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Application of latent semantic indexing to evaluate the similarity of sets of sequences without multiple alignments character-by-character
Authors: Couto BRGM, Ladeira AP and Santos MA
Most molecular analyses, including phylogenetic inference, are based on sequence alignments. We present an algorithm that estimates relatedness between biomolecules without the requirement of sequence alignment by using a protein frequency matrix that is reduced by singular value decomposition (SVD), in a latent semanrelattic .. Read More»
- Genet. Mol. Res. 6(4):
A simple genetic algorithm for multiple sequence alignment
Authors: Gondro C and Kinghorn BP
Multiple sequence alignment plays an important role in molecular sequence analysis. An alignment is the arrangement of two (pairwise alignment) or more (multiple alignment) sequences of ‘residues’ (nucleotides or amino acids) that maximizes the similarities between them. Algorithmically, the problem consists of ope.. Read More»
- Genet. Mol. Res. 6(4):
Analysis and comparison of clinicohematological parameters and molecular and cytogenetic response of two Bcr/Abl fusion transcripts
Authors: S. Polampalli1, A. Choughule2, N. Negi1, S. Shinde2, C. Baisane3, P. Amre3, P.G. Subramanian2, S. Gujral2, K. Prabhash1 and P. Parikh1
Different forms of p210 are produced by alternative splicing, namely b2a2 and b3a2. There have been many contrasting data establishing a relationship between the two Bcr/Abl transcripts and platelet counts and also response to treatment. However, the data published to date have been on a small group of patients. The aim of the present study was to determi.. Read More»
- Genet. Mol. Res. 7(4):
- vol7-4gmr485
- DOI:
- 10.4238/vol7-4gmr485
Finding protein-protein interaction patterns by contact map matching
Authors: Melo RC, Ribeiro C, Murray CS, Veloso CJM, da Silveira CH, Neshich G, Meira Jr. W, Carceroni RL and Santoro MM
We propose a novel method for defining patterns of contacts present in protein-protein complexes. A new use of the traditional contact maps (more frequently used for representation of the intra-chain contacts) is presented for analysis of inter-chain contacts. Using an algorithm based on image processing techniques, we can com.. Read More»
- Genet. Mol. Res. 6(4):
BNDb - Biomolecules Nucleus Database: an integrated proteomics and transcriptomics database
Authors: Faria-Campos AC, Gomes RR, Moratelli FS, Rausch-Fernandes H, Franco GR and Campos SVA
Proteomics correspond to the identification and quantitative analysis of proteins expressed in different conditions or life stages of a cell or organism. Methods used in proteomics analysis include mainly chromatography, two-dimensional electrophoresis and mass spectrometry. Data generated in proteomics analysis vary significa.. Read More»
- Genet. Mol. Res. 6(4):
Gene expression profiling of epithelial ovarian cancer reveals key genes and pathways associated with chemotherapy resistance
Authors: M. Zhang and S.C. Luo
The aim of this study is to analyze gene expression data to identify key genes and pathways associated with resistance to platinum-based chemotherapy in epithelial ovarian cancer (EOC) and to improve clinical treatment strategies. The gene expression data set was downloaded from Gene Expression Omnibus and included 12 chemotherapy-resistant EOC samples an.. Read More»
- Genet. Mol. Res. 15(1):
- gmr.15017496
- DOI:
- 10.4238/gmr.15017496
Brazilian Nelore cattle: a melting pot unfolded by molecular genetics
Authors: M.A.C. Dani1, M.B. Heinneman2 and S.U. Dani1
The aim of the present article was to study the population structure and genetic diversity of Nelore cattle and genetic relationships between Nelore and different taurine and zebu breeds raised in Brazil. DNA polymorphism analysis was carried out with 1976 animals of 16 zebu, taurine and synthetic breeds raised in Brazil. A higher genetic differentiation .. Read More»
- Genet. Mol. Res. 7(4):
- vol7-4gmr499
- DOI:
- 10.4238/vol7-4gmr499
Diversity and genetic structure of mangaba remnants in states of northeastern Brazil
Authors: J.A.E. Amorim, L.R. Mata, A.S. L�©do, V.C.R. Azevedo andA.V.C. Silva
In this study, we analyzed the genetic diversity and structure of remnants of mangaba populations in states of northeastern Brazil by applying 9 microsatellite markers previously developed to establish conservation strategies for germplasm and species preservation. Six to 20 individuals per population were analyzed, with a total of 94 individuals and 6 po.. Read More»
- Genet. Mol. Res. 14(1):
- 2015.February.2.7
- DOI:
- 10.4238/2015.February.2.7
Distribution and clinal trends of the ABO and Rh genes in select Middle Eastern countries
Authors: E.S. AlSuhaibani, N.A. Kizilbash, K. Afshan and S. Malik
An understanding of the ABO and Rh blood group systems is important for blood transfusions and is also pertinent due to their potential association with certain morbidities and susceptibilities to infections. To investigate the diversity and differentiation of the ABO and Rh loci in Middle Eastern populations, data from twelve representative Middle Easter.. Read More»
- Genet. Mol. Res. 14(3):
- http://dx.doi.org/2015.September.9.12
- DOI:
- http://dx.doi.org/10.4238/2015.September.9.12
Protective effect and mechanism of hydrogen treatment on lung epithelial barrier dysfunction in rats with sepsis
Authors: L.-D. Liu, X.-Y. Wu, B.-D. Tao, N. Wang and J. Zhang
This study aimed to explore the protective effect of hydrogen and to investigate the underlying mechanism of its preliminary effect on the alveolar epithelial barrier function in septic rats. Forty-five male Sprague-Dawley rats were divided randomly into three groups (N = 15): control [saline injection (intraperitoneal, ip), air drawing; SA], acute lung i.. Read More»
- Genet. Mol. Res. 15(1):
- gmr.15016050
- DOI:
- 10.4238/gmr.15016050