Gene Identification
and Functional Classification of the Hookworm Genome |
Support
Vector machine and Clique based Approach for Feature Selection in
Protein Profiles |
Linking
of Chromosomes During Interphase |
Identification,
combination and implementation of linguistic fuzzy rules in acute
leukemia using gene expression and covariate data |
Accurate
Sequence-Structure Alignment of Multiple RNA Sequences |
Structural
information greatly improves the accuracy of protein interactions
inferred from homology |
RNA Structure
Evolution and Transducer Composition |
Glycosylation
Site Prediction Using Machine Learning Approaches |
miRTar:
a fast and efficient microRNA target prediction web server |
PTM-X:
an Integrated Platform for Identifying Protein Post-Translational
Modification Sites |
RNASMotif:
A Web Server for Discovering RNA Structural Motif in Unaligned Sequences |
A statistical
approach using network structure in the prediction of protein characteristics |
Human
X chromosome reveals pronounced early population subdivisions and
recent bottlenecks |
Deriving
Functional Signatures from Protein Sequences by Iterative Pattern
Mining |
Efficient
Molecular Dynamics (MD) simulation on Field Programmable Gate Array
(FPGA)s with MultiGrid method |
Sequences
Conserved by Selection across Mouse and Human Malaria Species |
A Fuzzy
Games Approach of RNA-based Gene Regulation |
Maximizing
SNP Prediction Accuracy Increases the Power in Association Studies |
Comparing
Sequence vs Structure-based Predictions of RNA Binding Sites in
Proteins |
Anonymous
in-house and public reference sets for copy-number analysis of a
small number of Affymetrix SNP arrays |
In vitro
and in vivo expression, immunological characterization and invasin-like
role of mammalian cell entry (Mce) proteins encoded by mce3 operon
of Mycobacterium tuberculosis |
On Criterions
of Multiple Alignment Quality |
Prior
Knowledge for Discovery Proteomics Data Interpretation |
Cytochrome
P450 Structures _ Structural and Phylogenetic analysis |
Informative
Positional Priors Improve De Novo Motif Discovery |
A semiparametric
mixture model for identifying cis-acting regulatory elements |
Enhancements
to the GBrowse Genome Browser |
A new
seeding strategy for DNA alignment |
PSLDoc:Protein
Subcellular Localization prediction based on Document classification |
Heart
Aged-Match between Human Fetus and Mouse Fetus Based on Microarray
Gene Expression Profiles |
Inference
in Phylogenetic Factorial Hidden Markov Models |
The Isotope
Wavelet: A Signal Theoretic Framework for Analyzing Mass Spectrometry
Data |
Mining
Discriminative Distance Context of Transcription Factor Binding
Sites on ChIP enriched Regions |
An Algorithm
to Find Co-Regulated Gene Clusters: Adjustment for Random Variability
of Gene Expression Data. |
ProSplign-Protein
to Genomic Alignment Tool |
Computational
Identification of Essential Reactions in Plasmodium falciparum to
yield Potential Drug Targets |
Modeling
DNA unknotting by type II topoisomerases |
BioCell
: A Visualization System for Protein Interactions and Comparmentations |
Systematic
Identification Of Cis-Acting Sequences Reveals NF-Y As A Regulator
Of Embryonic Stem Cells |
Experimental
validation of computationally identified novel transcriptional units
in mouse embryonic stem cells |
A Simple
Genbank Search Engine |
Membrane-Binding
Mechanism of Peripheral Proteins Elucidated by Integration of Bioinformatics
Prediction and Molecular Dynamics Simulations |
Statistics
of multiple PWM occurrences in biopolymer sequences |
Handling
Gaps in Recombination Analysis Using RECCO |
Analysis
of systems properties of the Yersinia pestis biovars using a genome-scale
constraint based model |
Improved
HMMERHEAD for Better Sensitivity |
Branch
and Bound Algorithm for Protein Structure Prediction Using Efficient
Bounding: Poster Abstract |
A Web
Based Polyketide Analysis System for Modular Polyketide Synthases |
WikiPathways:
Pathway Editing for the People |
The Fastest
Evolving Regions in the Human Genome |
Time-series
factor analysis for reconstructing transcription factor activities |
Review
and Comparison of Systems Biology Simulation Tools for Translational
Research |
A Novel
Sliding Window Strategy for Accurate Location of Coding Regions
Based on Power Spectrum Analysis |
Homology
modeling of human protein cathepsin A |
Pharmacophore
Mapping for MCF Cell Inhibition of Arylbenzothiopene Derivatives |
PARRIS:
a PARtitioning approach for Robust Inference of Selection |
Prediction
of symmetric assemblies by docking |
Identification
of Mammalian Housekeeping Genes |
Improving
gene correlation estimation by applying filters for low-variability
genes |
Maximum
Likelihood Quantization and Logical Networks for Modeling Biological
Interactions |
Fast-FIND
Sequence Similarity Search: An Improved Approach for siRNA Design |
Classifying
differentially methylated genes in breast cancer cell lines using
the reversible jump Markov Chain Monte Carlo method |
Recognition
of protein folds using amino acid occurrence |
Nonmetric
distances for Barcode of Life |
Tools
for Simulating and Analyzing RNA Folding Kinetics |
Nonrandom
dispersal of functionally related genes in eukaryotic genomes: Arabidopsis
and mouse |
SAGA:
Subgraph Matching Tool for Biological Graphs |
Statistical
Features of the Residue Environment in Proteins |
The NET-HMM:
a HMM Based Likelihood Model for Evolutionary Networks |
Joint
analysis of genetic and physical interactions in yeast reveals pathway
redundancy and protein essentiality |
Gene expression
analyses in the parasite Schistosoma mansoni using oligonucleotide
microarrays |
Supervised
multivariate analysis of sequence groups to identify specificity
determining residues |
A Genome-Wide
Study of Gene Duplication and Loss Histories |
Reconstructing
Regulatory Networks from Expression Data using Stochastic Logical
Networks |
A novel
query-profile alignment algorithm for homology modeling |
PIPA:
A Pipeline for High-Throughput Protein Function Annotation |
Finding
indels in resequencing |
Gene Selection
Using a New Error Bound for Support Vector Machines |
Reconstruction
of pathways for instracellular receptor signaling |
The Role
of Long-Range Interaction in Protein Secondary Structure
Prediction |
Metabolic
Network and Gene Duplications in Neurospora Crassa |
Prediction
of Bound MHC-peptide Conformations |
Spectral
Clustering based Subsequence Feature Map for Protein Classification |
Modification-tolerant
Shotgun Protein Sequencing of a Snake Venom Proteome |
Accurate
Elimination of False Protein-Protein Interactions |
Genome-wide
Binding Site Map of Mammalian Transcription Factors Reveals Rapid
Turnover |
Peptide
Identification Through The Distribution of Fragmentation Events
During Mass Spectrometry |
Meta-Analysis
of Gene Expression during Neural Progenitor Cell Differentiation |
A Method
to Detect Differential Gene Expression in Cross-species Hybridization
Experiments |
Function
prediction of an interacting protein pair using domain fusion analysis:
SpaR and SpaK |
Combining
Heterogeneous Data and Network Motifs for Filling Missing Enzymes
in Yeast Metabolic Pathways |
False
Discovery Control for Genetic Dissection of Transcriptional Regulation |
Prediction
of DNA-binding Regions by Detecting Intra-molecular Interactions
with Pattern Mining |
Prediction
for Tissue Specific Gene and Gene Regulatory Network in Mouse Embryonic
Stem Cell |
Cache-oblivious
String Algorithms for Bioinformatics |
The Combination
Pattern Extraction of Regulatory Motif by Using the Longest Common
Prefix |
MouseFunc:
A Competition for Mouse Gene Function Prediction |
A novel
mitochondrial inner membrane protein `Miticulon` controls cristae
morphology. |
Designing
C2H2 Zinc Finger Proteins to Target Specific Sites in Genomic DNA
|
Computational
Prediction of Host-Pathogen Protein Interactions |
FDR Controlled
Topological Core of the Transcriptional Regulatory Network of Saccharomyces
cerevisiae |
A new
approach for inferring regulatory networks from literature and gene
expression measurements |
A Probabilistic
Approach to the Design of Structural Selectivity of Proteins |
Combinatorial
Principles of Feedback Control in Biochemical Networks |
Ion-Pair
in Non-Redundant Protein Structures |
PROCTOR:
An algorithm for reconstructing the internal interaction topology
of protein complexes |
Systematic
Study of the Evolution and Function of Human Regulatory Non-coding
Sequences |
SHOE:
A Promoter Analysis Tool |
The Compute
Portal Project |
Protein
Function Prediction Using Motifs, Sequence Features, Alignment Scores |
Reverse
engineering gene regulatory networks with Bayesian networks from
expression data combined with multiple sources of biological prior
knowledge |
Dendroscope:
An interactive viewer for large phylogenetic trees |
Comparative
Analysis of Metabolic Networks using Gene Expression Data |
Validation
of a Novel Empirical Bayes Method for SNP Calling on Arrays |
XpressVista:
Expression Analysis and Visualization Tool |
Regression-based
Clustering of Short-Time Course Gene Expression Datasets |
PAMES:
Pathway Mapping and Editing System |
Reconstructing
phenotypical hierarchies: a linear programming approach |
Inferring
Dynamic Signalling Networks from Steady State Measurements |
Incorporating
Phylogenetic Conservation to Detect Motifs that Correlate with Expression |
An Improved
Algorithm for Error Correction of Reads in DNA Fragment Assembly |
MAMUPipe:
A Computational Pipeline for Identifying Novel SNP/SIDP in Rhesus
Macaques Based on 454 Pyrosequencing Technology |
Structural
alignment from sequence alone by integration of predicted secondary
structure |
Boosting
the Prediction and Understanding of DNA-Binding Proteins |
Functional
Enrichment Across Organism Massomes |
Kernel
filtering by Orthogonal-PLS and application to the general core
promoter recognition problem |
Classifying
Families of Multi-Protein Systems Using Phylogenomic Profiling and
Hidden Markov Models |
Gene Expression
Network Analysis, and Applications to Immunology |
Efficient
algorithms to monitor bioinformatics data |
Modeling
position dependencies in transcription factor binding site prediction |
Connecting
Quantitative Regulatory-Network Models to the Genome |
GenMAPP
for Pathway Analysis: Current and Future Development |
Inferring
ancestral states of a protein interaction network |
Assessment
of Protein Domain Classifications: SCOP, CATH, Dali and EVEREST |
Refining
Multiple Sequence Alignments with Conserved Core Regions. |
Systematic
Study of Numerical Solvers for Complex Oscillatory Biochemical System
Models |
Knowledge-based
atomic solvation potentials for analysis of protein structure stability
and protein interaction |
Towards
predicting composition and order of non-ribosomal peptides |
A Hybrid
SVM / DBN Approach to Detecting SNPs in Diploid DNA Samples |
Quantifying
the Relative Positions of Proteins Secondary Structure Elements |
Structure-based
Prediction of Clinical Phenotypes in Lysosomal Storage Diseases |
Combining Statistical
Alignment and Phylogenetic Footprinting to Detect Conserved Regulatory
Elements |
Antagonistic
regulation allows controlled access to multistability in neuroadaptivity |
Leveraging
Sequence and Structure to Evaluate Misannotation |
Image
Alignment of Heterogeneous Macromolecules from Electron Microscopy |
A combinatorial
approach to kinship analysis using microsatellite data |
A Bayesian
Approach for Evaluating the Metabolic Pathways Predicted by PathoLogic |
Benign
SNPs are over-represented near oligomeric interfaces in human aquaporins |
Pharmacophore
Detection by Multiple Flexible Alignment of Drug-Like Molecules
Pharmacophore Detection by Multiple Flexible Alignment of Drug-Like
Molecules |
The maintenance
of sex in bacteria is ensured by its potential to reload genes |
Gene expression
profile analysis for circadian promoter activities of cyanobacterial
bioluminescent reporter strains using non-metric multidimensional
scaling |
Gene arrangement
for cell division cycle microarray experiments without sinusoidal
fittings |
Robustness
and modular design of the Drosophila segment polarity network |
Kinetics
Analysis Methods For Approximate Folding Landscapes |
Distinguishing
Folding Behavior using Rigidity |
Decoding
Multiple Feedback Loops in Biological Networks |
The role
of the Translation Attenuation pathway in Unfolded Protein Response
|
Identification
of Functional Modules using Network Topology and High-throughput
Data |
A new
method for monoisotopic mass determination |
Detection
of functional associations in gene expression data by mining co-regulated
gene profiles |
Estimating
Genome-wide Copy Number using Allele Specific Mixture Models |
PMRF:
a Pathway-based Markov Random Field Model for Analysis of Genomic
Data |
Search
for the `right` model for mitosis |
Modeling
and Identification of Transcription Factor Binding Sites Using Higher
Order Position Weight Matrices |
Comparative Genomic
Study of the Evolution of Cis-regulatory Elements in Recent Duplicated
Genes from S. Cerevisiae
|
Stochastic
Modeling of Yeast Cell Cycle Network using Markov Chains |
Between
order and disorder in protein structures - analysis of "dual
personality" fragments |
Ultra-Fast
Local Structural Comparison with Writhe Decomposition |
Reconstructing
Condition-Specific Signal Transduction Hierarchy using Bayesian
Networks |
Gene mining
for conserved cis elements in model genomes using gene expression
patterns |