Home About us Contact
|
Home About us Contact | ||
|
|
||
Occurrence Frequencies (occurrence + frequency)
Selected AbstractsIdentification of protein-coding genes in the genome of Vibrio cholerae with more than 98% accuracy using occurrence frequencies of single nucleotidesFEBS JOURNAL, Issue 15 2001Ju Wang The published sequence of the Vibrio cholerae genome indicates that, in addition to the genes that encode proteins of known and unknown function, there are 1577 ORFs identified as conserved hypothetical or hypothetical gene candidates. Because the annotation is not 100% accurate, it is not known which of the 1577 ORFs are true protein-coding genes. In this paper, an algorithm based on the Z curve method, with sensitivity, specificity and accuracy greater than 98%, is used to solve this problem. Twenty-fold cross-validation tests show that the accuracy of the algorithm is 98.8%. A detailed discussion of the mechanism of the algorithm is also presented. It was found that 172 of the 1577 ORFs are unlikely to be protein-coding genes. The number of protein-coding genes in the V. cholerae genome was re-estimated and found to be ,,3716. This result should be of use in microarray analysis of gene expression in the genome, because the cost of preparing chips may be somewhat decreased. A computer program was written to calculate a coding score called VCZ for gene identification in the genome. Coding/noncoding is simply determined by VCZ > 0/VCZ < 0. The program is freely available on request for academic use. [source] Reconstruction of winter climate variations during the 19th century in JapanINTERNATIONAL JOURNAL OF CLIMATOLOGY, Issue 11 2008Junpei Hirano Abstract An attempt was made to reconstruct winter climate conditions in Japan for the period 1810/1811 to 1858/1859 on the basis of daily weather records documented in old diaries. Daily weather maps for each winter were drawn using 19th century weather records collected by our research group. Maps were divided into five types by classifying daily snowfall and rainfall distributions and the occurrence frequencies of each weather pattern for the period 1810/1811 to 1858/1859 were analysed. It was found that the occurrence frequencies of winter monsoon weather patterns were high from the late 1820s to the early 1840s. This period almost coincided with a summer cold period in the 19th century. The result implies that strengthening of a cold air mass around Japan occurred in the late 1820s, not only in summer but also in winter. The frequencies of the typical winter monsoon patterns correspond with the freezing dates of Lake Suwa, which have been used as an indicator of winter coldness in previous studies. On the basis of the frequencies of the winter monsoon weather patterns, mean January temperatures for western Japan were estimated. In the time series of estimated temperatures, a cooling period from the late 1820s to the early 1830s was revealed. Copyright © 2007 Royal Meteorological Society [source] Disaggregating climatic trends by classification of circulation patternsINTERNATIONAL JOURNAL OF CLIMATOLOGY, Issue 2 2001Radan Huth Abstract The trends in occurrence frequencies of circulation types over Europe and in nine climate variables in the Czech Republic conditioned by the types are examined for period 1949,1980. The circulation types are determined by an objective procedure from daily 500 hPa heights. Both in summer and winter, anticyclonic types have become more frequent at the expense of cyclonic types. The circulation changes are shown to be unrelated to the trends in surface climate elements in summer, whereas in winter, trends in circulation explain a part of the observed warming and strengthening of southerly winds. The trends in climate elements are not uniform among circulation types. In summer, the trend pattern consisting of decreasing maximum and daily mean temperatures, daily temperature range (DTR) and sunshine duration, and increasing cloudiness and relative humidity is observed under the cyclonic types and the types with a well-pronounced jet, but is missing under types with a blocking anticyclone over Europe. Two possible mechanisms causing this trend pattern are proposed: increasing cloudiness, and a process responsible for the reduction of sunshine without a concurrent increase of cloudiness. The latter mechanism can possibly be identified with increasing aerosol concentrations. In winter, the degree of warming is governed by changes in zonal wind. The mechanism of change in DTR seems to vary with elevation: at the lowland station (Prague-Klementinum), the increase in DTR is related to the warming trend, and consequently with zonal wind changes, while at the mountain station (Mile,ovka), the increase in DTR reflects the increase in precipitating clouds. The changes in DTR are related much more to mid-tropospheric circulation than to cloud cover in summer, whereas in winter, cloud cover plays a more important role in affecting DTR trends. Copyright © 2001 Royal Meteorological Society [source] Dialogue act recognition using maximum entropyJOURNAL OF THE AMERICAN SOCIETY FOR INFORMATION SCIENCE AND TECHNOLOGY, Issue 6 2008Kwok Cheung Lan A dialogue-based interface for information systems is considered a potentially very useful approach to information access. A key step in computer processing of natural-language dialogues is dialogue-act (DA) recognition. In this paper, we apply a feature-based classification approach for DA recognition, by using the maximum entropy (ME) method to build a classifier for labeling utterances with DA tags. The ME method has the advantage that a large number of heterogeneous features can be flexibly combined in one classifier, which can facilitate feature selection. A unique characteristic of our approach is that it does not need to model the prior probability of DAs directly, and thus avoids the use of a discourse grammar. This simplifies the implementation of the classifier and improves the efficiency of DA recognition, without sacrificing the classification accuracy. We evaluate the classifier using a large data set based on the Switchboard corpus. Encouraging performance is observed; the highest classification accuracy achieved is 75.03%. We also propose a heuristic to address the problem of sparseness of the data set. This problem has resulted in poor classification accuracies of some DA types that have very low occurrence frequencies in the data set. Preliminary evaluation shows that the method is effective in improving the macroaverage classification accuracy of the ME classifier. [source] Day-Night Vertical Distribution and Feeding Patterns of Fourth Instar ofChaoborus Larvae in a Neotropical Reservoir (Socuy Reservoir, Venezuela)INTERNATIONAL REVIEW OF HYDROBIOLOGY, Issue 2 2005Carlos López Abstract The day-night vertical distribution, diel feeding activity and diet of fourth instar of Chaoborus larvae were analyzed in lacustrine zone of a neotropical reservoir which shows seasonally contrasting hypolimnetic oxygen conditions. Larvae stayed in sediment and water bottom during day and ascended to surface during night. Results indicate that feeding activity is limited mainly to the plankton population. Phytoplankton, rotifers or remains of Chaoborus larvae were not found in crops. With the exception of ostracods, all crustacean prey available in the zooplankton occurred in the guts. Ceriodaphnia cornuta and Moina micrura were the most frequent food items (about 75% of occurrence frequency) and were positively selected. The remainder crustacean zooplankton taxa were negatively selected by larvae. The most intense feeding activity in larvae occurred near midnight and sunrise, in dates when the hypolimnion was anoxic. When oxygen was available on the bottom, a higher and not changing diel feeding activity was detected. Our results indicate that vertical migration may promote a spatial separation between larvae and zooplankton, and feeding activity of larvae occurred only when both overlapped. (© 2005 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim) [source] Mass Production of Intergeneric Chromosomal Translocations through Pollen Irradiation of Triticum durum-Haynaldia villosa AmphiploidJOURNAL OF INTEGRATIVE PLANT BIOLOGY, Issue 11 2007Tong-De Bie Abstract Haynaldia villosa possesses a lot of important agronomic traits and has been a powerful gene resource for wheat improvement. However, only several wheat,H. villosa translocation lines have been reported so far. In this study, we attempted to develop an efficient method for inducing wheat,H. villosa chromosomal translocations. Triticum durum-Haynaldia villosa amphiploid pollen treated with 1 200 rad 60Co-,-rays was pollinated to Triticum aestivum cv. ,Chinese Spring'. Ninety-eight intergeneric translocated chromosomes between T. durum and H. villosa were detected by genomic in situ hybridization in 44 of 61 M1 plants, indicating a translocation occurrence frequency of 72.1%; much higher than ever reported. There were 26, 62 and 10 translocated chromosomes involving whole arm translocations, terminal translocations, and intercarlary translocations, respectively. Of the total 108 breakage-fusion events, 79 involved interstitial regions and 29 involved centric regions. The ratio of small segment terminal translocations (W·W-V) was much higher than that of large segment terminal translocations (W-V·V). All of the M1 plants were self-sterile, and their backcross progeny was all obtained with ,Chinese Spring' as pollen donors. Transmission analysis showed that most of the translocations were transmittable. This study provides a new strategy for rapid mass production of wheat-alien chromosomal translocations, especially terminal translocations that will be more significant for wheat improvement. [source] | ||||||||||