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Overlapping genetic codes for overlapping frameshifted genes in Testudines, and \textit{Lepidochelys olivacea} as special case ⋮ An efficient similarity search based on indexing in large DNA databases ⋮ Comparative analysis of protein primary sequences with graph energy ⋮ DUC-curve, a highly compact 2D graphical representation of DNA sequences and its application in sequence alignment ⋮ A methanogen hosted the origin of the genetic code ⋮ Predicting plant protein subcellular multi-localization by Chou's PseAAC formulation based multi-label homolog knowledge transfer learning ⋮ A method to distinguish between lysine acetylation and lysine methylation from protein sequences ⋮ Annotating the protein-RNA interaction sites in proteins using evolutionary information and protein backbone structure ⋮ Sequence graph transform (SGT): a feature embedding function for sequence data mining ⋮ A scheme for multiple sequence alignment optimization -- an improvement based on family representative mechanics features ⋮ TMBETADISC-RBF: discrimination of \(\beta\)-barrel membrane proteins using RBF networks and PSSM profiles ⋮ A protein fold classifier formed by fusing different modes of pseudo amino acid composition via PSSM ⋮ Predicting Golgi-resident protein types using pseudo amino acid compositions: approaches with positional specific physicochemical properties ⋮ An improved hybrid global optimization method for protein tertiary structure prediction ⋮ Weighted measures based on maximizing deviation for alignment-free sequence comparison ⋮ Unraveling the nature of the segmentation clock: Intrinsic disorder of clock proteins and their interaction map ⋮ SVM-based detection of distant protein structural relationships using pairwise probabilistic suffix trees ⋮ Classifying protein sequences using hydropathy blocks ⋮ A coprocessor architecture for fast protein structure prediction ⋮ Cooperative ``folding transition in the sequence space facilitates function-driven evolution of protein families ⋮ Detrended cross-correlation coefficient: application to predict apoptosis protein subcellular localization ⋮ Sequence-based discrimination of protein-RNA interacting residues using a probabilistic approach ⋮ ProTranslator: zero-shot protein function prediction using textual description ⋮ Non-linear models based on simple topological indices to identify RNase III protein members ⋮ Progressive clustering based method for protein function prediction ⋮ An \textit{in silico} exploration of the neutral network in protein sequence space ⋮ A representation theorem for (\(q\)-)holonomic sequences ⋮ Evidence theoretic protein fold classification based on the concept of hyperfold ⋮ Investigations into refinements of Storey's method of multiple hypothesis testing minimising the FDR, and its application to test binomial data ⋮ Numerical characteristics of word frequencies and their application to dissimilarity measure for sequence comparison ⋮ Better spaced seeds using quadratic residues ⋮ Bioinformatics. Volume II: structure, function, and applications ⋮ Structuring of the genetic code took place at acidic pH ⋮ Evolutionary decision rules for predicting protein contact maps ⋮ PSSM-Suc: accurately predicting succinylation using position specific scoring matrix into bigram for feature extraction ⋮ Prediction of potential thermostable proteins in \textit{Xylella fastidiosa} ⋮ Pseudo amino acid composition and multi-class support vector machines approach for conotoxin superfamily classification ⋮ At2-AT3-profiling: a new look at synonymous codon usage ⋮ PSIST: a scalable approach to indexing protein structures using suffix trees ⋮ Synergy of multi-label hierarchical ensembles, data fusion, and cost-sensitive methods for gene functional inference ⋮ Walking through protein sequence space ⋮ The evolution of the genetic code took place in an anaerobic environment ⋮ New motifs within the NB-ARC domain of R proteins: probable mechanisms of integration of geminiviral signatures within the host species of fabaceae family and implications in conferring disease resistance ⋮ Randomized probe selection algorithm for microarray design ⋮ Predicting apoptosis protein subcellular localization by integrating auto-cross correlation and PSSM into Chou's PseAAC ⋮ Mathematical chemistry illustrations: a personal view of less known results ⋮ Identify Gram-negative bacterial secreted protein types by incorporating different modes of PSSM into Chou's general PseAAC via Kullback-Leibler divergence ⋮ Convex hull analysis of evolutionary and phylogenetic relationships between biological groups ⋮ Learning to rank on graphs ⋮ A feature extraction technique using bi-gram probabilities of position specific scoring matrix for protein fold recognition ⋮ Correlation between sequence, structure and function for trisporoid processing proteins in the model zygomycete \textit{Mucor mucedo} ⋮ Probing the protein space for extending the detection of weak homology folds ⋮ Comparative genomics study of \textit{Salmonella Typhimurium} LT2 for the identification of putative therapeutic candidates ⋮ New method for global alignment of 2 DNA sequences by the tree data structure ⋮ DRESS: dimensionality reduction for efficient sequence search ⋮ Prediction of RNA-protein interactions by combining deep convolutional neural network with feature selection ensemble method ⋮ \textit{In silico} analysis of \textit{plasmodium falciparum} CDPK5 protein through molecular modeling, docking and dynamics ⋮ MFSC: multi-voting based feature selection for classification of Golgi proteins by adopting the general form of Chou's PseAAC components ⋮ Prediction of membrane protein types from sequences and position-specific scoring matrices ⋮ In silico analysis of antibody triggering biofilm associated protein in \textit{Acinetobacter baumannii} ⋮ Fast profile matching algorithms - A survey ⋮ An efficient genomic signature ranking method for genomic island prediction from a single genome ⋮ SecretP: identifying bacterial secreted proteins by fusing new features into Chou's pseudo-amino acid composition ⋮ Shuffling biological sequences with motif constraints ⋮ Identification and analysis of mammalian KLK6 orthologue genes for prediction of physiological substrates ⋮ Subsequence-based feature map for protein function classification ⋮ Prediction of small, noncoding RNAs in bacteria using heterogeneous data ⋮ Sequence alignment with arbitrary steps and further generalizations, with applications to alignments in linguistics ⋮ Fine tuned exploration of evolutionary relationships within the protein universe ⋮ iPHLoc-ES: identification of bacteriophage protein locations using evolutionary and structural features ⋮ A randomized numerical aligner (rNA) ⋮ Co-evolution and information signals in biological sequences ⋮ Prediction of protein interaction hot spots using rough set-based multiple criteria linear programming ⋮ Multi-kernel transfer learning based on Chou's PseAAC formulation for protein submitochondria localization ⋮ Finite-size corrections to Poisson approximations in general renewal-success processes ⋮ Self-similarity analysis of eubacteria genome based on weighted graph ⋮ Fine-grained parallel RNA secondary structure prediction using SCFGs on FPGA ⋮ Normalized global alignment for protein sequences ⋮ A potential in silico antibody-antigen based diagnostic test for precise identification of \textit{Acinetobacter baumannii} ⋮ The origin of the genetic code in the ocean abysses: new comparisons confirm old observations ⋮ Overlapping genes coded in the 3'-to-5'-direction in mitochondrial genes and 3'-to-5' polymerization of non-complementary RNA by an `invertase' ⋮ In silico docking reveals possible riluzole binding sites on Nav1.6 sodium channel: implications for amyotrophic lateral sclerosis therapy ⋮ Length of the hypermutation motif DGYW/WRCH in the focus of statistical limits. Implications for a double-motif or extended motif recognition models ⋮ In silico analyses of a new group of fungal and plant RecQ4-homologous proteins ⋮ A method for discovering transmembrane beta-barrel proteins in Gram-negative bacterial proteomes ⋮ A feature vector integration approach for a generalized support vector machine pairwise homology algorithm ⋮ Prediction of Golgi-resident protein types using general form of Chou's pseudo-amino acid compositions: approaches with minimal redundancy maximal relevance feature selection ⋮ Sequence-based predictor of ATP-binding residues using random forest and mrmr-IFS feature selection ⋮ Decision trees for hierarchical multi-label classification ⋮ Power analysis of database search using multiple scoring matrices ⋮ On the retention of gene duplicates prone to dominant deleterious mutations ⋮ Sequence alignment for masquerade detection ⋮ Whole-genome prokaryotic clustering based on gene lengths ⋮ Compositional properties of alignments ⋮ Mathematical multidimensional modelling and structural artificial intelligence pipelines provide insights for the designing of highly specific antiSARS-CoV2 agents ⋮ Estimating the Gumbel scale parameter for local alignment of random sequences by importance sampling with stopping times ⋮ \textit{Pin-Align}: a new dynamic programming approach to align protein-protein interaction networks ⋮ TYLER, a fast method that accurately predicts cyclin-dependent proteins by using computation-based motifs and sequence-derived features ⋮ Comparative protein structure modeling in genomics ⋮ Application of max-plus algebra to biological sequence comparisons

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