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Journal of Computational Biology, Volume 8
Volume 8, Number 1, February 2001
- Gad M. Landau, Jeanette P. Schmidt, Dina Sokol:
An Algorithm for Approximate Tandem Repeats. 1-18 - Christopher Bailey-Kellogg, John J. Kelley, Clifford Stein, Bruce Randall Donald:
Reducing Mass Degeneracy in SAR by MS by Stable Isotopic Labeling. 19-36 - Michael A. Newton
, C. M. Kendziorski, C. S. Richmond, Frederick R. Blattner, Kam-Wah Tsui:
On Differential Variability of Expression Ratios: Improving Statistical Inference about Gene Expression Changes from Microarray Data. 37-52 - David Liben-Nowell:
On the Structure of Syntenic Distance. 53-67 - Lusheng Wang
Perfect Phylogenetic Networks with Recombination. 69-78 - Michael A. Charleston:
Hitch-Hiking: A Parallel Heuristic Search Strategy, Applied to the Phylogeny Problem. 79-91
Volume 8, Number 2, April 2001
- Nathaniel Leibowitz, Ruth Nussinov
MUSTA - A General, Efficient, Automated Method for Multiple Structure Alignment and Detection of Common Motifs: Application to Proteins. 93-121 - Peter B. Gilbert, Vladimir A. Novitsky, Monty A. Montano
An Efficient Test for Comparing Sequence Diversity between Two Populations. 123-139 - Earl Hubbell
Multiplex Sequencing by Hybridization. 141-149 - Jeff Elhai:
Determination of Bias in the Relative Abundance of Oligonucleotides in DNA Sequences. 151-175 - T. Gregory Dewey:
A Sequence Alignment Algorithm with an Arbitrary Gap Penalty Function. 177-190 - Hongyu Zhao
On Relationship Inference Using Gamete Identity by Descent Data. 191-200
Volume 8, Number 3, June 2001
- Amit Marathe, Anne Condon, Robert M. Corn:
On Combinatorial DNA Word Design. 201-219 - Xun Gu:
Mathematical Modeling for Functional Divergence after Gene Duplication. 221-234 - Pierre Nicodème:
Fast Approximate Motif Statistics. 235-248 - Yi-Kuo Yu, Terence Hwa
Statistical Significance of Probabilistic Sequence Alignment and Related Local Hidden Markov Models. 249-282 - Paul Horton:
Tsukuba BB: A Branch and Bound Algorithm for Local Multiple Alignment of DNA and Protein Sequences. 283-303 - Dan Gusfield:
Inference of Haplotypes from Samples of Diploid Populations: Complexity and Algorithms. 305-323 - Ting Chen, Ming-Yang Kao, Matthew Tepel, John Rush, George M. Church
A Dynamic Programming Approach to De Novo Peptide Sequencing via Tandem Mass Spectrometry. 325-337 - David B. Searls
From Jabberwocky to Genome: Lewis Carroll and Computational Biology. 339-348
Volume 8, Number 4, September 2002
- Stéphane Robin, Sophie Schbath
Numerical Comparison of Several Approximations of the Word Count Distribution in Random Sequences. 349-359 - Amir Ben-Dor, Itsik Pe'er, Ron Shamir
On the Complexity of Positional Sequencing by Hybridization. 361-371 - Sabine Mercier, Jean-Jacques Daudin:
Exact Distribution for the Local Score of One i.i.d. Random Sequence. 373-380 - Claudine Devauchelle, Alexander Grossmann, Alain Hénaut, Matthias Holschneider
Rate Matrices for Analyzing Large Families of Protein Sequences. 381-399 - Dirk Husmeier
Detection of Recombination in DNA Multiple Alignments with Hidden Markov Models. 401-427 - Mattias Wahde, John A. Hertz:
Modeling Genetic Regulatory Dynamics in Neural Development. 429-442 - Andrew B. Goryachev
Unfolding of Microarray Data. 443-461
Volume 8, Number 5, October 2001
- Semyon Kruglyak, Haixu Tang:
A New Estimator of Significance of Correlation in Time Series Data. 463-470 - Kuang Lin, Alex C. W. May, William R. Taylor:
Amino Acid Substitution Matrices from an Artificial Neural Network Model. 471-481 - David A. Bader
A Linear-Time Algorithm for Computing Inversion Distance between Signed Permutations with an Experimental Study. 483-491 - Stephen H. Muggleton, Christopher H. Bryant
Are Grammatical Representations Useful for Learning from Biological Sequence Data? - A Case Study. 493-521 - Glenn A. Williams, Jonathan M. Dugan, Russ B. Altman:
Constrained Global Optimization for Estimating Molecular Structure from Atomic Distances. 523-547 - John D. Storey
Approximate P-Values for Local Sequence Alignments: Numerical Studies. 549-556
Volume 8, Number 6, November 2001
- David M. Rocke
A Model for Measurement Error for Gene Expression Arrays. 557-569 - Ting Chen, Jacob D. Jaffe, George M. Church
Algorithms for Identifying Protein Cross-Links via Tandem Mass Spectrometry. 571-583 - Joachim Theilhaber, Steven Bushnell, Amanda Jackson, Rainer Fuchs
Bayesian Estimation of Fold-Changes in the Analysis of Gene Expression: The PFOLD Algorithm. 585-614 - Winfried Just:
Computational Complexity of Multiple Sequence Alignment with SP-Score. 615-623 - Russell D. Wolfinger, Greg Gibson, Elizabeth D. Wolfinger, Lee Bennett
Assessing Gene Significance from cDNA Microarray Expression Data via Mixed Models. 625-637 - Keith A. Baggerly, Kevin R. Coombes
Identifying Differentially Expressed Genes in cDNA Microarray Experiments. 639-659
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