Bioinformatics

Resolving a human identification case for the Rio de Janeiro Police with massively parallel sequencing of mtDNA using a proposed pipeline

C. Bottino, Silva, R., and Moura-Neto, R. S., “Resolving a human identification case for the Rio de Janeiro Police with massively parallel sequencing of mtDNA using a proposed pipeline”, Genetics and Molecular Research, vol. 20, no. 1, 2021.

miRQuest: integration of tools on a Web server for microRNA research

R. R. Aguiar, Ambrosio, L. A., Sepúlveda-Hermosilla, G., Maracaja-Coutinho, V., Paschoal, A. R., Aguiar, R. R., Ambrosio, L. A., Sepúlveda-Hermosilla, G., Maracaja-Coutinho, V., Paschoal, A. R., Aguiar, R. R., Ambrosio, L. A., Sepúlveda-Hermosilla, G., Maracaja-Coutinho, V., and Paschoal, A. R., “miRQuest: integration of tools on a Web server for microRNA research”, vol. 15, p. -, 2016.

This report describes the miRQuest - a novel middleware available in a Web server that allows the end user to do the miRNA research in a user-friendly way. It is known that there are many prediction tools for microRNA (miRNA) identification that use different programming languages and methods to realize this task. It is difficult to understand each tool and apply it to diverse datasets and organisms available for miRNA analysis. miRQuest can easily be used by biologists and researchers with limited experience with bioinformatics.

Differentiated evolutionary relationships among chordates from comparative alignments of multiple sequences of MyoD and MyoG myogenic regulatory factors

L. C. Oliani, Lidani, K. C. F., and Gabriel, J. E., “Differentiated evolutionary relationships among chordates from comparative alignments of multiple sequences of MyoD and MyoG myogenic regulatory factors”, vol. 14, pp. 12561-12566, 2015.

MyoD and MyoG are transcription factors that have essential roles in myogenic lineage determination and muscle differentiation. The purpose of this study was to compare multiple amino acid sequences of myogenic regulatory proteins to infer evolutionary relationships among chordates.

Identification of molecular markers related to human alveolar bone cells and pathway analysis in diabetic patients

X. Sun, Ren, Q. H., Bai, L., and Feng, Q., “Identification of molecular markers related to human alveolar bone cells and pathway analysis in diabetic patients”, vol. 14, pp. 13476-13484, 2015.

Alveolar bone osteoblasts are widely used in dental and related research. They are easily affected by systemic diseases such as diabetes. However, the mechanism of diabetes-induced alveolar bone absorption remains unclear. This study systematically explored the changes in human alveolar bone cell-related gene expression and biological pathways, which may facilitate the investigation of its mechanism. Alveolar bone osteoblasts isolated from 5 male diabetics and 5 male healthy adults were cultured. Total RNA was extracted from these cells and subjected to gene microarray analysis.

Exploring laccase genes from plant pathogen genomes: a bioinformatic approach

B. Z. Feng, Li, P. Q., Fu, L., and Yu, X. M., “Exploring laccase genes from plant pathogen genomes: a bioinformatic approach”, vol. 14, pp. 14019-14036, 2015.

To date, research on laccases has mostly been focused on plant and fungal laccases and their current use in biotechnological applications. In contrast, little is known about laccases from plant pathogens, although recent rapid progress in whole genome sequencing of an increasing number of organisms has facilitated their identification and ascertainment of their origins.

Cloning and sequence analysis of the LOC339524 gene in Sprague-Dawley rats

Z. H. Long, Li, H., Chen, F., and Zou, L. Y., “Cloning and sequence analysis of the LOC339524 gene in Sprague-Dawley rats”, vol. 14, pp. 16577-16584, 2015.

We cloned the LOC339524 gene in Sprague-Dawley (SD) rats and analyzed the structure and function of the protein encoded by it. Based on the known human LOC339524 gene sequences, the full-length coding sequence of the LOC339524 gene in SD rats was cloned and amplified by the polymerase chain reaction using the complementary DNA of SD rats as a template. Bioinformatics analysis showed that the length of the cloned LOC339524 gene (GenBank accession No. KM224520) was 831 bp and it encoded a deduced protein of 276 amino acids.

Computational identification and characterization of conserved miRNAs and their target genes in beet (Beta vulgaris)

J. L. Li, Cui, J., and Cheng, D. Y., “Computational identification and characterization of conserved miRNAs and their target genes in beet (Beta vulgaris)”, vol. 14, pp. 9103-9108, 2015.

Highly conserved endogenous non-coding microRNAs (miRNAs) play important roles in plants and animals by silencing genes via destruction or blocking of translation of homologous mRNA. Sugar beet, Beta vulgaris, is one of the most important sugar crops in China, with properties that include wide adaptability and strong tolerance to salinity and impoverished soils. Seedlings of B.

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