INDEX

Activation Loop

Active site

Adaptive crossover probability

Adaptive mutation probability

Adjacency matrix

ADMET

Affinity purification

Alignment Kernel

All Pair Sum Kernel

Angle bending energy

Ant Colony Optimization (ACO)

Approximate subgraph

Argonaute

Artificial Immune Systems

ASA

Association density

Attributed Pointsets

Bacterial Foraging Optimization Algorithm (BFOA)

Bayes classifier

Bayesian Network

Bees Foraging Algorithm

Belief Networks

Betweenness centrality

Bhattacharya distance

Binding DB

Biological significance test

BLAST

Bond stretching energy

Cambridge Structural Database (CSD)

Cancer classification

CFP

Chaos Theory

Chembank

Chromosome

Class separability

Classification accuracy

Classifiers

Clique

Cluster Profile Plot

Clustering coefficient

Clustering

Cmalign

Cmbuild

Cmsearch

Complexity analysis

Computation time

Conformational entropy

Conformational plasticity

ConQuest

Core clustering coefficient

Covariance model (CM)

Cross comparison

Crossover

Cyclin dependant kinase (CDK)

Czekanowski-Dice (CD) distance

Cα-Cα deviation

Databases

EPD

Promec DB

Regulon DB

Data fusion

Data sets

Drosophila

E.coli

Decision tree classifier

Degree distribution

Degree

Dense k-subnetwork

DIANA-microT

Differential Evolution (DE)

Differential Evolution based Fuzzy Clustering

Direct Alignment Kernel

Discriminant analysis

Disease genes

Distance Matrix

Divergence function

Double-stranded region

Eisen Plot

Electrostatic interaction energy

Elitism

ERK

Error probability

Evolutionary Algorithms

Evolutionary conservation

FatiGO

Features

cross-correlation

encoding

k-mers

n-grams

physical

Feature extraction

expectation and maximization

genetic algorithm

global signal based methods

hidden Markov model

local signal based methods

position weight matrix

Filter and wrapper approach

Fitness function

FlyBase

Free energy

Frequent subgraph mining

FRET

Full alignment in Rfam

Fuzzy clustering

Fuzzy C-Means

Fuzzy Sets

Gene Expression Data Sets

Gene expression

Gene marker

Gene ontology (GO)

Gene prioritization

Genetic algorithm (GA)

Genetic Algorithm based Fuzzy Clustering

GLEAN-UTR DB

Granular computing

Graph alignment

Graph database

Graph mining

Graph representation

Graph similarity

α C helix

Hidden Markov Model (HMM)

Histone 3′-UTR stem-loop (HSL3)

H-NMR

Homolog

Homologous RNA

Homology

Human protein reference database (HPRD)

Hybrid Systems

Hydrogen bonding

I index

Infernal

Insight II

Insulin Receptor kinase (IRK)

Inter molecular interaction energy

Intra molecular energy

Iron response element (IRE)

JM distance

k-block

k-core

KEGG pathways

kernel function

Kernel Methods

K-Means clustering

k-NN classifier

Kolmogorov distance

k-plex

Lead molecule

Ligand design

Linear kernel

Linear regression

Lipinski rule of five

Mahalanobis distance

Majority voting ensemble

Marginalized kernel

Matching kernel

MEDLINE

messenger RNA (mRNA)

microarray

microarray data set

microRNA

microRNAdb

MicroTar

miRanda

miRBase

Mirecords

miRNA

miRNAMAP

miTarget

Mitogen Activated Protein kinase (MAPK)

Multiobjective feature selection

Multiobjective genetic algorithm

Multiple sequence alignment

MUSTANG

Mutation

MXSCARNA

Naïve Bayesian

n-clan

ncRNA

ncRNA

Neighborhood Pair Sum Kernel

Neural network classifier

Neural Networks

non-coding RNA (ncRNA)

noncoding RNA

NSGA-II

oncogene

Optimal assignment kernel

Optimization

Optimization

Pairwise Distance Kernel

ParPSBKM clustering

Particle Swarm Optimization (PSO)

Pathway

Pattern diffusion

Pattern recognition

Consensus

motif

PB score

PDB

Performance measures

accuracy

positive predictive value (PPV)

precision

sensitivity

specificity

Permutation Sum Kernel

Phenotype

PI

PicTar

PITA

Point symmetry-based distance

Point-Symmetry

polynomial kernel

PPI–330

pre-miRNA

pri-miRNA

Promoter

binding sites

eukaryote

hexamer

prokaryote

TATA box

Prostate cancer

Protein blocks (PB)

Protein kinase A (PKA)

Protein-protein interactions

Proximity measure

PSTAIRE

PubChem

p-Values

PyMol

γ-quasi-biclique

γ-quasi-clique

γ-quasi-complete network

Qualitative structure-activity relationship

(QSAR)

Quantitative Structure Activity Relationship (QSAR)

RADAR

Radial basis function (RBF)

Random forests

Representative Residue Kernel

Rfam database

Rfam

RIP

RmotifDB

RNA motif database

RNA secondary structure

RNA structural motif

RNA structure database

RNA

RNA22

RNAhybrid

RNAz

Root Mean Square Deviation (RMSD)

Rough Sets

roX1

RSA

RSmatch

Scalability

Scale-free property

Scoring function

Secondary structure

Seed alignment in Rfam

Sequence conservation

Sequence neighborhood

Sigmoidal kernel

Signal-to-noise ratio (SNR)

Signal processing

Fourier transform (FT)

wavelet transform

Silhouette

Simulated Annealing based Fuzzy Clustering

Single-stranded region

Smith–Waterman algorithm

Soft computing

Spectral Neighborhood Kernel

Spectral Projection Vector

Stochastic context-free grammar

Stockholm format

Structural Alignment

Structure Neighborhood

Structure-based search engine

Structured Data

Superposition

Support vector machine (SVM)

SVM

Symmetry

Symmetry-based distance

Syntactic approach

Systems biology

TarBase

TargetScan

Template matching

Time complexity

Timing analysis

Torsional energy

transcripts

tumor suppressor gene

Type 2 Fuzzy Sets

Validity analysis

Van der Waals energy

Vienna RNA package

Vienna RNA secondary structure library

Vienna style dot bracket format

Wavelet analysis

Web server

Whole genome analysis

Wilcoxon’s rank sum test

X-ray crystallography

Yeast two-hybrid system