A maximum entropy distribution for wave heights of non-linear sea waves

Based on the maximum entropy principle,a probability density function (PDF) for the zero-crossing wave height (H) of random waves is derived as the simple form fn(H)=αHγe-βHn (n is a selectable positive integer) through solving a variational problem subject to some quite general constraints. This PDF maximizes the information entropy of H, and its parameters α, γ and β are expressed explicitly in terms of the distribution moments m, m=1,2,…,n, so it is well competent for describing the distribution of H of nonlinear sea waves with large uncertainty, and its parameters can be simply determined from available data. Comparisons between the PDF with n=3 and n=4 and the observed distributions of H from wave records measured in the East China Sea and in a wind-wave tunnel show fairly satisfying agreements.     

Climate change threats to protected plants of China: an evaluation based on species distribution modeling

Climate change poses major new challenges to biodiversity conservation. Distribution ranges of species have been proven to be affected by climate anomalies. Detecting the extent of protected species response to climate change can help formulate flexible conservation strategies to overcome the changing climate. Using species distribution modeling and high resolution climate data, we simulated current distribution patterns of 233 protected plants in China. Those patterns were then projected into future suitable habitats for each species under nine climate change scenarios, with no migration or full migration hypotheses. Under the most extreme climate change scenario （CGCM-B2a）, we evaluated species extinction risks. Sixteen percent of protected plants are expected to lose more than 30 % of their current ranges. By calculating areal shifts, hotspots for emigrants, immigrants, and persistent species were identified under climate change. Flexible conservation strategies were addressed for those regions. Those strategies strongly depend on the migration types of species and sensitivity of the hotspots to changing climate. In hotspots for emigrants, the main conservation strategy is ex situ protection; protected species from these regions should be stored in seed banks or botanical gardens. For hotspots of immigrants, enough space should be maintained for new species, and some measures are necessary to assist dispersal. For hotspots of persistent species, more natural reserves are needed. We highlight related fields that can help conserve protected species in the future, such as conserving the soil seed bank and understanding of the effects of migration ability and interactions between protected species.     

Analysis of length distribution of short DNA fragments induced by ^7Li ions using the random-breakage model

Deoxyribonucleic acid (DNA) is an important bio-macromolecule. DNA double strand breaks (DSBs) are considered to be the most important initial damage responsible for all biological effects induced by ionizing radiation. In this paper the length distribution of DNA fragments induced by ^7Li ionizing radiation is fitted with the random breakage model. In this model, the parameter u is the average number of DSBs on every DNA molecule induced by ionizing radiation. The fitting result shows that the random breakage model cannot describe the distribution of DNA fragments in lower doses, while the random breakage model is in better accordance with the experimental data in higher doses. It is shown that the length distribution of DNA fragments has random statistical feature in higher doses. In this situation, the random breakage model looks like a model without any parameter since the u has specific physical meaning and can directly be obtained from experimental data.     

Theory of multivariate compound extreme value distribution and its application to extreme sea state prediction

In this paper, a new type of distribution, multivariate compound extreme value distribution (MCEVD), is introduced by compounding a discrete distribution with a multivariate continuous distribution of extreme sea events. In its engineering application the number over certain threshold level per year is fitting to Poisson distribution and the corresponding extreme sea events are fitting to Nested Logistic distribution, then the Poisson-Nested logistic trivariate compound extreme value distribution (PNLTCED) is proposed to predict extreme wave heights, periods and wind speeds in Yellow Sea. The new model gives more stable and reasonable predicted results.     

NetEPD: A Network-Based Essential Protein Discovery Platform

Proteins drive virtually all cellular-level processes.The proteins that are critical to cell proliferation and survival are defined as essential.These essential proteins are implicated in key metabolic and regulatory networks,and are important in the context of rational drug design efforts.The computational identification of the essential proteins benefits from the proliferation of publicly available protein interaction datasets.Scientists have developed several algorithms that use these interaction datasets to predict essential proteins.However, a comprehensive web platform that facilitates the analysis and prediction of essential proteins is missing.In this study, we design,implement, and release Net EPD: a network-based essential protein discovery platform.This resource integrates data on Protein–Protein Interaction(PPI) networks, gene expression, subcellular localization, and a native set of essential proteins.It also computes a variety of node centrality measures, evaluates the predictions of essential proteins, and visualizes PPI networks.This comprehensive platform functions by implementing four activities, which include the collection of datasets, computation of centrality measures, evaluation, and visualization.The results produced by Net EPD are visualized on its website, and sent to a user-provided email, and they are available to download in a parsable format.This platform is freely available at http://bioinformatics.csu.edu.cn/netepd.     

Obtaining the best possible predictions of habitat selection for wintering Great Bustards in Cangzhou,Hebei Province with rapid machine learning analysis

Great Bustards （Otis tarda dybowskii） are one of the world＇s heaviest flying birds, occupying grassland hab- itats in Eastern Asia. Our study is located at the most eastern Chinese wintering site in Cangzhou, Hebei Province, where approximately 100 individuals are concentrated in a small area （17.53 km2）. Solid information is still lacking about the wintering areas for this subspecies in its eastern range and specifically for China. The study area consists of intensely used farmland in proximity to humans and is lacking con- servation areas and wild, open fields. Here, we present our results from two years of field data collection on habitat selection. We choose a machine learning model approach based on a rapid assessment methodology for the winter habitat of the Great Bustard. It is based on a spatial analysis of the best available environmental data, which were col- lected relatively quickly. These relatively new methods in ecology are based on an ensemble of decision trees and include algorithms such as TreeNet, Random Forest and CART used in parallel. In this study, we collected bustard droppings （presence only） from 48 locations between December 2011 and January 2012 and used the sites as training data. Droppings from 23 locations were collected in November 2012, and those sites were used as test data. We used eight environmental variables as predictor layers for the response variable of bustard presence/availability. We employed a Geographic Information System （ArcGIS 10.1and Geospatial Modelling Environment） and Google Earth. Compared with the other three models, we found that pre- dictions from Random Forest obtained a significant differ- ence between presence and absence. According to this model, the three most important factors for wintering Great Bustards are distance to residential area, distance to water pools, and farmland area. Our model shows that wintering Great Bustards prefer locations that are over 400 m away from residential areas, within 900 m of water pools and on areas o     

Freshwater fishes distribution in Taiwan and continent of China and its biogeographical significance

Through the comparative analysis of primary freshwater fishes in Chinese continent and the Taiwan Island, we summarize the three distinctions of distribution of freshwater fishes in these areas: (i) there exists a high similarity of freshwater fish fauna between Taiwan and the southeastern shore of the continent; (ii) some species of freshwater fish are found both in the Taiwan Island and East Himalayans; (iii) different freshwater fishes have different distributions in island arch of western Pacific where Taiwan is located, but the distribution pattern shows a similarity to that of adjacent continent. The characteristic distributions of the fishes are closely related to the change in paleogeography and geology in the area. The parsimony analysis of endemicity (PAE analysis) indicates that the three distribution patterns can be explained by the vicariance theory.     

A measurement error model for microarray data analysis

Microarray technology has been widely used to analyze the gene expression levels by detecting fluorescence intensity in a high throughput fashion. However, since the measurement error produced from various sources in microarray experiments is heterogeneous and too large to be ignored, we propose here a measurement error model for microarray data processing, by which the standard deviation of the measurement error is demonstrated to be linearly increased with fluorescence intensity. A robust algorithm, which estimates the parameters of the measurement error model from a single microarray without replicated spots, is provided. The model and algorithm for estimating of the parameters from a given data set are tested on both the real data set and the simulated data set, and the result has been proven satisfactory. And, combining the measurement error model with traditional Z-test method, a full statistical model has been developed. It can significantly improve the statistical inference for identifying differentially expressed genes.     

Contact and hybrid zone hotspots and evolution of birds in the Middle East

The Middle East is an important contact zone for a considerable number of bird taxa from the western and eastern Palearctic and from the great Saharo-Sindian desert belt.Using WORLDMAP software,we analyzed the geographical distribution of secondary contact zones for parapatric species pairs of birds in the Middle East.We identified 56 species(29 species pairs)that make contact in the Middle East.The species pairs belong to three orders,i.e.Falconiformes,Piciformes,and Passeriformes.Almost half(46%)of these species pairs hybridize in their contact zones.Although contact zones occur over a large part of northern Middle East,spatially they were not evenly distributed.Contact zone richness was highest in the mountain ranges south of the Caspian Sea and the Caucasus.The hottest hotspots,where up to nine bird species pairs occur sympatrically,are situated in north-eastern Iran and Azerbaijan.We discuss the relevance of these hotspots for improving our understanding of the biogeography and evolution of the avifauna in the Middle East.     

Coesite in eclogite from the North Qaidam Mountains and its implications

Coesite provides direct evidence for ultrahigh pressure metamorphism. Although coesite has been found as inclusions in zircon in paragneiss of the north Qaidam Mountains, it has never been identified in eclogite. In this contribution, based on petrographic observations and in situ Raman microprobe spectroscopy, coesite was identified as inclusions in garnet of eclogite from the Aercituoshan, Dulan UHP metamorphic unit, north Qaidam Mountains. Coesite is partly replaced by quartz, showing a pali-sade texture. This is the first report on coesite in eclogite from the north Qaidam Mountains, and is also supported by garnet-omphacite-phengite geothermobarometry (2.7―3.25 GPa, 670―730℃). Coesite and its pseudomorphs have not been found in eclogites and associated rocks of other units of the north Qaidam Mountains. Further studies are required to confirm if all metamorphic units in the north Qaidam Mountains underwent the ultrahigh-pressure metamorphism.     

Ages and tectonic significance of the collision-related granite porphyries in the Lhunzhub Basin, Tibet, China

The Paleocene collision-related granite porphyries are identified for the first time along the western margin of the Lhunzhub Basin, Tibet. SHRIMP U-Pb zircon analysis indicates that the granite porphyries were emplaced at 58.7±1.1 Ma (MSWD = 0.79) during the Indo-Asian continental collision. The granite porphyries are peraluminous and high in K, belonging to the calc-alkaline to high-K calc-alkaline series. They are relatively enriched in LILE, Th and LREE and depletion in Ba, Nb, P and Ti, characterized by LREE-enriched patterns with slightly to moderately negative Eu anomalies. These Paleocene granite porphyries are interpreted as the products generated by partial melting of the pre-existing arc crustal rocks caused by the increase of pressures and temperatures during the crustal shortening at the early stages of the Indo-Asian continental collision since 65 Ma. Despite inherited geochemical features and tectonic settings of the arc protoliths, they are significantly different from the volcanic rocks of the Dianzhong Formation within the Linzizong Group and the Miocene granite por- phyries in the Gangdise belt.     

Initial movement of the Karakorum Fault in western Tibet： constraints from SHRIMP U-Pb dating of zircons

The Karakorum Fault zone(KFZ)plays an important role in understanding the formation,evolvement and deformation of the Tibetan Plateau.The high-T dextral shearing metamorphic rocks,e.g.,mylonites or mylonitized gneisses-granites,locally crop out along the southeastern part of the KFZ in the Ayila Ri’gyüRange area.The SHRIMP U-Pb dating of the syn-kinematic crystallized zircons indicates that the initial age of the KFZ is~27 Ma,~10 Ma older than previous results.The extensive high-T dextral shearing along the KFZ started at least at 27-20 Ma,accompanied by the syn-kinematic emplacement of leuco-granites.Deformation and concomitant fluid circulation during shearing most likely occurred as early as at 25-13 Ma.The KFZ probably grew from southeast to northwest along the fault as a result of continuous convergence between the India plate and Eurasia plate.     

～4.1 Ga xenocrystal zircon from Ordovician volcanic rocks in western part of North Qinlin80rosenic Belt

High-precision U-Pb dating by in situ LA-ICP-MS yields an age of 4079±5 Ma for a xenocrystal zircon from Ordovician volcanics of the Caotangou Group in western part of the North Qinling Orogenic Belt. As a result, the North Qinling Orogenic Belt becomes one of a few localities in the world that contain Hadean age records （4276±6 Ma and 4404±8 Ma detrital zircons from Jack Hill of the Yilgarn craton, 4016 Ma Acasta gneisses of the Wopmay Orogeny and Burang quartzite with detrital zircon of 4103 Ma in Tibet）. It is also the first report of the Hadean age in Phanerozoic volcanics. The finding of the 4.1 Ga xenocrystal zircon provides not only the geochronological record of the oldest crustal materials in China, but also the condition for further search for rocks forming in the region during the early time of the Earth＇s evolution. Thirty-six zircon U-Pb dates from the Ordovician volcanic rocks are subgrouped into seven generations that represent different tectono-magmatic events in the North Qinling Orogenic Belt. Among them, two periods of 0.9--1.5 Ga and 0.4--0.5 Ga are consistent with Mesoproterozoic and Early Paleozoic orogenies, respectively.     

New material of microfossils from the Ediacaran Doushantuo Formation in the Zhangcunping area, Yichang, Hubei Province and its zircon SHRIMP U-Pb age

The Zhangcunping area is located at the north limb of the Huangling anticline in Yichang, Hubei Province. Here, the sedimentary succession of the Ediacaran Doushantuo Formation is similar with that in the Weng’an area, Guizhou Province. A large number of new microfossils (mainly acanthoacritarchs) from the Doushantuo Formation in this area are reported in this paper. The fossil assemblage shows similarity as the phosphatized biota of the Doushantuo Formation at Weng’an, Guizhou Province and the silicified biota of the Doushantuo Formation at the Yangtze Gorges, which suggests that the Zhangcunping area is a key for correlation of the Doushantuo Formation between the Weng’an area, Guizhou Province and the Yangtze Gorges. Besides, a new zircon SHRIMP U-Pb age (614.0±7.6 Ma) is first obtained from a horizon underneath the exposed surface in the middle of the Doushantuo Formation in the Zhangcunping area. This age not only provides a new datum for subdivision of the Ediacaran Doushantuo Formation, but also indicates that the age of the exposed surface in the middle of the Doushantuo Formation in the Yangtze Platform should be posterior to 614.0±7.6 Ma. Due to the horizon of the Weng’an biota situated above the exposed surface, the age of the Weng’an biota should be posterior to 614.0±7.6 Ma as well. Supported jointly by the Basic Foundation of scientific research work from Ministry of Science and Technology of the People’s Republic of China (Grant No. J0716), Science and Technology of China for fundamental work (Grant No. 2006FY120300-2), National Natural Science Foundation of China (Grant Nos. 40772013 and 40672022) and China Geological Survey (1212010611801-3)     

A universal coherent source for quantum key distribution

We propose a concept of universal coherent source for quantum key distribution. The weak coherent pulse （WCP） and heralded single photon source （HSPS） are the most common photon sources for state-of-art quantum key distribution （QKD）. However, there exists a prominent crossover between the maximal secure distance and the secure key generating rate in short and middle distance if one applies these two sources in a practical decoy state quantum key distribution. It is shown that by combining the heralded pair coherent state （HPCS） photon source and the practical decoy state method together, one can not only strengthen the maximal secure transmission distance, but also improve key generat- ing rate at short and medium distance. Moreover, the advancement in key generating is not confined in the particular protocol utilized and can be easily checked for both BB84 and SARG protocol. Finally, we clearly demonstrate how the HPCS-based decoy method works effectively and feasibly by proposing an efficient HPCS-based ＂1 signal＋2 decoy＂ state method,     

Petrogenesis of keratophyes in the Pingshui Group, Zhejiang: Constraints from zircon U-Pb ages and Hf isotopes

Zircon LA-ICP-MS U-Pb ages and Hf isotopic as well as whole-rock geochemical data are reported for keratophyes in the Pingshui Group, Zhejiang. The results are used to discuss their petrogenesis and geological significance. The keratophyes were dated at 904±8 to 906±10 Ma. These intermediate-felsic rocks are characterized by high LREE contents and depletion of HREE and HFSE (e.g., Nb, Ta, Ti, P), resembling arc-derived rocks. The keratophyes exhibit positive εHf(t) values of 8.6 to 15.4, consistent with the...     

Introduced species and their missing parasites

Damage caused by introduced species results from the high population densities and large body sizes that they attain in their new location. Escape from the effects of natural enemies is a frequent explanation given for the success of introduced species. Because some parasites can reduce host density and decrease body size, an invader that leaves parasites behind and encounters few new parasites can experience a demographic release and become a pest. To test whether introduced species are less parasitized, we have compared the parasites of exotic species in their native and introduced ranges, using 26 host species of molluscs, crustaceans, fishes, birds, mammals, amphibians and reptiles. Here we report that the number of parasite species found in native populations is twice that found in exotic populations. In addition, introduced populations are less heavily parasitized (in terms of percentage infected) than are native populations. Reduced parasitization of introduced species has several causes, including reduced probability of the introduction of parasites with exotic species (or early extinction after host establishment), absence of other required hosts in the new location, and the host-specific limitations of native parasites adapting to new hosts.     

A four-state memory cell based on magnetoelectric composite

A four-state memory can store four states in each memory cell. We designed a four-state memory cell using Co/PZT magnetoelectric composite and observed a broad magnetoelectric hysteretic output loop on applying magnetic field. Based on magnetoelectric hysteresis, we developed a read method by applying a bias magnetic field on the memory cell. Results gave clearly four-state signals of 15.8, -4.4, 5.5 and -11.3μV, which demonstrated the feasibility of our design.     

Influence of O2/Ar ratio on the properties of transparent conductive niobium-doped ZnO films

Niobium-doped ZnO transparent conductive films are deposited on glass substrates by radio frequency sputtering at 300℃. The influence of O2/Ar ratio on the structural, electrical and optical properties of the as-deposited films is investigated by X-ray diffraction, Hall measurement and optical transmission spectroscopy. The lowest resistivity of 4.0×10^-4Ω· cm is obtained from the film deposited at the O2/Ar ratio of 1/12. The average optical transmittance of the films is over 90%.