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William Stafford Noble: [Publications] [Author Rank by year] [Co-authors] [Prefers] [Cites] [Cited by]

Publications of Author

  1. Aaron A. Klammer, Christine C. Wu, Michael J. MacCoss, William Stafford Noble
    Peptide Charge State Determination for Low-Resolution Tandem Mass Spectra. [Citation Graph (0, 0)][DBLP]
    CSB, 2005, pp:175-185 [Conf]
  2. Tobias P. Mann, Richard Humbert, John A. Stamatoyannopoulos, William Stafford Noble
    Automated Validation of Polymerase Chain Reactions Using Amplicon Melting Curves. [Citation Graph (0, 0)][DBLP]
    CSB, 2005, pp:377-385 [Conf]
  3. Will Sheffler, Eli Upfal, John Sedivy, William Stafford Noble
    A Learned Comparative Expression Measure for Affymetrix GeneChip DNA Microarrays. [Citation Graph (0, 0)][DBLP]
    CSB, 2005, pp:144-154 [Conf]
  4. Timothy L. Bailey, William Stafford Noble
    Searching for statistically significant regulatory modules. [Citation Graph (0, 0)][DBLP]
    ECCB, 2003, pp:16-25 [Conf]
  5. Bernhard Schölkopf, Jason Weston, Eleazar Eskin, Christina S. Leslie, William Stafford Noble
    A Kernel Approach for Learning from almost Orthogonal Patterns. [Citation Graph (0, 0)][DBLP]
    ECML, 2002, pp:511-528 [Conf]
  6. Eugene Ie, Jason Weston, William Stafford Noble, Christina S. Leslie
    Multi-class protein fold recognition using adaptive codes. [Citation Graph (0, 0)][DBLP]
    ICML, 2005, pp:329-336 [Conf]
  7. Darrin P. Lewis, Tony Jebara, William Stafford Noble
    Nonstationary kernel combination. [Citation Graph (0, 0)][DBLP]
    ICML, 2006, pp:553-560 [Conf]
  8. Asa Ben-Hur, William Stafford Noble
    Kernel methods for predicting protein-protein interactions. [Citation Graph (0, 0)][DBLP]
    ISMB (Supplement of Bioinformatics), 2005, pp:38-46 [Conf]
  9. Tobias P. Mann, William Stafford Noble
    Efficient identification of DNA hybridization partners in a sequence database. [Citation Graph (0, 0)][DBLP]
    ISMB (Supplement of Bioinformatics), 2006, pp:350-358 [Conf]
  10. William Stafford Noble, Scott Kuehn, Robert Thurman, Man Yu, John A. Stamatoyannopoulos
    Predicting the in vivo signature of human gene regulatory sequence. [Citation Graph (0, 0)][DBLP]
    ISMB (Supplement of Bioinformatics), 2005, pp:328-343 [Conf]
  11. Koji Tsuda, William Stafford Noble
    Learning kernels from biological networks by maximizing entropy. [Citation Graph (0, 0)][DBLP]
    ISMB/ECCB (Supplement of Bioinformatics), 2004, pp:326-333 [Conf]
  12. Paul Pavlidis, Christopher Tang, William Stafford Noble
    Classification of genes using probabilistic models of microarray expression profiles. [Citation Graph (0, 0)][DBLP]
    BIOKDD, 2001, pp:15-21 [Conf]
  13. Christina S. Leslie, Eleazar Eskin, Jason Weston, William Stafford Noble
    Mismatch String Kernels for SVM Protein Classification. [Citation Graph (0, 0)][DBLP]
    NIPS, 2002, pp:1417-1424 [Conf]
  14. Jean-Philippe Vert, Robert Thurman, William Stafford Noble
    Kernels for gene regulatory regions. [Citation Graph (0, 0)][DBLP]
    NIPS, 2005, pp:- [Conf]
  15. Jason Weston, Christina S. Leslie, Dengyong Zhou, André Elisseeff, William Stafford Noble
    Semi-supervised Protein Classification Using Cluster Kernels. [Citation Graph (0, 0)][DBLP]
    NIPS, 2003, pp:- [Conf]
  16. Bernhard Schölkopf, Jason Weston, Eleazar Eskin, Christina S. Leslie, William Stafford Noble
    A Kernel Approach for Learning from Almost Orthogonal Patterns. [Citation Graph (0, 0)][DBLP]
    PKDD, 2002, pp:494-511 [Conf]
  17. Gert R. G. Lanckriet, Minghua Deng, Nello Cristianini, Michael I. Jordan, William Stafford Noble
    Kernel-Based Data Fusion and Its Application to Protein Function Prediction in Yeast. [Citation Graph (0, 0)][DBLP]
    Pacific Symposium on Biocomputing, 2004, pp:300-311 [Conf]
  18. Paul Pavlidis, Darrin P. Lewis, William Stafford Noble
    Exploring Gene Expression Data with Class Scores. [Citation Graph (0, 0)][DBLP]
    Pacific Symposium on Biocomputing, 2002, pp:474-485 [Conf]
  19. Christina S. Leslie, Eleazar Eskin, William Stafford Noble
    The Spectrum Kernel: A String Kernel for SVM Protein Classification. [Citation Graph (0, 0)][DBLP]
    Pacific Symposium on Biocomputing, 2002, pp:566-575 [Conf]
  20. Li Liao, William Stafford Noble
    Combining pairwise sequence similarity and support vector machines for remote protein homology detection. [Citation Graph (0, 0)][DBLP]
    RECOMB, 2002, pp:225-232 [Conf]
  21. Aaron A. Klammer, Xianhua Yi, Michael J. MacCoss, William Stafford Noble
    Peptide Retention Time Prediction Yields Improved Tandem Mass Spectrum Identification for Diverse Chromatography Conditions. [Citation Graph (0, 0)][DBLP]
    RECOMB, 2007, pp:459-472 [Conf]
  22. Shawn M. Gomez, William Stafford Noble, Andrey Rzhetsky
    Learning to predict protein-protein interactions from protein sequences. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2003, v:19, n:15, pp:1875-1881 [Journal]
  23. Wei Wu, William Stafford Noble
    Genomic data visualization on the Web. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2004, v:20, n:11, pp:1804-1805 [Journal]
  24. Gert R. G. Lanckriet, Tijl De Bie, Nello Cristianini, Michael I. Jordan, William Stafford Noble
    A statistical framework for genomic data fusion. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2004, v:20, n:16, pp:2626-2635 [Journal]
  25. Rui Kuang, Jason Weston, William Stafford Noble, Christina S. Leslie
    Motif-based protein ranking by network propagation. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2005, v:21, n:19, pp:3711-3718 [Journal]
  26. Christina S. Leslie, Eleazar Eskin, Adiel Cohen, Jason Weston, William Stafford Noble
    Mismatch string kernels for discriminative protein classification. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2004, v:20, n:4, pp:- [Journal]
  27. Paul Pavlidis, Qinghong Li, William Stafford Noble
    The effect of replication on gene expression microarray experiments. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2003, v:19, n:13, pp:1620-1627 [Journal]
  28. Paul Pavlidis, William Stafford Noble
    Matrix2png: a utility for visualizing matrix data. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2003, v:19, n:2, pp:295-296 [Journal]
  29. Paul Pavlidis, Ilan Wapinski, William Stafford Noble
    Support vector machine classification on the web. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2004, v:20, n:4, pp:- [Journal]
  30. Jie Qin, Darrin P. Lewis, William Stafford Noble
    Kernel hierarchical gene clustering from microarray expression data. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2003, v:19, n:16, pp:2097-2104 [Journal]
  31. Jason Weston, Christina S. Leslie, Eugene Ie, Dengyong Zhou, André Elisseeff, William Stafford Noble
    Semi-supervised protein classification using cluster kernels. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2005, v:21, n:15, pp:3241-3247 [Journal]
  32. Darrin P. Lewis, Tony Jebara, William Stafford Noble
    Support vector machine learning from heterogeneous data: an empirical analysis using protein sequence and structure. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2006, v:22, n:22, pp:2753-2760 [Journal]
  33. Tobias P. Mann, Richard Humbert, John A. Stamatoyannopoulos, William Stafford Noble
    Automated Validation of Polymerase Chain Reaction Amplicon Melting Curves. [Citation Graph (0, 0)][DBLP]
    J. Bioinformatics and Computational Biology, 2006, v:4, n:2, pp:299-316 [Journal]
  34. Eleazar Eskin, William Stafford Noble, Yoram Singer
    Using Substitution Matrices to Estimate Probability Distributions for Biological Sequences. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 2002, v:9, n:6, pp:775-792 [Journal]
  35. Eleazar Eskin, William Stafford Noble, Yoram Singer
    Protein Family Classification Using Sparse Markov Transducers. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 2003, v:10, n:2, pp:187-214 [Journal]
  36. Li Liao, William Stafford Noble
    Combining Pairwise Sequence Similarity and Support Vector Machines for Detecting Remote Protein Evolutionary and Structural Relationships. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 2003, v:10, n:6, pp:857-868 [Journal]
  37. Paul Pavlidis, Jason Weston, Jinsong Cai, William Stafford Noble
    Learning Gene Functional Classifications from Multiple Data Types. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 2002, v:9, n:2, pp:401-411 [Journal]
  38. Charles X. Ling, William Stafford Noble, Qiang Yang
    Guest Editors' Introduction to the Special Issue: Machine Learning for Bioinformatics - Part 1. [Citation Graph (0, 0)][DBLP]
    IEEE/ACM Trans. Comput. Biology Bioinform., 2005, v:2, n:2, pp:81-82 [Journal]
  39. Charles X. Ling, William Stafford Noble, Qiang Yang
    Guest Editor's Introduction to the Special Issue: Machine Learning for Bioinformatics-Part 2. [Citation Graph (0, 0)][DBLP]
    IEEE/ACM Trans. Comput. Biology Bioinform., 2005, v:2, n:3, pp:177-178 [Journal]
  40. Jian Qiu, Martial Hue, Asa Ben-Hur, Jean-Philippe Vert, William Stafford Noble
    A structural alignment kernel for protein structures. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2007, v:23, n:9, pp:1090-1098 [Journal]
  41. Nathan Day, Andrew Hemmaplardh, Robert Thurman, John A. Stamatoyannopoulos, William Stafford Noble
    Unsupervised segmentation of continuous genomic data. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2007, v:23, n:11, pp:1424-1426 [Journal]
  42. Jean-Philippe Vert, Jian Qiu, William Stafford Noble
    Metric learning pairwise kernel for graph inference [Citation Graph (0, 0)][DBLP]
    CoRR, 2006, v:0, n:, pp:- [Journal]

  43. Improved network-based identification of protein orthologs. [Citation Graph (, )][DBLP]


  44. Non-parametric estimation of posterior error probabilities associated with peptides identified by tandem mass spectrometry. [Citation Graph (, )][DBLP]


  45. Modeling peptide fragmentation with dynamic Bayesian networks for peptide identification. [Citation Graph (, )][DBLP]


  46. Multi-Scale Correlations in Continuous Genomic Data. [Citation Graph (, )][DBLP]


  47. On the Relationship between DNA Periodicity and Local Chromatin Structure. [Citation Graph (, )][DBLP]


  48. Predicting Nucleosome Positioning Using Multiple Evidence Tracks. [Citation Graph (, )][DBLP]


  49. Automated mapping of large-scale chromatin structure in ENCODE. [Citation Graph (, )][DBLP]


  50. QVALITY: non-parametric estimation of q-values and posterior error probabilities. [Citation Graph (, )][DBLP]


  51. Assessing phylogenetic motif models for predicting transcription factor binding sites. [Citation Graph (, )][DBLP]


  52. RANKPROP: a web server for protein remote homology detection. [Citation Graph (, )][DBLP]


  53. The Genomedata format for storing large-scale functional genomics data. [Citation Graph (, )][DBLP]


  54. A dynamic Bayesian network for identifying protein-binding footprints from single molecule-based sequencing data. [Citation Graph (, )][DBLP]


  55. Combining classifiers for improved classification of proteins from sequence or structure. [Citation Graph (, )][DBLP]


  56. A new pairwise kernel for biological network inference with support vector machines. [Citation Graph (, )][DBLP]


  57. NIPS workshop on New Problems and Methods in Computational Biology. [Citation Graph (, )][DBLP]


  58. SVM-Fold: a tool for discriminative multi-class protein fold and superfamily recognition. [Citation Graph (, )][DBLP]


  59. Choosing negative examples for the prediction of protein-protein interactions. [Citation Graph (, )][DBLP]


  60. Protein Ranking by Semi-Supervised Network Propagation. [Citation Graph (, )][DBLP]


  61. Using machine learning to speed up manual image annotation: application to a 3D imaging protocol for measuring single cell gene expression in the developing C. elegans embryo. [Citation Graph (, )][DBLP]


  62. Large-scale prediction of protein-protein interactions from structures. [Citation Graph (, )][DBLP]


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