Identification of the expressome by machine learning on omics data.

Accurate annotation of plant genomes remains complex due to the presence of many pseudogenes arising from whole-genome duplication-generated redundancy or the capture and movement of gene fragments by transposable elements. Machine learning on genome-wide epigenetic marks, informed by transcriptomic and proteomic training data, could be used to improve annotations through classification of all putative protein-coding genes as either constitutively silent or able to be expressed. Expressed genes were subclassified as able to express both mRNAs and proteins or only RNAs, and CG gene body methylation was associated only with the former subclass. More than 60,000 protein-coding genes have been annotated in the reference genome of maize inbred B73. About two-thirds of these genes are transcribed and are designated the filtered gene set (FGS). Classification of genes by our trained random forest algorithm was accurate and relied only on histone modifications or DNA methylation patterns within the gene body; promoter methylation was unimportant. Other inbred lines are known to transcribe significantly different sets of genes, indicating that the FGS is specific to B73. We accurately classified the sets of transcribed genes in additional inbred lines, arising from inbred-specific DNA methylation patterns. This approach highlights the potential of using chromatin information to improve annotations of functional genes

A Contemporary Approach to the Design of Jewelry

Personal adornment is one of the oldest and most fundamental needs of man. Superstition, awareness of social position and the desire for secure investment are some of the fundamental urges behind man's desire to adorn his person. Jewelry and personal adornment have been invested with magic, symbolic meanings and commemorative values. Contemporary artists have attempted to emphasize the aesthetic value of jewelry, demanding a reexamination of conventional attitudes toward jewelry; designing forms which are an expression of their insight into life rather than an article of value mainly for the precious materials from which it is made. A variety of techniques have been used to create the jewelry in this collection. One collar is silver and gold; the pieces cut from sheet silver, flat silver wire, and gold filled wire. Another collar is copper woven mesh flooded with silver, linked with silver jump rings and embellished with silver domes. A large breast plate pendant is an interpretation of the filigree technique, using silver rings in a variety of sizes to form a large butterfly shape. &nbsp;</p

Temperature dependence of single-particle properties in nuclear matter

The single-nucleon potential in hot nuclear matter is investigated in the framework of the Brueckner theory by adopting the realistic Argonne V18 or Nijmegen 93 two-body nucleon-nucleon interaction supplemented by a microscopic three-body force. The rearrangement contribution to the single-particle potential induced by the ground state correlations is calculated in terms of the hole-line expansion of the mass operator and provides a significant repulsive contribution in the low-momentum region around and below the Fermi surface. Increasing temperature leads to a reduction of the effect, while increasing density makes it become stronger. The three-body force suppresses somewhat the ground state correlations due to its strong short-range repulsion, increasing with density. Inclusion of the three-body force contribution results in a quite different temperature dependence of the single-particle potential at high enough densities as compared to that adopting the pure two-body force. The effects of three-body force and ground state correlations on the nucleon effective mass are also discussed.Comment: 14 pages, 5 figure

Carrying capacity and goat botanical diet composition in an arid ecosystem, Lavalle, Argentina

8 págs, 1 tabla.-- Comunicación presentada a la XLV Reunión Científica de la Sociedad Española para el Estudio de los Pastos: "Producciones agroganaderas: gestión eficiente y conservación del medio natural" (Gijón, 28 de mayo al 3 de junio de 2005).[ES] El trabajo se llevó a cabo en el departamento de Lavalle, Mendoza, Argentina. Las unidades de pastos, más importantes desde el punto de vista forrajero son: Algarrobal de Prosopis flexuosa; Matorral con Atriplex lampa (zampal); Matorral con Tricomaria usillo (usillar); Matorral degradado con Larrea cuneifolia (jarillal) y Medanal. Los objetivos del estudio fueron estimar la capacidad sustentadora de las diferentes unidades y la composición botánica de la ingesta de los caprinos. La estimación de dicha capacidad, expresada en hectáreas por Unidades Ganadera Caprinas (ha UGC–1), se realizó mediante el método de Point Quadrat modificado para el Monte. Y por medio del análisis microhistológico de heces se determinó la composición estacional de la ingesta.Los valores medios anuales de capacidad sustentadora fueron: Algarrobal, 1,2; Zampal, 1,7; Usillar, 3,5; Jarillal, 5,8 y Médanos, 4,3 ha UGC-1. La composición de la ingesta varió durante las estaciones, observándose una predominancia de las especies arbustivas, las gramíneas perennes aparecieron en muy baja frecuencia en todas las estaciones. El Algarrobal y el Zampal son las unidades de mayor importancia forrajera, presentando receptividades ganaderas más altas y una oferta forrajera más estable a lo largo del año, respecto del resto de las unidades de pastos analizadas.[EN] The work was carried out in the department of Lavalle, Mendoza, Argentina. The units of pastures, more important from the forage matter are: Algarrobal of Prosopis flexuosa; Shrubland with Atriplex lampa (zampal); Shrubland with Tricomaria usillo (usillar); Shrubland degraded with Larrea cuneifolia (jarillal) and Dunes. The aims of the study were to estimate the carrying capacity of the different units and the botanical composition of goat diets. The carrying capacity, expressed in hectares by Units Goat (ha UG-1), was measured by the method of Point Quadrat modified for Monte and the seasonal botanical composition of goat diets, was determined by microhistological analysis of faeces. The annual average values of carrying capacity were: Algarrobal, 1.2; Zampal, 1.7; Usillar, 3.5; Jarillal, 5.8 and Dunes, 4.3 ha UG-1. The composition of the diet varied during the seasons, the predominance of the shrubs species were observed, the perennial grass appeared in low frequency in all the seasons. The Algarrobal and the Zampal are the units of greater forage importance, where forage receptivity are higher and with more stable production throughout the year, respect to the others units of pastures analyzed.Peer reviewe

Bisphenol A‐associated alterations in the expression and epigenetic regulation of genes encoding xenobiotic metabolizing enzymes in human fetal liver

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/106679/1/em21823.pd

Isospin splitting of the nucleon mean field

The isospin splitting of the nucleon mean field is derived from the Brueckner theory extended to asymmetric nuclear matter. The Argonne V18 has been adopted as bare interaction in combination with a microscopic three body force. The isospin splitting of the effective mass is determined from the Brueckner-Hartree-Fock self-energy: It is linear acording to the Lane ansatz and such that $m^*_n > m^*_p$ for neutron-rich matter. The symmetry potential is also determined and a comparison is made with the predictions of the Dirac-Brueckner approach and the phenomenological interactions. The theoretical predictions are also compared with the empirical parametrizations of neutron and proton optical-model potentials based on the experimental nucleon-nucleus scattering and the phenomenological ones adopted in transport-model simulations of heavy-ion collisions. The direct contribution of the rearrangement term due to three-body forces to the single particle potential and symmetry potential is discussed.Comment: 8 pages, 10 figure

The baryonic Y-shape confining potential energy and its approximants

We discuss the validity of replacing the complicated three-body confinement operator of the Y string junction type by three kinds of approximation which are numerically much simpler to handle: a one-body operator with the junction point at the centre of mass, a two-body operator corresponding to half the perimeter of the triangle formed by the three particles, and the average of both. Two different approaches for testing the quality of the approximations are proposed: a geometrical treatment based on the comparison of the potential energy strengths for the various inter quark distances, and a dynamical treatment based on the comparison of the corresponding effective string tensions using a hyperspherical approach. Both procedures give very similar results. It is shown how to simulate the genuine string junction operator by the approximations proposed above. Exact three-body calculations are presented in order to compare quantitatively the various approximations and to confirm our analysis.Comment: 28 pages, 5 figures, submitted to EPJ

Advances in targeted Alpha therapy for prostate cancer

BACKGROUND: Amongst therapeutic radiopharmaceuticals, targeted alpha therapy (TαT) can deliver potent and local radiation selectively to cancer cells as well as the tumor microenvironment and thereby control cancer while minimizing toxicity. DESIGN: In this review, we discuss the history, progress, and future potential of TαT in the treatment of prostate cancer, including dosimetry-individualized treatment planning, combinations with small-molecule therapies, and conjugation to molecules directed against antigens expressed by prostate cancer cells, such as prostate-specific membrane antigen (PSMA) or components of the tumor microenvironment. RESULTS: A clinical proof of concept that TαT is efficacious in treating bone-metastatic castration-resistant prostate cancer has been demonstrated by radium-223 via improved overall survival and long-term safety/tolerability in the phase III ALSYMPCA trial. Dosimetry calculation and pharmacokinetic measurements of TαT provide the potential for optimization and individualized treatment planning for a precision medicine-based cancer management paradigm. The ability to combine TαTs with other agents, including chemotherapy, androgen receptor (AR)-targeting agents, DNA repair inhibitors, and immuno-oncology agents, is under investigation. Currently, TαTs that specifically target prostate cancer cells expressing PSMA represents a promising therapeutic approach. Both PSMA-targeted actinium-225 and thorium-227 conjugates are under investigation. CONCLUSIONS: The described clinical benefit, safety and tolerability of radium-223 and the recent progress in TαT trial development suggest that TαT occupies an important new role in prostate cancer treatment. Ongoing studies with newer dosimetry methods, PSMA targeting, and novel approaches to combination therapies should expand the utility of TαT in prostate cancer treatment