Gene Class Expression: analysis tool of Gene Ontology terms with gene expression data
Authors: Gislaine S.P. Pereira, Rodrigo M. Brand?£o, Silvana Giuliatti, Marco A. Zago and Wilson A. Silva Jr.
Serial analysis of gene expression (SAGE) technology produces large sets of interesting genes that are difficult to analyze directly. Bioinformatics tools are needed to interpret the functional information in these gene sets. We present an interactive web-based tool, called Gene Class, which allows functional annotation of SAG.. Read More»
- Genet. Mol. Res. 5(1):
A new algorithm to construct phylogenetic networks from trees
Authors: J. Wang
Developing appropriate methods for constructing phylogenetic networks from tree sets is an important problem, and much research is currently being undertaken in this area. BIMLR is an algorithm that constructs phylogenetic networks from tree sets. The algorithm can construct a much simpler network than other available methods... Read More»
- Genet. Mol. Res. 13(1):
- http://dx.doi.org/2014.March.6.4
- DOI:
- http://dx.doi.org/10.4238/2014.March.6.4
CD40 functional gene polymorphisms and mRNA expression in rheumatoid arthritis patients from western Mexico
Authors: I.V. Rom?¡n-Fern?¡ndez, D.F. ?vila-Castillo, S. Cerpa-Cruz,S. Guti?©rrez-Ure?±a, J. Hern?¡ndez-Bello, J.R. Padilla-Guti?©rrez, Y. Valle, M.G. Ram?rez-Due?±as, A.L. Pereira-Su?¡rez and J.F. Mu?±oz-Valle
The CD40 pathway is involved in the development and pathogenesis of autoimmune diseases, including rheumatoid arthritis (RA). Two single nucleotide polymorphisms (SNPs) in the CD40 gene, rs1883832 and rs4810485, are associated with susceptibility to inflammatory and autoimmune diseases and are thought to alter CD40 expression .. Read More»
- Genet. Mol. Res. 15(4):
- gmr15048775
- DOI:
- 10.4238/gmr15048775
SpotWhatR: a user-friendly microarray data analysis system
Authors: Tie Koide, Silvia M. Salem-Izacc, Suely L. Gomes and Ricardo Z.N. V?ªncio
SpotWhatR is a user-friendly microarray data analysis tool that runs under a widely and freely available R statistical language (http://www.r-project.org) for Windows and Linux operational systems. The aim of SpotWhatR is to help the researcher to analyze microarray data by providing basic tools for data visualization, normali.. Read More»
- Genet. Mol. Res. 5(1):
Analysis of ELOVL4 and PRPH2 genes in Turkish Stargardt disease patients
Authors: H. Bardak, M. Gunay, Y. Er?§al?±k, Y. Bardak, H. Ozbas, O. Bagci,A. Ayata, M. S?¶nmez and C. Alag?¶z
Stargardt disease (STGD) is an inherited genetic eye condition involving bilateral macular dystrophy leading to progressive central vision loss. It is the most common form of autosomal recessive juvenile macular dystrophy. In this study, ELOVL4 and PRPH2 genes were analyzed in 30 STGD probands for genetic variations using next.. Read More»
- Genet. Mol. Res. 15(4):
- gmr15048774
- DOI:
- 10.4238/gmr15048774
Identification and characterization of microRNAs expressed in chicken skeletal muscle
Authors: A.P.D. Andreote, M.F. Rosario, M.C. Ledur, E.C. Jorge,T.S. Sonstegard, L. Matukumalli and L.L. Coutinho
MicroRNAs (miRNAs, miRs) encompass a class of small non-coding RNAs that often negatively regulate gene expression. miRNAs play an essential role in skeletal muscle, determining the proper development and maintenance of this tissue. In comparison to other organs and tissues, the full set of muscle miRNAs and its expression pat.. Read More»
- Genet. Mol. Res. 13(1):
- http://dx.doi.org/2014.March.6.5
- DOI:
- http://dx.doi.org/10.4238/2014.March.6.5
Use of fluorescent-based amplified fragment length polymorphism to resolve phylogenetic relationships of Colchicum species from Turkey
Authors: ??. Karaka?? Metin, M. T?¼rkta??, F. Ertu??rul and E. Kaya
The study of phylogenetic relationships between 14 Colchicum taxa spread throughout Turkey was performed using a fluorescent-based amplified fragment length polymorphism (AFLP) technique. Five primer pair combinations were used in AFLP reactions. The data set was analyzed statistically using the NTSYS 2.1 software, and the nei.. Read More»
- Genet. Mol. Res. 13(1):
- http://dx.doi.org/2014.March.6.6
- DOI:
- http://dx.doi.org/10.4238/2014.March.6.6
Sequencing of Gag/Env association with HIV genotyping resolution and HIV-related epidemiologic studies of HIV in China
Authors: L. Ren, H.W. Wang, Y. Xu, Y. Feng, H.F. Zhang and K.H. Wang
HIV genotyping has led to conflicting results between laboratories. Therefore, identifying the most accurate gene combinations to sequence remains a priority. Datasets of Chinese HIV subtypes based on several markers and deposited in PubMed, Metstr, CNKI, and VIP databases between 2000 and 2015 were studied. In total, 9177 cas.. Read More»
- Genet. Mol. Res. 15(4):
- gmr15048870
- DOI:
- 10.4238/gmr15048870
Heat-resistant protein expression during germination of maize seeds under water stress
Authors: V.M. Abreu, I.C. Silva Neta, E.V.R. Von Pinho, G.M.F. Naves, R.M. Guimar?£es, H.O. Santos and R.G. Von Pinho
Low water availability is one of the factors that limit agricultural crop development, and hence the development of genotypes with increased water stress tolerance is a challenge in plant breeding programs. Heat-resistant proteins have been widely studied, and are reported to participate in various developmental processes and to accumulate in response to .. Read More»
- Genet. Mol. Res. 15(3):
- gmr.15038535
- DOI:
- 10.4238/gmr.15038535
Phylogeny of the Southwest Asian Pimpinella and related genera based on nuclear and plastid sequences
Authors: S. Fereidounfar, F. Ghahremaninejad and M. Khajehpiri
Pimpinella L. is a large genus and arguably one of the most complex genera in the family Apiaceae. In this study, the infra-generic relationship between Southwest Asian Pimpinella species and their generic allies in the tribe Pimpinelleae Spreng were investigated using sequence data from the cpDNA (chloroplast DNA) rps16 exon .. Read More»
- Genet. Mol. Res. 15(4):
- gmr15048767
- DOI:
- 10.4238/gmr15048767