Current Bioinformatics - Volume 15, Issue 3, 2020

Background: Cancer treatment is expensive and results in a lot of side effects, and thus survival prediction is necessary for the patients as well as the clinician. Data mining technology has been used in the medical domain to extract interesting information. Cancer prognosis is such an application in medicine. Objective: This study focuses on identifying the technologies used in the recent past for predicting the survival o Read More

Aims: The proposed method falls into the category of medical image processing. Background: Computer-aided automatic analysis systems for the analysis and cytometry of leukocyte (White Blood Cells, WBCs) in human blood smear images are a powerful diagnostic tool for many types of diseases, such as anemia, malaria, syphilis, heavy metal poisoning, and leukemia. Leukocyte segmentation is a basis of its automatic an Read More

Background: Previous methods used to discover cis-regulatory motifs in promoter region of plant genes possess very limited performance, especially for analysis of novel and rare motifs. Different plant genes have differential expression under different environmental or experimental conditions and modular regulation of cis-regulatory sequences in promoter regions of the same or different genes. It has previously bee Read More

Background: The knowledge of subcellular location of proteins is essential to the comprehension of numerous protein functions. Objective: Accurate as well as computationally efficient and reliable automated analysis of protein localization imagery greatly depend on the calculation of features from these images. Methods: In the current work, a novel method termed as MD-LBP is proposed for feature extraction from fl Read More

Background: Various regularization methods have been proposed to improve the prediction accuracy in cancer diagnosis. Elastic net regularized logistic regression has been widely adopted for cancer classification and gene selection in genetics and molecular biology but is commonly applied to binary classification and regression. However, usually, the cancer subtypes can be more, and most likely cannot be decided precisely. Read More

Objective: Based on bioinformatics, differentially expressed gene data of drug-resistance in gastric cancer were analyzed, screened and mined through modeling and network modeling to find valuable data associated with multi-drug resistance of gastric cancer. Methods: First, data sets were preprocessed from three aspects: data processing, data annotation and classification, and functional clustering. Secondly, based o Read More

Background: Post-translational modification is one of the bio-molecular mechanisms in living organisms, which incorporate functional diversity in proteins as well as regulate cellular processes. Transformation of arginine residue to citrulline in protein is such a modification. Objective: Our objective is to identify citrullinated arginine residue sites quickly and accurately. Methods: In this study, a novel computational tool, abbr Read More

Background: Immune reaction is the most important defense mechanism for destroying invading pathogens in our body, and the epitope is the position of the antigen–antibody interaction on pathogenic proteins. Objective: The majority of epitopes are structural; however, the existing sequence-based predicting websites still have several methods to improve the predicting performance. Therefore, in this study, we used Read More

Background: Cancer is a genetic disease caused by the accumulation of gene mutations. It is important to derive the number of driver mutations that are needed for the development of human breast cancer, which may provide insights into the tumor diagnosis and therapy. Objective: This work is designed to investigate whether there is any difference for the mutation mechanism of breast cancer between the patients in th Read More

Background: Mutations in a protein called the Epidermal Growth Factor Receptor (EGFR) can cause Non-Small Cell Lung Cancer (NSCLC), which is the most common form of lung cancer. Many NSCLC cases arise from the L858R mutation, where Leucine (L) is replaced by arginine (R) at the 858th position in the EGFR, and that is also recognized as an exon 21 substitution. Moreover, half of the EKFR-mutated lung cancer patie Read More