112,014 research outputs found
CAJA 196 - LEGAJO V - SIGNATURA 05
No full textDictamen de la Sección de Ciencias Sociales sobre la propuesta de D. Antonio Revenga y D. José Norberto Rubert para arbitrar los medios de antender a la reparación de los daños causados por los incendios en el Cabañal.Revenga, A.; Rubert, JN. (1875). Dictamen de la Sección de Ciencias Sociales sobre la propuesta de D. Antonio Revenga y D. José Norberto Rubert para arbitrar los medios de antender a la reparación de los daños causados por los incendios en el Cabañal. Real Sociedad Económica de Amigos del País de Valencia. https://riunet.upv.es/handle/10251/23733Importación Masiv
CAJA 15 - LEGAJO III - SIGNATURA 1,6
No full textMemorial de Vicente Pérez, maestro tintorero, y Mariano RUbert, maestro carpintero, sobre la invención de una máquina para pulverizar el Palo Brasil y el Campeche. Se acompañan varios memoriales sobre el mismo asunto.Pérez, V.; Rubert, M. (1785). Memorial de Vicente Pérez, maestro tintorero, y Mariano RUbert, maestro carpintero, sobre la invención de una máquina para pulverizar el Palo Brasil y el Campeche. Se acompañan varios memoriales sobre el mismo asunto. Real Sociedad Económica de Amigos del País de Valencia. https://riunet.upv.es/handle/10251/18700Importación Masiv
CAJA 167 - LEGAJO V - SIGNATURA 04
No full textExpediente sobre la creación de un barrio obrero, a propuesta de D. José Norberto RUbert, conteniendo: 1. Bases del concurso para la creación de un barrio obrero. " 2. Trabajos de la Comisión especial nombrada.- 3. Estatutos de la Asociación Benéfica para la creación de barrios obreros.Rubert, JN. (1866). Expediente sobre la creación de un barrio obrero, a propuesta de D. José Norberto RUbert, conteniendo: 1. Bases del concurso para la creación de un barrio obrero. " 2. Trabajos de la Comisión especial nombrada.- 3. Estatutos de la Asociación Benéfica para. Real Sociedad Económica de Amigos del País de Valencia. https://riunet.upv.es/handle/10251/23269Importación Masiv
CAJA 196 - LEGAJO V - SIGNATURA 03
No full textD. Antonio Revenga y D. José Norberto Rubert se dirigen a la Sociedad a fin de constituir una "Junta de reedificación de las viviendas incendiadas el día 30 de mayo de 1875 en el Pueblo Nuevo del Mar" porponiendo los objetivos, medios y reglamento de su actuación .Revenga, A.; Rubert, JN. (1875). D. Antonio Revenga y D. José Norberto Rubert se dirigen a la Sociedad a fin de constituir una "Junta de reedificación de las viviendas incendiadas el día 30 de mayo de 1875 en el Pueblo Nuevo del Mar" porponiendo los objetivos, medios y reglamento de su a. Real Sociedad Económica de Amigos del País de Valencia. https://riunet.upv.es/handle/10251/23731Importación Masiv
[Retrato de Fray Pedro Pascual Rubert] [Material gráfico]
No full textInscripción: "V. R. del P. Fr. Pedro Pasq.l Rubert, Prov.l de la Merced el qual haviendo Sobrevido â sus dignos Compañeros por no haverse berificado su muerte â los tiros de fusil la executo un granadero con la bayoneta."Coloreada a man
Gene Orthology Inference via Large-Scale Rearrangements for Partially Assembled Genomes
Get PDFRecently we developed a gene orthology inference tool based on genome rearrangements (Journal of Bioinformatics and Computational Biology 19:6, 2021). Given a set of genomes our method first computes all pairwise gene similarities. Then it runs pairwise ILP comparisons to compute optimal gene matchings, which minimize, by taking the similarities into account, the weighted rearrangement distance between the analyzed genomes (a problem that is NP-hard). The gene matchings are then integrated into gene families in the final step. Although the ILP is quite efficient and could conceptually analyze genomes that are not completely assembled but split in several contigs, our tool failed in completing that task. The main reason is that each ILP pairwise comparison includes an optimal capping that connects each end of a linear segment of one genome to an end of a linear segment in the other genome, producing an exponential increase of the search space.
In this work, we design and implement a heuristic capping algorithm that replaces the optimal capping by clustering (based on their gene content intersections) the linear segments into m ≥ 1 subsets, whose ends are capped independently. Furthermore, in each subset, instead of allowing all possible connections, we let only the ends of content-related segments be connected. Although there is no guarantee that m is much bigger than one, and with the possible side effect of resulting in sub-optimal instead of optimal gene matchings, the heuristic works very well in practice, from both the speed performance and the quality of computed solutions. Our experiments on real data show that we can now efficiently analyze fruit fly genomes with unfinished assemblies distributed in hundreds or even thousands of contigs, obtaining orthologies that are more similar to FlyBase orthologies when compared to orthologies computed by other inference tools. Moreover, for complete assemblies the version with heuristic capping reports orthologies that are very similar to the orthologies computed by the optimal version of our tool. Our approach is implemented into a pipeline incorporating the pre-computation of gene similarities
Natural Family-Free Genomic Distance
Get PDFA classical problem in comparative genomics is to compute the rearrangement distance, that is the minimum number of large-scale rearrangements required to transform a given genome into another given genome. While the most traditional approaches in this area are family-based, i.e., require the classification of DNA fragments of both genomes into families, more recently an alternative model was proposed, which, instead of family classification, simply uses the pairwise similarities between DNA fragments of both genomes to compute their rearrangement distance. This model represents structural rearrangements by the generic double cut and join (DCJ) operation and is then called family-free DCJ distance. It computes the DCJ distance between the two genomes by searching for a matching of their genes based on the given pairwise similarities, therefore helping to find gene homologies. The drawback is that its computation is NP-hard. Another point is that the family-free DCJ distance must correspond to a maximal matching of the genes, due to the fact that unmatched genes are just ignored: maximizing the matching prevents the free lunch artifact of having empty or almost empty matchings giving the smaller distances.
In this paper, besides DCJ operations, we allow content-modifying operations of insertions and deletions of DNA segments and propose a new and more general family-free genomic distance. In our model we use the pairwise similarities to assign weights to both matched and unmatched genes, so that an optimal solution does not necessarily maximize the matching. Our model then results in a natural family-free genomic distance, that takes into consideration all given genes and has a search space composed of matchings of any size. We provide an efficient ILP formulation to solve it, by extending the previous formulations for computing family-based genomic distances from Shao et al. (J. Comput. Biol., 2015) and Bohnenkämper et al. (Proc. of RECOMB, 2020). Our experiments show that the ILP can handle not only bacterial genomes, but also fungi and insects, or sets of chromosomes of mammals and plants. In a comparison study of six fruit fly genomes, we obtained accurate results
Static and dynamic in vitro colonic models reveal the spatiotemporal production of flavan-3-ol catabolites
No full textFlavan-3-ols are the most found flavonoid compounds in the human diet. Polymeric and monomeric flavan-3-ols reach the colonic region intact, where the gut microbiota utilizes them as substrates. In this research work, we investigated the pattern of colonic metabolites associated with flavan-3-ols, conducting a comprehensive analysis that combined (un)targeted metabolomics and in vitro colonic models. Firstly, the proposed flavan-3-ol metabolic pathway was investigated in-depth using a static in vitro model inoculated with different fecal donors. An apple, (−)-epicatechin, and procyanidin C1 were employed as feeding conditions. Small phenolic acids, such as phenylpropanoic acid and 3,4-dihydroxybenzoic acid, were positively associated with the apple feeding condition. In contrast, 5-(3ʹ,4ʹ-dihydroxyphenyl)-γ-valerolactone and other specific early intermediates like phenylvaleric acids were positively associated with (−)-epicatechin. Secondly, by employing a dynamic in vitro simulator model of the human digestion system (SHIME), we reconstructed the flavan-3-ol metabolic pathway regionally. In the proximal colon region, we localized catabolites, such as 5-(3ʹ,4ʹ-dihydroxyphenyl)-γ-valerolactone, while in the distal region, we identified mainly small phenolics. Combining static and dynamic in vitro models, we observed differences in the release of flavan-3-ol catabolites, influenced by both the food structure (isolated compounds and a food matrix) and the colonic region. This study sheds light on the colonic catabolism of one of the main dietary (poly)phenols and localizes microbial metabolites
author-bios-SRD-19-0063.R1 – Supplemental material for The Network Structure of Police Misconduct
No full textSupplemental material, author-bios-SRD-19-0063.R1 for The Network Structure of Police Misconduct by George Wood, Daria Roithmayr and Andrew V. Papachristos in Socius</p
Decoding microbial volatile signals in host–microbiome crosstalk
No full textThe human gut microbiome is a complex microbial ecosystem which has a profound impact on host health and disease. The research focus in this area is rapidly moving from taxonomy to functionality, elucidating the biological role of small molecules produced by the gut microbiome in regulating host metabolism. Among these, microbial volatile organic compounds (mVOCs) play several roles in bacterial communication and microbe-host signaling. Volatilomics, the comprehensive study of volatile metabolites, is emerging as a powerful tool for discovering and investigating these interactions. In this review we examine the current understanding of mVOCs in the gut and highlight how dedicated in vitro and ex vivo volatilomics experiments, alongside in vivo studies, can uncover the biological roles for these emerging small molecule
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