Research Article

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Combined P value; differential gene expression; Microarray; Statistical test

HTself is a web-based bioinformatics tool designed to deal with the classification of differential gene expression in low replication microarray studies. It is based on a statistical test that uses self-self experiments to derive intensity-dependent cutoffs. We developed an extension of HTself, originally released in 2005, by calculating P values instead of using a fixed acceptance level ... more

D.A. Cortez; A.P. Tonon; P. Colepicolo; R.Z.N. Vêncio
06/25/2012
cDNA microarray; differential gene expression; Gastric cancer; Peritoneal dissemination

With the aim of identifying peritoneal metastasis-related genes in gastric cancer, we performed a broad analysis of differential gene expression between the parental cell line GC9811 and its highly metastatic peritoneal counterpart, cell line GC9811-P. Two fluorescent cDNA probes, labeled with Cy3 and Cy5 dyes, were prepared from GC9811 and GC9811-P mRNA samples by the reverse ... more

F.H. Bai; N.J. Wang; J. Wang; L. Yang; F.M. Zhang; F. Yin; J. Liang; K.C. Wu; D.M. Fan
09/30/2007
Acrididae; Gene mapping; Hsp; In situ hybridization; Schistocerca pallens; Single-copy genes

There have been many studies on Schistocerca gregaria and Locusta migratoria, which are important grasshopper pests in many parts of the world. However, the main pest grasshopper species in Brazil, S. pallens, Rhammatocerus schistocercoides and Stiphra robusta, are very poorly characterized genetically. We adapted a permanent in situ ... more

T.T. Rieger; S.V. Oliveira-Silva; I.A. Pachêco; B.S. Chagas; J.F. Santos
08/29/2014
Hsp; Low salinity stress; Portunus trituberculatus; qRT-PCR

Challenged by the low salinity, 4 parts per thousand (4 ppt), for 72h, the survivals of swimming crabs (Portunus trituberculatus) were collected as the screened group (SG, tolerant to low salinity). Aiming at identifying the mechanism of low salinity tolerance, quantitative real-time PCR was employed to investigate the expression profiles of 4 HSP genes (HSP60, HSP70 ... more

X.N. Bao; C.K. Mu; C. Zhang; Y.F. Wang; W.W. Song; R.H. Li; C.L. Wang
04/22/2008
astrocytomas; COL6A1 gene; differential gene expression; SAGE; tumor marker

Diffuse infiltrating gliomas are the most common tumors of the central nervous system. Gliomas are classified by the WHO according to their histopathological and clinical characteristics into four classes: grade I (pilocytic astrocytoma), grade II (diffuse astrocytoma), grade III (anaplastic astrocytoma), and grade IV (glioblastoma multiforme). Several genes have already been correlated with ... more

A. Fujita; J.R. Sato; F. Festa; L.R. Gomes; S.M. Oba-Shinjo; S.K.N. Marie; C.E. Ferreira; M.C. Sogayar
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Brazilian rice cultivars; differential gene expression; Functional annotation; Water deficit

Gene expression related to drought response in the leaf tissues of two Brazilian upland cultivars, the drought-tolerant Douradão and the drought-sensitive Primavera, was analyzed. RNA-seq identified 27,618 transcripts in the Douradão cultivar, with 24,090 (87.2%) homologous to the rice database, and 27,221 transcripts in the Primavera cultivar, with 23,663 (86.9%) homologous to the rice ... more

R.D.D. Silveira; F.R.M. Abreu; S. Mamidi; P.E. McClean; R.P. Vianello; A.C. Lanna; N.P. Carneiro; C. Brondani
06/29/2015
Abiotic stress tolerance; cDNA-amplified fragment length polymorphism; Chaperones; Quantitative reverse transcription-polymerase chain reaction; Saccharum spp

Drought is one of the most frequent abiotic stresses limiting the productivity and geographical distribution of sugarcane culture. The use of drought-tolerant genotypes is one approach for overcoming the effects of water stress. We conducted a comparative study to identify gene expression profiles under water stress in tolerant sugarcane roots. Two different cultivars, 1 drought tolerant ... more

J.S. Vantini; G.C. Dedemo; D.F.Jovino Gimenez; L.F.S. Fonseca; R.I.D. Tezza; M.A. Mutton; J.A. Ferro; M.I.T. Ferro
10/02/2018
Chaperones; HSPs; Melipona interrupta

Heat shock proteins (HSPs) are highly conserved molecules across all plant and animal species. In insects, HSPs are expressed in response to biotic and abiotic stressors and have a well characterized expression pattern in response to heat stress, especially heat shock genes Hsp60, 70 and 90. Temperature affects many aspects of eusocial Hymenoptera, including the ... more

T.C.S. Siqueira; D.V. Brito; G.A. Carvalho-Zilse