BIOCOMP 2006 - PDF Preprint Papers

BIOCOMP 2006

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BIOCOMP
2006

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Dynamic Bayesian Network (DBN) with Structure Expectation Maximization (SEM) for Modeling of Gene Network from Time Series Gene

14 years 25 days ago

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Exploring gene regulatory network is a key topic in molecular biology. In this paper, we present a new dynamic Bayesian network (DBN) framework embedded with structural expectatio...

Yu Zhang, Zhidong Deng, Hongshan Jiang, Peifa Jia

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Id	Views	Title	Status

1	233	Dynamic Bayesian Network (DBN) with Structure Expectation Maximization (SEM) for Modeling of Gene Network from Time Series Gene Expression Data	claim
2	197	Finishing Repetitive Regions Automatically with Dupfinisher	claim
3	162	Data Integration with BioPAX Pathway Datasets for Automated Navigation	claim
4	156	Surgeon's Magic Wand: A Screen Pointing Interactive Method	claim
5	142	The Use of Context-Sensitive Grammar For Modeling RNA Pseudoknots	claim
6	139	Mapping Biological XML DTDs Using Ontology	claim
7	139	Bioinformatics Web Services	claim
8	137	Theoretical Bounds for the Number of Inferable Edges in Sparse Random Networks	claim
9	136	WebDock: A Structure-Based Drug Discovery Web Service	claim
10	134	An Approach to Selecting Putative RNA Motifs Using MDL Principle	claim
11	133	Acceleration of Covariance Models for Non-coding RNA Search	claim
12	132	Filtering Tandem Repeats in DNA Sequences	claim
13	132	Parameterized Computation of LCS for Two Sequences	claim
14	131	PAC: Progressive Alignment with Consensus Sequences	claim
15	130	Fast Dictionary Lookup in Genomic Information Retrieval	claim
16	127	Computational Inference of Compound-induced Anti-inflammatory Effects Across Time in an Adjuvant-induced Arthritis Rat Model	claim
17	120	Learning Genetic and Gene Bayesian Networks with Hidden Variables: Bilayer Verification Algorithm	claim
18	119	Improving the Efficiency of Sorting by Reversals	claim
19	118	Analytical Solution of a Spatial Sir Epidemic Model with Memory Inside a Circular Habitat with Endemic Memory using CAS	claim
20	118	Basic Reproductive Rate of a Spatial Epidemic Seir Model using Computer Algebra Software	claim
21	117	Insight of the Signal Motif of GPI-(like)-anchored Proteins by using SVM	claim
22	116	Automated Blood Volume Quantification from Color Doppler Images while Tracking the Conduit Motion	claim
23	114	Support Vector Machines for Predicting microRNA Hairpins	claim
24	113	A Clinical Decision Support System For Managing Flexor Tendon Injuries	claim
25	112	Computer-Aided Cytogenetic Method of Breast Cancer Diagnosis, Part II - Test Criteria	claim
26	111	Abstracted Stochastic Analysis of Type 1 Pili Expression in E.coli	claim
27	110	Finding Molecular Signature of Prostate Cancer: An Algorithmic Approach	claim
28	109	An Artificial Neural Network based Model to Analyze Malarial Data and Predict Organ Failure	claim
29	107	A Multi-strategy Approach to Protein Structural Alphabet Design	claim
30	106	Reducing Harmful Effects Of Road Excitations On Human Health By Designing Car Active Suspension Systems	claim
31	106	Reverse Engineering Approach in Molecular Evolution: Simulation and Case Study with Enzyme Proteins	claim
32	106	Data Mining of ESTs for Genetic Improvement of Salt Tolerance in Wheat	claim
33	105	Membrane Remodeling and Diffusion of Cytochrome C from a Geometrically Idealized Mitochondrial Crista	claim
34	105	Discrete Molecular Dynamics Study of Alzheimer Amyloid B-protein (AB) Folding	claim
35	104	The Generalized Topological Overlap Matrix for Detecting Modules in Gene Networks	claim
36	102	The Multi-Node Topological Overlap Measure For Gene Neighborhood Analysis	claim
37	102	TALI: Protein Structure Alignment Using Backbone Torsion Angles	claim
38	101	Fast and Complete Search of siRNA Off-target Sequences	claim
39	101	Petri Net Based Model Of The T Cell Receptor Signaling Pathway	claim
40	100	Marker Gene Selection Evaluation in Brain Tumor Patients Using Parallel Coordinates	claim
41	99	Evaluation of a Novel Metric for Quality Control in an RNA Interference High Throughput Screening Assay	claim
42	99	Melting Free Energies of DNA Duplexes with oxidized Base Residues and Abasic sites: A Molecular Dynamics Characterization	claim
43	98	A Heuristic Approach to Scoring Gene Clustering Algorithms	claim
44	98	Polyome: A Learning System for Extracting Bioinformatic Data	claim
45	98	Performance of Sequence Alignment Bioinformatics Applications on General Purpose Processors: A Case Study	claim
46	96	A Relational Genomics Search Engine	claim
47	96	Study on Properties of Protein Folding Conformation Network	claim
48	95	Space-Efficient Parallel Algorithms for the Constrained Multiple Sequence Alignment Problem	claim
49	95	Reduced-rank Multivariate Model for Time-course Microarray Data	claim
50	95	Using Neural Nets to Estimate Evolutionary Parameters	claim
51	94	Structure-Based Design and Analysis of Cytochrome P450 Inhibitors for the Treatment of Prostate Cancer	claim
52	93	Evidence for Functional Protein Fragment Homology in Viral Genome Types	claim
53	93	Structure Prediction of Potato Large Subunit ADP - Glucose Pyrophosphorylase	claim
54	92	Fusion genes as putative microbial drug targets in H. pylori	claim
55	92	Needs Assessment for Scientific Visualization of Multivariate, High-Dimensional Microarray Data	claim
56	89	Learning from Sequences with Determining Correlation between Transmembrane and Protein Disorder	claim
57	88	Simple Methods of Finding Short Protein Coding Sequences	claim
58	87	Combined QM/MM Studies of Binding Effect of Cytochrome P450cam to Putidaredoxin	claim
59	86	Comparative Sequence Analysis of the p53 Response Elements Associated with Apoptosis and Cell Cycle Arrest	claim
60	83	On a New Quartet-Based Phylogeny Reconstruction Algorithm	claim
61	82	New Algorithms for Application of Evolution Rules based on Applicability Benchmarks	claim
62	79	A Design for Software to Assist in the Rehabilitation of Stroke Patients	claim
63	78	Toward In Vivo Disease Diagnosis and Treatment Using DNA	claim
64	77	Identification of Intrinsically Unstructured Regions in Proteins Using Primary Structure	claim
65	72	X-Ray Powder Diffraction Metrics	claim
66	72	Genome Annotation and Comparison System	claim
67	72	Homology Modeling of Myoglobin using Adaptive Neurofuzzy Systems	claim
68	71	Statistical Analysis of Long-Range Interactions in Proteins	claim
69	67	A New Algorithm to Predict the Active Sites Using Amino Acid Vectors and Biochemical features of Surface Patches	claim

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