JCB 2006 - PDF Preprint Papers

JCB 2006

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JCB
2006

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Protein Fold Recognition Using Segmentation Conditional Random Fields (SCRFs)

13 years 4 months ago

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Protein fold recognition is an important step towards understanding protein three-dimensional structures and their functions. A conditional graphical model, i.e., segmentation con...

Yan Liu 0002, Jaime G. Carbonell, Peter Weigele, V...

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Id	Views	Title	Status

1	215	Protein Fold Recognition Using Segmentation Conditional Random Fields (SCRFs)	claim
2	185	Bayesian Sequential Inference for Stochastic Kinetic Biochemical Network Models	claim
3	185	Identification of Amino Acid Latent Periodicity within 94 Protein Families	claim
4	185	A Probabilistic Methodology for Integrating Knowledge and Experiments on Biological Networks	claim
5	144	Modeling Virus Self-Assembly Pathways: Avoiding Dynamics Using Geometric Constraint Decomposition	claim
6	140	HAPLOFREQ-Estimating Haplotype Frequencies Efficiently	claim
7	138	Recognition and Classification of Histones Using Support Vector Machine	claim
8	129	Towards an Integrated Protein-Protein Interaction Network: A Relational Markov Network Approach	claim
9	129	GenRate: A Generative Model that Reveals Novel Transcripts in Genome-Tiling Microarray Data	claim
10	126	Combinatorics of Saturated Secondary Structures of RNA	claim
11	125	Hypothesis Generation in Signaling Networks	claim
12	124	The Distribution of Genomic Distance between Random Genomes	claim
13	124	The Average Common Substring Approach to Phylogenomic Reconstruction	claim
14	123	Reconstructing Ancestral Haplotypes with a Dictionary Model	claim
15	115	Designing an A* Algorithm for Calculating Edit Distance between Rooted-Unordered Trees	claim
16	114	A General Modeling Strategy for Gene Regulatory Networks with Stochastic Dynamics	claim
17	110	Coding Exon Detection Using Comparative Sequences	claim
18	107	Maximum Likelihood Molecular Clock Comb: Analytic Solutions	claim
19	107	Protein Image Alignment via Piecewise Affine Transformations	claim
20	97	Wavelet Analysis of DNA Walks	claim
21	91	Reverse Engineering Discrete Dynamical Systems from Data Sets with Random Input Vectors	claim
22	84	Optimal Sum-of-Pairs Multiple Sequence Alignment Using Incremental Carrillo and Lipman Bounds	claim
23	83	A Discrete-Event Approach to Transcription Control with Dynamic Event-Controllability	claim
24	83	Genome-Wide Tagging SNPs with Entropy-Based Monte Carlo Method	claim
25	83	Detecting Conserved Interaction Patterns in Biological Networks	claim
26	82	Approximating Subtree Distances Between Phylogenies	claim
27	82	Protein Multiple Alignment Incorporating Primary and Secondary Structure Information	claim
28	80	On the Repeat-Annotated Phylogenetic Tree Reconstruction Problem	claim
29	79	A Stability Boundary Based Method for Finding Saddle Points on Potential Energy Surfaces	claim
30	76	An Optimal Algorithm for Perfect Phylogeny Haplotyping	claim
31	71	Multiple Testing Methods For ChIP - Chip High Density Oligonucleotide Array Data	claim
32	67	The Identifiability of Tree Topology for Phylogenetic Models, Including Covarion and Mixture Models	claim
33	66	A Grammatical Theory for the Conformational Changes of Simple Helix Bundles	claim
34	66	Pairwise Alignment of Protein Interaction Networks	claim

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