examines the temperature and salinity patterns and evolution in the surface layer of the Arctic Ocean in 2007-2009 and deals with the factors impacting the extreme changes both in temperature and salinity in 2007. The large areas of positive and negative anomalies in temperature and salinity have been formed over the Arctic Ocean with the apparant frontal barrier areea between Eurasian and American basins. The followed years (2008-2009) exhibit the reducing of thermohaline anomalies between the two basins assuming gradually rcovering to the initial state. Considering the mean salinities within 5-50 m depth one can claim that the positive linear trend is evident both in Eurasian and American basinss since 1950 to 1993 while the intensive freshening was obsserved in American basin in 2007-2009. We intend that these changes in salinity can be assumed as the signature of non-stationary nature of all Arctic marine environments

First passage and arrival time densities for L\'evy flights and the failure of the method of images

We discuss the first passage time problem in the semi-infinite interval, for homogeneous stochastic Markov processes with L{\'e}vy stable jump length distributions $\lambda(x)\sim\ell^{\alpha}/|x|^{1+\alpha}$ ($|x|\gg\ell$), namely, L{\'e}vy flights (LFs). In particular, we demonstrate that the method of images leads to a result, which violates a theorem due to Sparre Andersen, according to which an arbitrary continuous and symmetric jump length distribution produces a first passage time density (FPTD) governed by the universal long-time decay $\sim t^{-3/2}$. Conversely, we show that for LFs the direct definition known from Gaussian processes in fact defines the probability density of first arrival, which for LFs differs from the FPTD. Our findings are corroborated by numerical results.Comment: 8 pages, 3 figures, iopart.cls style, accepted to J. Phys. A (Lett

Walking pathways with positive feedback loops reveal DNA methylation

Background: the search for molecular biomarkers of early-onset colorectal cancer (CRC) is an important but still quite challenging and unsolved task. Detection of CpG methylation in human DNA obtained from blood or stool has been proposed as a promising approach to a noninvasive early diagnosis of CRC. Thousands of abnormally methylated CpG positions in CRC genomes are often located in non-coding parts of genes. Novel bioinformatic methods are thus urgently needed for multi-omics data analysis to reveal causative biomarkers with a potential driver role in early stages of cancer. Methods: we have developed a method for finding potential causal relationships between epigenetic changes (DNA methylations) in gene regulatory regions that affect transcription factor binding sites (TFBS) and gene expression changes. This method also considers the topology of the involved signal transduction pathways and searches for positive feedback loops that may cause the carcinogenic aberrations in gene expression. We call this method 'Walking pathways', since it searches for potential rewiring mechanisms in cancer pathways due to dynamic changes in the DNA methylation status of important gene regulatory regions ('epigenomic walking'). Results: in this paper, we analysed an extensive collection of full genome gene-expression data (RNA-seq) and DNA methylation data of genomic CpG islands (using Illumina methylation arrays) generated from a sample of tumor and normal gut epithelial tissues of 300 patients with colorectal cancer (at different stages of the disease) (data generated in the EU-supported SysCol project). Identification of potential epigenetic biomarkers of DNA methylation was performed using the fully automatic multi-omics analysis web service 'My Genome Enhancer' (MGE) (my-genome-enhancer.com). MGE uses the database on gene regulation TRANSFAC®, the signal transduction pathways database TRANSPATH®, and software that employs AI (artificial intelligence) methods for the analysis of cancer-specific enhancers. Conclusions: the identified biomarkers underwent experimental testing on an independent set of blood samples from patients with colorectal cancer. As a result, using advanced methods of statistics and machine learning, a minimum set of 6 biomarkers was selected, which together achieve the best cancer detection potential. The markers include hypermethylated positions in regulatory regions of the following genes: CALCA, ENO1, MYC, PDX1, TCF7, ZNF43

Phenology of the avian spring migratory passage in Europe and North America : Asymmetric advancement in time and increase in duration

Climate change has been shown to shift the seasonal timing (i.e. phenology) and distribution of species. The phenological effects of climate change on living organisms have often been tested using first occurrence dates, which may be uninformative and biased. More rarely investigated is how different phases of a phenological sequence (e.g. beginning, central tendency and end) or its duration have changed over time. This type of analysis requires continuous observation throughout the phenological event over multiple years, and such data sets are rare. In this study we examined the impact of temperature on long-term change of passage timing and duration of the spring migration period in birds, and which species' traits explain species-specific variation. Data used covered 195 species from 21 European and Canadian bird observatories from which systematic daily sampling protocols were available. Migration dates were negatively associated with early spring temperature and timings had in general advanced in 57 years. Short-distance migrants advanced the beginning of their migration more than long-distance migrants when corrected for phylogenic relatedness, but such a difference was not found in other phases of migration. The advancement of migration has generally been greater for the beginning and median phases of migration relative to the end, leading to extended spring migration seasons. Duration of the migration season increased with increasing temperature. Phenological changes have also been less noticeable in Canada even when corrected for rate of change in temperature. To visualize long-term changes in phenology, we constructed the first multi-species spring migration phenology indicator to describe general changes in median migration dates in the northern hemisphere. The indicator showed an average advancement of one week during five decades across the continents (period 1959-2015). The indicator is easy to update with new data and we therefore encourage future research to investigate whether the trend towards longer periods of occurrence or emergence in spring is also evident in other migratory populations. Such phenological changes may influence detectability in monitoring schemes, and may have broader implications on population and community dynamics.Peer reviewe

Toward a warmer Arctic Ocean: Spreading of the early 21st century Atlantic Water warm anomaly along the Eurasian Basin margins

We document through the analysis of 2002–2005 observational data the recent Atlantic Water (AW) warming along the Siberian continental margin due to several AW warm impulses that penetrated into the Arctic Ocean through Fram Strait in 1999–2000. The AW temperature record from our long-term monitoring site in the northern Laptev Sea shows several events of rapid AW temperature increase totaling 0.8°C in February–August 2004. We hypothesize the along-margin spreading of this warmer anomaly has disrupted the downstream thermal equilibrium of the late 1990s to earlier 2000s. The anomaly mean velocity of 2.4–2.5 ± 0.2 cm/s was obtained on the basis of travel time required between the northern Laptev Sea and two anomaly fronts delineated over the Eurasian flank of the Lomonosov Ridge by comparing the 2005 snapshot along-margin data with the AW pre-1990 mean. The magnitude of delineated anomalies exceeds the level of pre-1990 mean along-margin cooling and rises above the level of noise attributed to shifting of the AW jet across the basin margins. The anomaly mean velocity estimation is confirmed by comparing mooring-derived AW temperature time series from 2002 to 2005 with the downstream along-margin AW temperature distribution from 2005. Our mooring current meter data corroborate these estimations

Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation.

Cancer progression involves the gradual loss of a differentiated phenotype and acquisition of progenitor and stem-cell-like features. Here, we provide novel stemness indices for assessing the degree of oncogenic dedifferentiation. We used an innovative one-class logistic regression (OCLR) machine-learning algorithm to extract transcriptomic and epigenetic feature sets derived from non-transformed pluripotent stem cells and their differentiated progeny. Using OCLR, we were able to identify previously undiscovered biological mechanisms associated with the dedifferentiated oncogenic state. Analyses of the tumor microenvironment revealed unanticipated correlation of cancer stemness with immune checkpoint expression and infiltrating immune cells. We found that the dedifferentiated oncogenic phenotype was generally most prominent in metastatic tumors. Application of our stemness indices to single-cell data revealed patterns of intra-tumor molecular heterogeneity. Finally, the indices allowed for the identification of novel targets and possible targeted therapies aimed at tumor differentiation

Reducing the environmental impact of surgery on a global scale: systematic review and co-prioritization with healthcare workers in 132 countries

Abstract Background Healthcare cannot achieve net-zero carbon without addressing operating theatres. The aim of this study was to prioritize feasible interventions to reduce the environmental impact of operating theatres. Methods This study adopted a four-phase Delphi consensus co-prioritization methodology. In phase 1, a systematic review of published interventions and global consultation of perioperative healthcare professionals were used to longlist interventions. In phase 2, iterative thematic analysis consolidated comparable interventions into a shortlist. In phase 3, the shortlist was co-prioritized based on patient and clinician views on acceptability, feasibility, and safety. In phase 4, ranked lists of interventions were presented by their relevance to high-income countries and low–middle-income countries. Results In phase 1, 43 interventions were identified, which had low uptake in practice according to 3042 professionals globally. In phase 2, a shortlist of 15 intervention domains was generated. In phase 3, interventions were deemed acceptable for more than 90 per cent of patients except for reducing general anaesthesia (84 per cent) and re-sterilization of ‘single-use’ consumables (86 per cent). In phase 4, the top three shortlisted interventions for high-income countries were: introducing recycling; reducing use of anaesthetic gases; and appropriate clinical waste processing. In phase 4, the top three shortlisted interventions for low–middle-income countries were: introducing reusable surgical devices; reducing use of consumables; and reducing the use of general anaesthesia. Conclusion This is a step toward environmentally sustainable operating environments with actionable interventions applicable to both high– and low–middle–income countries