AI Medical Compendium Journal:
Journal of theoretical biology

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Enhanced prediction of recombination hotspots using input features extracted by class specific autoencoders.

Journal of theoretical biology
In yeast and in some mammals the frequencies of recombination are high in some genomic locations which are known as recombination hotspots and in the locations where the recombination is below average are consequently known as coldspots. Knowledge of...

EvoStruct-Sub: An accurate Gram-positive protein subcellular localization predictor using evolutionary and structural features.

Journal of theoretical biology
Determining subcellular localization of proteins is considered as an important step towards understanding their functions. Previous studies have mainly focused solely on Gene Ontology (GO) as the main feature to tackle this problem. However, it was s...

PREvaIL, an integrative approach for inferring catalytic residues using sequence, structural, and network features in a machine-learning framework.

Journal of theoretical biology
Determining the catalytic residues in an enzyme is critical to our understanding the relationship between protein sequence, structure, function, and enhancing our ability to design novel enzymes and their inhibitors. Although many enzymes have been s...

iMem-2LSAAC: A two-level model for discrimination of membrane proteins and their types by extending the notion of SAAC into chou's pseudo amino acid composition.

Journal of theoretical biology
Membrane proteins execute significant roles in cellular processes of living organisms, ranging from cell signaling to cell adhesion. As a major part of a cell, the identification of membrane proteins and their functional types become a challenging jo...

The neuromorphological caudate-putaminal clustering of neostriate interneurons: Kohonen self-organizing maps and supervised artificial neural networks with multivariate analysis.

Journal of theoretical biology
AIMS: The objective of this study is to investigate the possibility of the neuromorphotopological clustering of neostriate interneurons (NSIN) and their consequent classification into caudate (CIN) and putaminal neuron type (PIN), according to the nu...

Prediction of protein subcellular localization with oversampling approach and Chou's general PseAAC.

Journal of theoretical biology
Predicting protein subcellular location with support vector machine has been a popular research area recently because of the dramatic explosion of bioinformation. Though substantial achievements have been obtained, few researchers considered the prob...

MoRFPred-plus: Computational Identification of MoRFs in Protein Sequences using Physicochemical Properties and HMM profiles.

Journal of theoretical biology
MOTIVATION: Intrinsically Disordered Proteins (IDPs) lack stable tertiary structure and they actively participate in performing various biological functions. These IDPs expose short binding regions called Molecular Recognition Features (MoRFs) that p...

iPHLoc-ES: Identification of bacteriophage protein locations using evolutionary and structural features.

Journal of theoretical biology
Bacteriophage proteins are viruses that can significantly impact on the functioning of bacteria and can be used in phage based therapy. The functioning of Bacteriophage in the host bacteria depends on its location in those host cells. It is very impo...

Bi-PSSM: Position specific scoring matrix based intelligent computational model for identification of mycobacterial membrane proteins.

Journal of theoretical biology
Mycobacterium is a pathogenic bacterium, which is a causative agent of tuberculosis (TB) and leprosy. These diseases are very crucial and become the cause of death of millions of people every year in the world. So, the characterize structure of membr...

Protein-protein interaction site predictions with minimum covariance determinant and Mahalanobis distance.

Journal of theoretical biology
Protein-protein interaction site (PPIS) prediction must deal with the diversity of interaction sites that limits their prediction accuracy. Use of proteins with unknown or unidentified interactions can also lead to missing interfaces. Such data error...