Effective temperature for finite systems

Under the Ansatz that the occupation times of a system with finitely many states are given by the Gibbs distribution, an effective temperature is uniquely determined (up to a choice of scale), and may be computed de novo, without any reference to a Hamiltonian for empirically accessible systems. As an example, the calculation of the effective temperature for a classical Bose gas is outlined and applied to the analysis of computer network traffic.Comment: 9 pages, 10 figure

Effective statistical physics of Anosov systems

We present evidence indicating that Anosov systems can be endowed with a unique physically reasonable effective temperature. Results for the two paradigmatic Anosov systems (i.e., the cat map and the geodesic flow on a surface of constant negative curvature) are used to justify a proposal for extending Ruelle's thermodynamical formalism into a comprehensive theory of statistical physics for nonequilibrium steady states satisfying the Gallavotti-Cohen chaotic hypothesis.Comment: 38 pages, 17 figures. Substantially more details in sections 4 and 6; new and revised figures also added. Typos and minor errors (esp. in section 6) corrected along with minor notational changes. MATLAB code for calculations in section 16 also included as inline comment in TeX source now. The thrust of the paper is unaffecte

Social change, migration and pregnancy intervals

Maternity histories from residents of a Pacific Island society, Tokelau, and migrants to New Zealand, are analysed using life table techniques. Inter-cohort differentials in patterns of family formation were found in the total Tokelau-origin population. The process of accelerated timing and spacing of pregnancies was more pronounced among migrants who tended to marry later, be pregnant at marriage, have shorter inter-pregnancy intervals at lower parities and to show evidence of family limitation occurring at higher parities. These results point to the significance of changing patterns of social control on strategies of family building

Multiple breast cancer risk variants are associated with differential transcript isoform expression in tumors.

Genome-wide association studies have identified over 70 single-nucleotide polymorphisms (SNPs) associated with breast cancer. A subset of these SNPs are associated with quantitative expression of nearby genes, but the functional effects of the majority remain unknown. We hypothesized that some risk SNPs may regulate alternative splicing. Using RNA-sequencing data from breast tumors and germline genotypes from The Cancer Genome Atlas, we tested the association between each risk SNP genotype and exon-, exon-exon junction- or transcript-specific expression of nearby genes. Six SNPs were associated with differential transcript expression of seven nearby genes at FDR < 0.05 (BABAM1, DCLRE1B/PHTF1, PEX14, RAD51L1, SRGAP2D and STXBP4). We next developed a Bayesian approach to evaluate, for each SNP, the overlap between the signal of association with breast cancer and the signal of association with alternative splicing. At one locus (SRGAP2D), this method eliminated the possibility that the breast cancer risk and the alternate splicing event were due to the same causal SNP. Lastly, at two loci, we identified the likely causal SNP for the alternative splicing event, and at one, functionally validated the effect of that SNP on alternative splicing using a minigene reporter assay. Our results suggest that the regulation of differential transcript isoform expression is the functional mechanism of some breast cancer risk SNPs and that we can use these associations to identify causal SNPs, target genes and the specific transcripts that may mediate breast cancer risk