Indexing Isodirectional Pointer Sequences

Many sequential and temporal data have dependency relationships among their elements, which can be represented as a sequence of pointers. In this paper, we introduce a new string matching problem with a particular type of strings, which we call isodirectional pointer sequence, in which each entry has a pointer to another entry. The proposed problem is not only a formalization of real-world dependency matching problems, but also a generalization of variants of the string matching problem such as parameterized pattern matching and Cartesian tree matching. We present a 2nlg?+2n+o(n)-bit index that preprocesses the text T[1:n] so as to count the number of occurrences of pattern P[1:m] in ?(mlg?) where ? is the number of distinct lengths of pointers in T. Our index is also easily implementable in practice because it consists of wavelet trees and range maximum query index, which are widely used building blocks in many other compact data structures. By compressing the wavelet trees, the index can also be stored into 2nH^*?(T)+2n+o(n) bits where H^*?(T) is the 0-th order empirical entropy of the distribution of pointer lengths of T

Evolutionary branching in a stochastic population model with discrete mutational steps

Evolutionary branching is analysed in a stochastic, individual-based population model under mutation and selection. In such models, the common assumption is that individual reproduction and life career are characterised by values of a trait, and also by population sizes, and that mutations lead to small changes in trait value. Then, traditionally, the evolutionary dynamics is studied in the limit of vanishing mutational step sizes. In the present approach, small but non-negligible mutational steps are considered. By means of theoretical analysis in the limit of infinitely large populations, as well as computer simulations, we demonstrate how discrete mutational steps affect the patterns of evolutionary branching. We also argue that the average time to the first branching depends in a sensitive way on both mutational step size and population size.Comment: 12 pages, 8 figures. Revised versio

Age- and Tumor Subtype-Specific Breast Cancer Risk Estimates for CHEK2*1100delC Carriers.

PURPOSE: CHEK2*1100delC is a well-established breast cancer risk variant that is most prevalent in European populations; however, there are limited data on risk of breast cancer by age and tumor subtype, which limits its usefulness in breast cancer risk prediction. We aimed to generate tumor subtype- and age-specific risk estimates by using data from the Breast Cancer Association Consortium, including 44,777 patients with breast cancer and 42,997 controls from 33 studies genotyped for CHEK2*1100delC. PATIENTS AND METHODS: CHEK2*1100delC genotyping was mostly done by a custom Taqman assay. Breast cancer odds ratios (ORs) for CHEK2*1100delC carriers versus noncarriers were estimated by using logistic regression and adjusted for study (categorical) and age. Main analyses included patients with invasive breast cancer from population- and hospital-based studies. RESULTS: Proportions of heterozygous CHEK2*1100delC carriers in controls, in patients with breast cancer from population- and hospital-based studies, and in patients with breast cancer from familial- and clinical genetics center-based studies were 0.5%, 1.3%, and 3.0%, respectively. The estimated OR for invasive breast cancer was 2.26 (95%CI, 1.90 to 2.69; P = 2.3 × 10(-20)). The OR was higher for estrogen receptor (ER)-positive disease (2.55 [95%CI, 2.10 to 3.10; P = 4.9 × 10(-21)]) than it was for ER-negative disease (1.32 [95%CI, 0.93 to 1.88; P = .12]; P interaction = 9.9 × 10(-4)). The OR significantly declined with attained age for breast cancer overall (P = .001) and for ER-positive tumors (P = .001). Estimated cumulative risks for development of ER-positive and ER-negative tumors by age 80 in CHEK2*1100delC carriers were 20% and 3%, respectively, compared with 9% and 2%, respectively, in the general population of the United Kingdom. CONCLUSION: These CHEK2*1100delC breast cancer risk estimates provide a basis for incorporating CHEK2*1100delC into breast cancer risk prediction models and into guidelines for intensified screening and follow-up.NIH

Heterogeneity of luminal breast cancer characterised by immunohistochemical expression of basal markers

Background: Luminal A breast cancer defined as hormone receptor positive and human epidermal growth factor receptor 2 (HER2) negative is known to be heterogeneous. Previous study showed that luminal A tumours with the expression of basal markers ((cytokeratin (CK) 5 or CK5/6) or epidermal growth factor receptor (EGFR)) were associated with poorer prognosis compared with those that stained negative for basal markers. Prompted by this study, we assessed whether tumour characteristics and risk factors differed by basal marker status within luminal A tumours. Methods: We pooled 5040 luminal A cases defined by immunohistochemistry (4490 basal-negative ((CK5 (or CK5/6))− and EGFR−) and 550 basal-positive ((CK5 (or CK5/6+)) or EGFR+)) from eight studies participating in the Breast Cancer Association Consortium. Case–case comparison was performed using unconditional logistic regression. Results: Tumour characteristics and risk factors did not vary significantly by the expression of basal markers, although results suggested that basal-positive luminal tumours tended to be smaller and node negative, and were more common in women with a positive family history and lower body mass index. Conclusions: Most established breast cancer risk factors were similar in basal-positive and basal-negative luminal A tumours. The non-significant but suggestive differences in tumour features and family history warrant further investigations

The Park Is Open: An Ecofeminist Critique of Universal\u27s Jurassic World

This paper explores an interpretation of Universal Pictures,’ Jurassic World (2015), to identify naturalized representations of human relationships and human relationships to the environment. Using the concepts of scholar, Noel Sturgeon, the ideological significance of these representations comes down to what she defines as “Politics of The Natural”. Through this avenue, this analysis examines Jurassic World as a text and reflection of normalized environmental worldviews, attitudes and values; as well as how these determine where humans place in this “naturalized” hierarchy. This essay will discuss environmental themes in the film, first, through Jurassic World as a symbol for the western concept of the “frontier”, second, the dynamics of white, patriarchal relationships with main character Owen Grady, and lastly will examine the militaristic themes presented in the weaponizing of the Velociraptors

The Park Is Open: An Ecofeminist Critique of Universal\u27s Jurassic World

This paper explores an interpretation of Universal Pictures,’ Jurassic World (2015), to identify naturalized representations of human relationships and human relationships to the environment. Using the concepts of scholar, Noel Sturgeon, the ideological significance of these representations comes down to what she defines as “Politics of The Natural”. Through this avenue, this analysis examines Jurassic World as a text and reflection of normalized environmental worldviews, attitudes and values; as well as how these determine where humans place in this “naturalized” hierarchy. This essay will discuss environmental themes in the film, first, through Jurassic World as a symbol for the western concept of the “frontier”, second, the dynamics of white, patriarchal relationships with main character Owen Grady, and lastly will examine the militaristic themes presented in the weaponizing of the Velociraptors

Impact of maternally derived pertussis antibody titers on infant whole-cell pertussis vaccine response in a low income setting

Background: Maternal vaccines against pertussis are not yet recommended in the developing world. Besides unclear burden estimates, another concern is that transplacental transfer of maternal pertussis antibodies could result in attenuation of the immune response to whole cell pertussis (DTwP) primary vaccination series in infants. This study was taken up to determine whether higher levels of maternal pertussis antibodies attenuate immune response of infants to DTwP vaccination series given at 6-10-14 weeks of age.Methodology: A total of 261 pregnant women and their infants from four low-income settlements in Karachi, Pakistan were enrolled in this study. The study endpoints were infant antibody titers for Pertussis toxin (PTx), Filamentous hemagglutinin antigen (FHA), Pertactin (PRN) and Fimbriae type 2/3 (FIM) - from birth through 18 weeks of age. Cord blood or pre-vaccine pertussis antibody titers indicate the concentration of maternal antibodies transferred to infants. Linear regression models were used to determine the association between higher maternal antibody titers and infant immune response to DTwP vaccine. Geometric Mean Ratio (GMR) was calculated as the ratio of infant antibody titers at specified time points against the maternal antibody titers at the time of delivery.Results: At eighteen weeks of age, the adjusted β regression coefficient for PTx was 0.06 (95% CI: -0.49-0.61), FHA 0.02 (95% CI: -0.26 -0.29), PRN 0.02 (95%CI -0.38- 0.43), and FIM 0.17 (95%CI: -0.21-0.54). Among infants who received at least two doses of DTwP vaccine, higher maternal antibody titers did not have any attenuating effect on infant post-immunization antibody titers against all four pertussis antigens.Conclusion: Maternal pertussis antibodies did not attenuate infant\u27s immune response to pertussis antigens in DTwP primary vaccine given at 6-10-14 weeks of age

Pengambilan Keputusan Waktu Panen pada Usaha Pembesaran Lobster di Pulau Lombok Provinsi NTB

Lobster sebagai komoditas yang berharga ditentukan oleh ukuran panjang dan berat. Di Indonesia, berdasarkan Peraturan Menteri Kelautan dan Perikanan No.1 / 2015, ukuran minimal lobster adalah memiliki panjang karapas 7cm dan berat 200 gram. Pelaku USAha pembesaran lobster justru tidak mentaati aturan yang ada, ukuran lobster yang dipanen justru ditentukan oleh permintaan pasar yang dilakukan untuk mengurangi risiko kematian lobster dan mempercepat waktu dalam memperoleh penghsilan. Penelitian ini dilakukan untuk melakukan analisis keputusan waktu panen lobster di Indonesia. Metode yang digunakan adalah model persamaan struktural sebagian least square (SEM PLS). Hasil studi menunjukkan bahwa keputusan untuk memanen lobster ditentukan oleh hubungan patron dengan klien, keterbatasan waktu, dan kompleksitas pekerjaan