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Genetic plasticity may be understood as the ability of a functional gene network to tolerate alterations in its components or structure. Usually, the studies involving gene modifications in the course of the evolution are concerned to nucleotide sequence alterations in closely related species. However, the analysis of large scale data about the distribution of gene families in non-exclusively closely related species can provide insights on how plastic or how conserved a given gene family is.doi:10.1186/1745-6150-6-22 pmid:21586164 pmcid:PMC3117832 fatcat:5d5wtn7ppze2dbqfdnscofqoxa
more »... e, we analyze the abundance and diversity of all Eukaryotic Clusters of Orthologous Groups (KOG) present in STRING database, resulting in a total of 4,850 KOGs. This dataset comprises 481,421 proteins distributed among 55 eukaryotes. Results: We propose an index to evaluate the evolutionary plasticity and conservation of an orthologous group based on its abundance and diversity across eukaryotes. To further KOG plasticity analysis, we estimate the evolutionary distance average among all proteins which take part in the same orthologous group. As a result, we found a strong correlation between the evolutionary distance average and the proposed evolutionary plasticity index. Additionally, we found low evolutionary plasticity in Saccharomyces cerevisiae genes associated with inviability and Mus musculus genes associated with early lethality. At last, we plot the evolutionary plasticity value in different gene networks from yeast and humans. As a result, it was possible to discriminate among higher and lower plastic areas of the gene networks analyzed. Conclusions: The distribution of gene families brings valuable information on evolutionary plasticity which might be related with genetic plasticity. Accordingly, it is possible to discriminate among conserved and plastic orthologous groups by evaluating their abundance and diversity across eukaryotes. Reviewers: This article was reviewed by Prof Manyuan Long, Hiroyuki Toh, and Sebastien Halary.
ViaComplex is an open-source application that builds landscape maps of gene expression networks. The motivation for this software comes from two previous publications (Nucleic Acids Res., 35, 1859-1867 , 2007 Nucleic Acids Res., 36, 6269-6283, 2008). The first article presents a network-based model of genome stability pathways where we defined a set of genes that characterizes each genetic system. In the second article we analyzed this model by projecting functional information from severaldoi:10.1093/bioinformatics/btp246 pmid:19369498 fatcat:une4knnwk5hbvcw2ljj7dplzhy
more »... riments onto the gene network topology. In order to systematize the methods developed in these articles, ViaComplex provides tools that may help potential users to assess different high-throughput experiments in the context of six core genome maintenance mechanisms. This model illustrates how different gene networks can be analyzed by the same algorithm.
Scientia cum Industria
Francisco Getulio Vargas, 1130, Caxias do Sul-RS-Brazil, CEP95070-560; † Department of Physics and Biophysics, Institute of Biosciences, Universidade Estadual Paulista Julio de Mesquita Filho, Brazil; ...doi:10.18226/23185279.v2iss1p15 fatcat:h5q2zb5bebdona7eijdp76xpxu
H O E T A L . | M O L M E D 1 8 : 1 2 0 9 -1 2 1 9 , 2 0 1 2L I N K B E T W E E N G R P R A N D T L R -4 A N D S E P S I S 2 1 2 | P E T R O N I L H O E T A L . | M O L M E D 1 8 : 1 2 0 9 -1 2 1 ... R P R A N D T L R -4 A N D S E P S I S M O L M E D 1 8 : 1 2 0 9 -1 2 1 9 , 2 0 1 2 | P E T R O N I L H O E T A L . | 1 2 1 9 ...doi:10.2119/molmed.2012.00083 pmid:22735756 pmcid:PMC3510294 fatcat:zmvavc6vlnhr3agdfxatpufqz4
L.; OLTVAI, Z. Network biology: Under standing the cell's functional organization. s.l.: Nature Reviews Genetics, 2004. pp. 101-113, 2004. BAÚ, C. E. G. ...doi:10.34117/bjdv6n1-244 fatcat:aqiykk6warewzgyt63ehlisolu
Rybakowska, Iwona Rybarczyk, Yves Rydosz, Artur Ryndin, Eugeny A. ... Rotter, Pawel Rotunno Filho, Otto Corrêa Rouco, José Rouillard, José Roupioz, Yoann Rousakis, Theodoros Roussey, Catherine Rout, Bhimsen Rouzbahani, Hamid Karimi Roveri, Marco Rovini, Erika Rovira-Garcia ...doi:10.3390/s20020576 fatcat:yjjvds6ndvdx5dp6gfcsvyfar4
Minimization of this function, by changing the genes localization on the list, implies approximating mutually interacting genes, as discussed by Rybarczyk-Filho et al.  . ... The experimental points indicate that the number of links is proportional to the number of nodes, that is, N L *N 1 . ...doi:10.1371/journal.pone.0056579 pmid:23468868 pmcid:PMC3582557 fatcat:m6ltmnathnczro77vlumtjeigy
Ao meu co-orientador Luiz Carlos Pinheiro Machado Filho pela orientação e conhecimentos transmitidos. ... Maria José Hötzel pelas ótimas aulas. Aos amigos Angela, Queliz e Luana pela acolhida, amizade e alegria de ter conhecido vocês. ... vaca/dia vs 18,78 l/vaca/dia, respectivamente). ...doi:10.4321/s0004-05922010000300011 fatcat:fy6sk7geufa3ppdkrxeoi5ugmq
On Figure 1d -l window modularity is represented as gray landscapes. There we have chosen w = 251. ... (d-l) Projection of diverse terms of the Gene Ontology: Biological Process, as indicated in the right hand frame of each row. Gray landscape backgrounds: window modularity for the orderings. ...doi:10.1093/nar/gkq1269 pmid:21169199 pmcid:PMC3082889 fatcat:xdfup7ggq5gkfhapnejd6vqdma
Meio Ambiente: Impacto do Convívio entre Vegetação, Animais e Homens 2
À VREAC-UPF e a Coonalter pela implementação da Feira Ecológica na REFERÊNCIAS São José: ICEP, 2017, p. 311-318. PETRY, C.; BORTOLUZZI, E. C. ; FOSCHIERA, E. M. ; FOSCHIERA, L. A. ; LONGHI, S. ... L.; VIEIRA, S. R. ...doi:10.22533/at.ed.8252013102 fatcat:gwvxxkjeuzemro6yewosxza37q