A bioinformatics analysis of alternative exon usage in human genes coding for extracellular matrix proteins
Authors: Noboru Jo Sakabe, Maria Dulcetti Vibranovski and Sandro Jos�© de Souza
Alternative splicing increases protein diversity through the generation of different mRNA molecules from the same gene. Although alternative splicing seems to be a widespread phenomenon in the human transcriptome, it is possible that different subgroups of genes present different patterns, related to their biological roles. An.. Read More»
- Genet. Mol. Res. 3(4):
A novel human G protein-coupled receptor is over-expressed in prostate cancer
Authors: Raphael B. Parmigiani, Geraldo S. Magalh�£es, Pedro A.F. Galante,Carina V.B. Manzini, Anamaria A. Camargo and Bettina Malnic
G protein-coupled receptors (GPCRs) are involved in a large variety of physiological functions. The number of known members that belong to this large family of receptors has been rapidly increasing. Now, with the availability of the human genome sequence databases, further family members are being identified. We describe the i.. Read More»
- Genet. Mol. Res. 3(4):
Splicing factors are differentially expressed in tumors
Authors: Natanja Kirschbaum-Slager, Graziela M.P. Lopes, Pedro A.F. Galante, Gregory J. Riggins and Sandro J. de Souza
Although alternative splicing of many genes has been found associated with different stages of tumorigenesis and splicing variants have been characterized as tumor markers, it is still not known whether these examples are sporadic or whether there is a broader association between the two phenomena. In this report we evaluated,.. Read More»
- Genet. Mol. Res. 3(4):
Identification and complete sequencing of novel human transcripts through the use of mouse orthologs and testis cDNA sequences
Authors: Elisa N. Ferreira, Lilian C. Pires, Raphael B. Parmigiani,Fabiana Bettoni, Renato D. Puga, Daniel G. Pinheiro,LuÃ?Âs Eduardo C. Andrade, Luciana O. Cruz, Theri L. Degaki,Milton Faria Jr., Fernanda Festa, Daniel Giannella-Neto,Ricardo R. Giorgi, Gustavo H. Goldman, Fabiana Granja,Arthur Gruber, Christine Hackel, FlÃ?¡vio Henrique-Silva,Bettina Malnic, Carina V.B. Manzini, Suely K.N. Marie14,Nilce M. Martinez-Rossi15, Sueli M. Oba-Shinjo14,Maria Ines M.C. Pardini16, Paula Rahal18, ClÃ?¡udia A.Rainho,Silvia R. Rogatto, Camila M. Romano, Vanderlei Rodrigues,Magaly M. Sales, Marcela Savoldi8, Ismael D.C.G. da Silva,Neusa P. da Silva, Sandro J. de Souza, Eloiza H. Tajara,Wilson A. Silva Jr, Andrew J.G. Simpson, Mari C. Sogayar,Anamaria A. Camargo and Dirce M. Carraro
The correct identification of all human genes, and their derived transcripts, has not yet been achieved, and it remains one of the major aims of the worldwide genomics community. Computational programs suggest the existence of 30,000 to 40,000 human genes. However, definitive gene identification can only be achieved by experim.. Read More»
- Genet. Mol. Res. 3(4):
Evaluation of window cohabitation of DNA sequencing errors and lowest PHRED quality values
Authors: Francisco Prosdocimi, Fabiano Cruz Peixoto and Jos�© Miguel Ortega
When analyzing sequencing reads, it is important to distinguish between putative correct and wrong bases. An open question is how a PHRED quality value is capable of identifying the miscalled bases and if there is a quality cutoff that allows mapping of most errors. Considering the fact that a low quality value does not necess.. Read More»
- Genet. Mol. Res. 3(4):
VSQual: a visual system to assist DNA sequencing quality control
Authors: Eliseu Binneck, Jo�£o Fl�¡vio V. Silva, Norman Neumaier,Jos�© Renato B. Farias and Alexandre L. Nepomuceno
A lack of pliant software tools that support small- to medium-scale DNA sequencing efforts is a major hindrance for recording and using laboratory workflow information to monitor the overall quality of data production. Here we describe VSQual, a set of Perl programs intended to provide simple and powerful tools to check severa.. Read More»
- Genet. Mol. Res. 3(4):
Comparative analysis of noncoding sequences of orthologous bovine and human gene pairs
Authors: Melissa Nunes Miziara, Penny K. Riggs and M. Elisabete J. Amaral
Genomic sequence comparison across species has enabled the elucidation of important coding and regulatory sequences encoded within DNA. Of particular interest are the noncoding regulatory sequences, which influence gene transcriptional and posttranscriptional processes. A phylogenetic footprinting strategy was employed to iden.. Read More»
- Genet. Mol. Res. 3(4):
Cross-contamination with tamoxifen induces transgene expression in non-exposed inducible transgenic mice
Authors: Rachael L. Brake, Paul J. Simmons and C. Glenn Begley
Inducible transgenic mouse models that impose a constraint on both temporal and spatial expression of a given transgene are invaluable. These animals facilitate experiments that can address the role of a specific cell or group of cells within an animal or in a particular window of time. A common approach to achieve inducibilit.. Read More»
- Genet. Mol. Res. 3(4):
Easy detection of green fluorescent proteinmulticopy transformants in Penicillium griseoroseum
Authors: Francis J.F. Lopes, Elza F. de Ara�ºjo and Marisa V. de Queiroz
Penicillium griseoroseum, a deuteromycete fungus producer of pectinolytic enzymes, was transformed with a gene encoding for green fluorescent protein (GFP). The selection of transformants was based on the homologous nitrate reductase gene (niaD). Protoplasts of a P. griseoroseum Nia mutant (PG63) were co-transformed with the p.. Read More»
- Genet. Mol. Res. 3(4):
Maternal influence on the acceptance of virgin queens introduced into Africanized honey bee (Apis mellifera) colonies
Authors: G. Moretto, J.C.V. Guerra, H. Kalvelage and E. Espindola
The oviposition potential of honey bee queens decreases with age, therefore it is important to replace old queens with younger ones on a periodic basis. However, queen replacement is problematic, especially in Africanized honey bee colonies, since many introduced queens are not accepted, and virgin queens are less easily accep.. Read More»
- Genet. Mol. Res. 3(3):