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Reconciliation Revisited: Handling Multiple Optima When Reconciling with Duplication, Transfer, and Loss [chapter]

Mukul S. Bansal, Eric J. Alm, Manolis Kellis
2013 Lecture Notes in Computer Science  
While duplication-loss (DL) reconciliation leads to a unique maximum-parsimony solution, duplication-transfer-loss (DTL) reconciliation yields a multitude of optimal solutions, making it difficult to infer  ...  Phylogenetic tree reconciliation is a powerful approach for inferring evolutionary events like gene duplication, horizontal gene transfer, and gene loss, which are fundamental to our understanding of molecular  ...  ., and National Science Foundation AToL grant 0936234 to E.J.A. and M.K.  ... 
doi:10.1007/978-3-642-37195-0_1 fatcat:554wa6v5cvhrrizhkkrr5urdii

Reconciliation Revisited: Handling Multiple Optima when Reconciling with Duplication, Transfer, and Loss

Mukul S. Bansal, Eric J. Alm, Manolis Kellis
2013 Journal of Computational Biology  
While duplication-loss (DL) reconciliation leads to a unique maximum-parsimony solution, duplication-transfer-loss (DTL) reconciliation yields a multitude of optimal solutions, making it difficult to infer  ...  Phylogenetic tree reconciliation is a powerful approach for inferring evolutionary events like gene duplication, horizontal gene transfer, and gene loss, which are fundamental to our understanding of molecular  ...  ., and National Science Foundation AToL grant 0936234 to E.J.A. and M.K.  ... 
doi:10.1089/cmb.2013.0073 pmid:24033262 pmcid:PMC3791060 fatcat:o77cbppk5jdufnzjlxqzgmishi

Ancient whole genome duplications and the evolution of the gene duplication and loss rate [article]

Arthur Zwaenepoel, Yves Van de Peer
2019 bioRxiv   pre-print
We applied our newly developed framework to ancient WGDs in land plants and investigate the effects of duplication and loss rate variation on reconciliation and gene count based assessment of these earlier  ...  In particular the effects of variation in gene duplication and loss rates across the species tree have not been considered.  ...  Acknowledgements & Funding We thank Wandrille Duchemin and Gergely Szöllősi for some initial help with regard to technical details of the ALE approach.  ... 
doi:10.1101/556076 fatcat:ebdrf52tcbairkrjqby25t37wu

Abstracts of Working Papers in Economics

2002 Abstracts of Working Papers in Economics  
It is only when political competition is limited and their power is threatened that elites will block development.  ...  Using a simple heterogeneous goods trade model of the Armington type and UK data, we show how trade shocks affecting the price of unskilled-intensive goods can be absorbed on the demand side, with little  ...  There are two types of human capital: productivity and creativity (i.e., the ability to produce ideas that may be duplicated over a network).  ... 
doi:10.1017/s0951007900005635 fatcat:4go3cqj4ezhdzcps7qsi35kvyi

Machine Knowledge: Creation and Curation of Comprehensive Knowledge Bases [article]

Gerhard Weikum, Luna Dong, Simon Razniewski, Fabian Suchanek
2021 arXiv   pre-print
Equipping machines with comprehensive knowledge of the world's entities and their relationships has been a long-standing goal of AI.  ...  It covers models and methods for discovering and canonicalizing entities and their semantic types and organizing them into clean taxonomies.  ...  We also appreciate the sustained encouragement and support by our editors Surajit Chaudhuri, Joe Hellerstein and Ihab Ilyas.  ... 
arXiv:2009.11564v2 fatcat:vh2lqfmhhbcwpf6dcsej3hhvgy

Abstracts of Working Papers in Economics

1987 Abstracts of Working Papers in Economics  
AB This paper considers the linear regression model with multiple stochastic regressors, intercept, and errors that have undefined means.  ...  In this paper we construct and estimate a dynamic latent variable model of the MIMIC form (multiple indicators, multiple causes, one latent variable) on annual United States data covering the period 1939  ...  This paper deals with the issue of the compatibility between investment strategy and income policy in the design of a strategy of egalitarian growth. Safra, Zvi  ... 
doi:10.1017/s0951007900000486 fatcat:koyxomekgrderhvqin6qevdgwi

Abstracts of Working Papers in Economics

2002 Abstracts of Working Papers in Economics  
These results are consonant with the data on starting wages and wage growth.  ...  We first explore how starting wages and wage growth have changed over time and link the changes to trends in lifetime earnings and the lifetime skill-premium.  ...  Waterpower offered abundant and cheap energy, but restricted the location of manufacturing just to areas with propitious topography and climate.  ... 
doi:10.1017/s0951007900005751 fatcat:lpgtya7aavcqhjbswmeak5lg5m

DEEL 54, Nommers 1 & 2, Maart en Junie, 2013 (Full Volume)

NGTT NGTT
2013 Nederduitse Gereformeerde Teologiese Tydskrif  
Nor does he offer a two-stage wisdom, leading believers to the next stage of more esoteric lessons when he thinks they can handle it.  ...  Preaching on reconciliation as part of the reforming of preaching helps us to reject any form of discrimination that obstructs the experience of Christ's reconciling act.  ... 
doi:10.5952/54-1-2-326 fatcat:vv7chm4tgrhadp3xiwnjdftqye

Cognitive Constructivism and the Epistemic Significance of Sharp Statistical Hypotheses in Natural Sciences [article]

J.M. Stern
2020 arXiv   pre-print
This book presents our case in defense of a constructivist epistemological framework and the use of compatible statistical theory and inference tools.  ...  This metaphor has proven to be very useful, leading the development of Bayesian statistics since its XX-th century revival, rooted on the work of de Finetti, Savage and others.  ...  The "ball" as object becomes a token in our experience and language for that behavior which you know how to do when you handle a ball.  ... 
arXiv:1006.5471v8 fatcat:v375ybolz5bkbe6ordmjnnulhi

Abstracts of Working Papers in Economics

1990 Abstracts of Working Papers in Economics  
This section contains abstracts and complete bibliographic information for current working papers, listed alphabetically by primary author.  ...  TI The Distribution of the Instrumental Variables Estimator and its t-Ratio When the Instrument is a Poor One. AU Nelson, Charles; Startz, Richard.  ...  Contrasting swaps with forwards and futures helps identify the determinants of default risk and their valuation impact Finally, we argue that the continuing growth in swaps is attributable to their contribution  ... 
doi:10.1017/s0951007900001455 fatcat:geyxpzjiavaxvop32ayggrrfzy

Stability, Transition, and Regime Approval in Post-Fidel Cuba

JONATHAN BENJAMIN-ALVARADO, GREGORY A. PETROW
2012 Political science quarterly  
divisions; the school administrators and stakeholders of the Integrated Schools in Ilocos Norte and Laoag City, for their hospitality and for sharing their precious time with the researchers during the  ...  Lopez, Schools Division Superintendent of DepEd, Division of Laoag City, for allowing the researchers to conduct interviews with the integrated school administrators and stakeholders in their respective  ...  These findings revisit an older theme of Curruptio optima pessima, and signal a call for action.  ... 
doi:10.1002/j.1538-165x.2012.tb00721.x fatcat:lr25vmkb2zf2tm2bcb4264u5ta

Land use change The causes and consequences

Alexander Mather
1993 Land Use Policy  
ACKNOWLEDGEMENTS I would like to thank Drs M Lane, D C Howard and R G H Bunce for providing me with details of the land classes for the Rede catchment; J P Byrne and C Smith for land use change data and  ...  ACKNOWLEDGEMENTS This paper has drawn heavily on the work and advice of many colleagues in ADAS and a valuable dialogue over many years with researchers in the Institute of Terrestrial Ecology.  ...  There were Gaussian responses with optima near the middle of the axis in the cases of assemblages 2 and 6, whilst the Gaussian responses of assemblages 1 and 4 had optima nearer the sea end and the woodland  ... 
doi:10.1016/0264-8377(93)90042-9 fatcat:4nixydblevecfl3g5d4ys7dl5u

Dagstuhl Reports, Volume 7, Issue 5, May 2017, Complete Issue [article]

2018
Accessing and navigating through such large dataset is not easy for light clients with limited capacities, that is, with a limited rendering capacity, and a low bandwidth.  ...  and Technology).  ...  However, they may meet problems when dealing with multiple backends and distinct file paths and file descriptors for different backends.  ... 
doi:10.4230/dagrep.7.5 fatcat:ipv6ltpp6ngejao35zzoqko2ry

Optimal operation of industrial compressor stations in systems with large energy consumption

Dionysios Xenos, Nina Thornhill, Ricardo Martinez-Botas, European Commission
2017
The aim of the thesis is to study the optimal operation of compressor stations in systems with large energy consumption such as process systems and natural gas networks.  ...  or washing when the degradation of the condition of the compressors has reached unacceptable limits.  ...  The main challenge when dealing with NLP methods is that when there are several optima and the aim is to estimate the global optimum and not any local minimum.  ... 
doi:10.25560/49779 fatcat:veedluf5kzeurjzohv7z5caa5a

Assessment of nutrient loading and eutrophication in Barnegat Bay-Little Egg Harbor, New Jersey in support of nutrient management planning

No Name Supplied
2013
This study targets a series of key water quality, biotic, and habitat indicators in the BB-LEH Estuary for assessment of ecosystem condition.  ...  ACKNOWLEDGEMENTS We thank the New England Interstate Water Pollution Control Commission (Susannah King, project manager) for providing the funding to conduct this project and for overseeing administrative  ...  corresponding station IDs), with check off fields providing documentation of all samples that are collected (when, and by whom) Sample transfer information/invoice (where, what, to whom, and when , and  ... 
doi:10.7282/t3-97bk-4x78 fatcat:uadrx3f6dzd3pfyebbtmz5fowy
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