BLAST

MaRDI QIDQ29194swMATHFDO

Official website https://blast.ncbi.nlm.nih.gov/Blast.cgi

Cited in

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• 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
• Decision trees for hierarchical multi-label classification
• Power analysis of database search using multiple scoring matrices
• Sequence alignment for masquerade detection
• Whole-genome prokaryotic clustering based on gene lengths
• Estimating the Gumbel scale parameter for local alignment of random sequences by importance sampling with stopping times
• Comparative protein structure modeling in genomics
• The combinatorics and extreme value statistics of protein threading
• ProTranslator
• ASTRAL-Pro
• eXist
• IntelliGEN
• BioGRID
• MultiProt
• GeneGrid
• 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
• COSMOS
• A methanogen hosted the origin of the genetic code
• SVMlight
• 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
• Cooperative ``folding transition in the sequence space facilitates function-driven evolution of protein families
• Non-linear models based on simple topological indices to identify RNase III protein members
• PSSM-Suc: accurately predicting succinylation using position specific scoring matrix into bigram for feature extraction
• 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
• 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
• In silico analysis of antibody triggering biofilm associated protein in \textit{Acinetobacter baumannii}
• 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
• iPHLoc-ES: identification of bacteriophage protein locations using evolutionary and structural features
• A randomized numerical aligner (rNA)
• Self-similarity analysis of eubacteria genome based on weighted graph
• 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
• Application of max-plus algebra to biological sequence comparisons
• svmPRAT
• 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
• Learning to rank on graphs
• MrBayes
• tRNAscan-SE
• MetaCyc
• MAFFT
• BioHEL
• DYANA
• Compositional properties of alignments
• Mathematical multidimensional modelling and structural artificial intelligence pipelines provide insights for the designing of highly specific antiSARS-CoV2 agents
• ScalaBLAST
• BLAST++
• Gbtk
• Soap
• SSAP
• TYLER, a fast method that accurately predicts cyclin-dependent proteins by using computation-based motifs and sequence-derived features
• CAP3
• Biomolecular topology: modelling and analysis
• RAPTOR
• MEGA
• Cell-PLoc
• Sequence graph transform (SGT): a feature embedding function for sequence data mining
• Weighted measures based on maximizing deviation for alignment-free sequence comparison
• SNAP
• mpiBLAST
• FASTA
• CSF4
• AutoDock
• PyMOL
• GridBlast
• PackageBLAST
• ProTranslator: zero-shot protein function prediction using textual description
• An \textit{in silico} exploration of the neutral network in protein sequence space
• Structuring of the genetic code took place at acidic pH
• 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
• 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
• Prediction of membrane protein types from sequences and position-specific scoring matrices
• Fine tuned exploration of evolutionary relationships within the protein universe
• HMMER

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