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Dissertation
A framework for the creation and exploration of cross platform expression compendia
Authors: ---
ISBN: 9789088263811 Year: 2014 Publisher: Leuven Katholieke Universiteit Leuven

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Abstract

With the unprecedented ability to systematically probe gene expression at the genome scale, microarrays have become an indispensable technology adopted by most of the laboratories across the world, generating a wealth of data for a variety of species. Although comprehensive in the gene dimension, any microarray based study alone provides a limited scope at the level of condition. However combining expression data from different labs provides the opportunity to investigate gene expression of a particular species at a more global level, and to view a specific study from the perspective of existing knowledge. The goal of this research is developing a novel methodology and system to explore this opportunity.We first developed a methodology to create an organism-specific cross-platform compendium based on publicly available gene expression data. Special attention has been paid to facilitate automated data retrieval by resolving heterogeneities in the data representation and to improve data consistency and compatibility through systematic renormalization of the data. Compared with existing single platform compendia, our methodology provides a broader range of data (cross platform).Using this novel methodology, we constructed three comprehensive expression compendia for the bacterial model organisms: Escherichia coli, Bacillus subtilis, and Salmonella enterica serovar Typhimurium. Moreover, efforts have been taken to create a web portal with intuitive functionalities for data analysis and visualization, providing public access to these three compendia.One of the most important applications of compendia is to study the response of an organism to environmental changes by identifying condition dependent functional modules and studying the underlying regulatory mechanisms responsible for the observed expression variations. Different methods exist for this purpose. Each makes distinct assumptions to handle the under-deterministic nature of this complex problem, and consequently generates complementary results. Here, we demonstrated such complementarity between two methods, DISTILLER and COLOMBOS, in a case study, in which co-expression modules containing gene sodA are extracted from the E. coli compendium using each method, and compared against each other. Through this example, we stress the importance of choosing the right method based on the research purpose.At last, we extended the methodology to handle the increased complexity of the monocot Zea mays, specifically addressing the following two issues: inconsistencies in platform-probe annotation and having a more precise biological sample annotation which can reflect the different genetic repositories of maize (breeding lines), the complexity of the plants life style (development stage) and its more complex tissue structure. We also upgraded the web access portal accordingly with new functions adapted to queries specific for a higher organism like Zea mays.


Book
A double hall algebra approach to affine quantum Schur-Weyl theory
Authors: --- ---
ISBN: 9781107608603 9781139226660 1139226665 9781139780094 1139780093 1107608600 1139889869 113977705X 1139783920 1139794450 1139783084 1299405754 1139778579 9781139889865 9781139783927 9781139794459 9781139783088 9781299405752 9781139778572 Year: 2012 Volume: 401 Publisher: Cambridge : Cambridge University Press,

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Abstract

The theory of Schur-Weyl duality has had a profound influence over many areas of algebra and combinatorics. This text is original in two respects: it discusses affine q-Schur algebras and presents an algebraic, as opposed to geometric, approach to affine quantum Schur-Weyl theory. To begin, various algebraic structures are discussed, including double Ringel-Hall algebras of cyclic quivers and their quantum loop algebra interpretation. The rest of the book investigates the affine quantum Schur-Weyl duality on three levels. This includes the affine quantum Schur-Weyl reciprocity, the bridging role of affine q-Schur algebras between representations of the quantum loop algebras and those of the corresponding affine Hecke algebras, presentation of affine quantum Schur algebras and the realisation conjecture for the double Ringel-Hall algebra with a proof of the classical case. This text is ideal for researchers in algebra and graduate students who want to master Ringel-Hall algebras and Schur-Weyl duality.


Book
Advanced functional materials : selected, peer reviewed papers from the Chinese Materials Congress 2014 (CMC 2014), July 4-7, 2014, Chengdu, China
Authors: --- --- ---
ISBN: 3038267805 9783038267805 9783038353942 Year: 2015 Publisher: Pfäffikon, Switzerland : Trans Tech Publications Ltd,

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Abstract

Collection of selected, peer reviewed papers from the Chinese Materials Congress 2014 (CMC 2014), July 4-7, 2014, Chengdu, China. The 127 papers are grouped as follows: Symposium E: Materials in Microelectronic and Optoelectronic Industry; Symposium G: Multiferroic Materials; Symposium H: Smart Materials; Symposium I: Vanadium-Titanium And Rare Earth Functional Materials; Symposium J: Biomedical Materials; Symposium K: High Performance And Functional Polymer and Composite Materials

Keywords

Electronics --- Materials


Book
Mushrooms, Humans and Nature in a Changing World : Perspectives from Ecological, Agricultural and Social Sciences
Authors: --- --- ---
ISBN: 3030373789 3030373770 Year: 2020 Publisher: Cham : Springer International Publishing : Imprint: Springer,

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Abstract

This book focuses on recent advances in our understanding of wild edible mycorrhizal fungi, truffle and mushrooms and their cultivation. In addition to providing fresh insights into various topics, e.g. taxonomy, ecology, cultivation and environmental impact, it also demonstrates the clear but fragile link between wild edible mushrooms and human societies. Comprising 17 chapters written by 41 experts from 13 countries on four continents, it enables readers to grasp the importance of protecting this unique, invaluable, renewable resource in the context of climate change and unprecedented biodiversity loss. The book inspires professionals and encourages young researchers to enter this field to develop the sustainable use of wild edible mushrooms using modern tools and approaches. It also highlights the importance of protecting forested environments, saving species from extinction and generating a significant income for local populations, while keeping alive and renewing the link between humans and wild edible mushrooms so that in the future, the sustainable farming and use of edible mycorrhizal mushrooms will play a predominant role in the management and preservation of forested lands.

Keywords

Mushrooms. --- Champignons --- Toadstools --- Fungi --- Macrofungi --- Biodiversity. --- Food—Biotechnology. --- Mycology. --- Conservation biology. --- Ecology . --- Climate change. --- Ethnology. --- Food Science. --- Conservation Biology/Ecology. --- Climate Change/Climate Change Impacts. --- Cultural anthropology --- Ethnography --- Races of man --- Social anthropology --- Anthropology --- Human beings --- Changes, Climatic --- Changes in climate --- Climate change --- Climate change science --- Climate changes --- Climate variations --- Climatic change --- Climatic changes --- Climatic fluctuations --- Climatic variations --- Global climate changes --- Global climatic changes --- Climatology --- Climate change mitigation --- Teleconnections (Climatology) --- Balance of nature --- Biology --- Bionomics --- Ecological processes --- Ecological science --- Ecological sciences --- Environment --- Environmental biology --- Oecology --- Environmental sciences --- Population biology --- Ecology --- Nature conservation --- Botany --- Microbiology --- Biological diversification --- Biological diversity --- Biotic diversity --- Diversification, Biological --- Diversity, Biological --- Biocomplexity --- Ecological heterogeneity --- Numbers of species --- Environmental aspects --- Bolets --- Micologia --- Agricultura sostenible --- Canvi climàtic --- Canvis climàtics --- Canvi climàtic global --- Cicles climàtics --- Fluctuacions climàtiques --- Oscil·lacions climàtiques --- Variacions climàtiques --- Climatologia --- Degradació ambiental --- Desertització --- Canvi mediambiental global --- Dendroclimatologia --- Escalfament global --- Paleoclimatologia --- Temperatura atmosfèrica --- Agricultura alternativa --- Agricultura integrada --- Agricultura viable --- Conreus integrats --- Producció agrícola integrada --- Producció integrada (Agricultura) --- Agricultura --- Silvicultura sostenible --- Agricultura biològica --- Agricultura de conservació --- Desenvolupament sostenible --- Ecologia agrícola --- Sistemes agrícoles --- Botànica --- Micologia mèdica --- Bolets comestibles --- Fongs --- Global environmental change --- Fungal biology --- Fungology --- Fungus biology --- Ecology. --- Climatic changes.


Book
Mushrooms, Humans and Nature in a Changing World
Authors: --- --- --- ---
ISBN: 9783030373788 Year: 2020 Publisher: Cham Springer International Publishing :Imprint: Springer


Digital
Mushrooms, Humans and Nature in a Changing World : Perspectives from Ecological, Agricultural and Social Sciences
Authors: --- --- ---
ISBN: 9783030373788 Year: 2020 Publisher: Cham Springer International Publishing

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Abstract

This book focuses on recent advances in our understanding of wild edible mycorrhizal fungi, truffle and mushrooms and their cultivation. In addition to providing fresh insights into various topics, e.g. taxonomy, ecology, cultivation and environmental impact, it also demonstrates the clear but fragile link between wild edible mushrooms and human societies. Comprising 17 chapters written by 41 experts from 13 countries on four continents, it enables readers to grasp the importance of protecting this unique, invaluable, renewable resource in the context of climate change and unprecedented biodiversity loss. The book inspires professionals and encourages young researchers to enter this field to develop the sustainable use of wild edible mushrooms using modern tools and approaches. It also highlights the importance of protecting forested environments, saving species from extinction and generating a significant income for local populations, while keeping alive and renewing the link between humans and wild edible mushrooms so that in the future, the sustainable farming and use of edible mycorrhizal mushrooms will play a predominant role in the management and preservation of forested lands.


Book
Light scattering from irregular tetrahedral aggregates
Authors: --- --- ---
Year: 1999 Publisher: Adelphi, Md. : Army Research Laboratory,

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Abstract

Keywords

Light --- Scattering.


Book
Information Favoritism and Scoring Bias in Contests
Authors: --- --- --- ---
Year: 2023 Publisher: Cambridge, Mass. National Bureau of Economic Research

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Abstract

Two potentially asymmetric players compete for a prize of common value, which is initially unknown, by exerting efforts. A designer has two instruments for contest design. First, she decides whether and how to disclose an informative signal of the prize value to players. Second, she sets the scoring rule of the contest, which varies the relative competitiveness of the players. We show that the optimum depends on the designer's objective. A bilateral symmetric contest--in which information is symmetrically distributed and the scoring bias is set to offset the initial asymmetry between players--always maximizes the expected total effort. However, the optimal contest may deliberately create bilateral asymmetry--which discloses the signal privately to one player, while favoring the other in terms of the scoring rule--when the designer is concerned about the expected winner's effort. The two instruments thus exhibit complementarity, in that the optimum can be made asymmetric in both dimensions even if the players are ex ante symmetric. Our results are qualitatively robust to (i) affiliated signals and (ii) endogenous information structure. We show that information favoritism can play a useful role in addressing affirmative action objectives.

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Book
Confidence Management in Tournaments
Authors: --- --- --- ---
Year: 2020 Publisher: Cambridge, Mass. National Bureau of Economic Research

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Abstract

An incumbent employee competes against a new hire for bonus or promotion. The incumbent's ability is commonly known, while that of the new hire is private information. The incumbent is subject to a perceptional bias: His prior about the new hire's type differs from the true underlying distribution. He can be either ex ante overconfident or underconfident. We first explore whether a firm that aims to maximize aggregate effort would benefit or suffer from the bias. It is shown that debiasing may not be productive in incentivizing efforts. We then study the optimal information disclosure policy. The firm is allowed to ex ante commit to whether an informative signal--which allows the incumbent to infer the new hire's type--will be disclosed publicly. We fully characterize the conditions under which transparency or opacity will prevail. We further take a Bayesian persuasion approach to optimally design the firm's evaluation and feedback structure. We also consider an alternative context in which the manager is concerned about the expected winner's effort. We demonstrate that the insights obtained from the baseline setting remain intact. Our results shed light on the extensive discussion of confidence management in firms and the debate about organizational transparency.

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