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RECOMB
2006
Springer
10 years 12 days ago
Markov Additive Chains and Applications to Fragment Statistics for Peptide Mass Fingerprinting
Abstract. Peptide mass fingerprinting is a technique to identify a protein from its fragment masses obtained by mass spectrometry after enzymatic digestion. Recently, much attentio...
Hans-Michael Kaltenbach, Sebastian Böcker, Sv...
RECOMB
2006
Springer
10 years 12 days ago
Probabilistic Paths for Protein Complex Inference
Understanding how individual proteins are organized into complexes and pathways is a significant current challenge. We introduce new algorithms to infer protein complexes by combin...
Hailiang Huang, Lan V. Zhang, Frederick P. Roth, J...
RECOMB
2006
Springer
10 years 12 days ago
Identification and Evaluation of Functional Modules in Gene Co-expression Networks
Abstract. Identifying gene functional modules is an important step towards elucidating gene functions at a global scale. In this paper, we introduce a simple method to construct ge...
Jianhua Ruan, Weixiong Zhang
RECOMB
2006
Springer
10 years 12 days ago
De Novo Signaling Pathway Predictions Based on Protein-Protein Interaction, Targeted Therapy and Protein Microarray Analysis
Abstract. Mapping intra-cellular signaling networks is a critical step in developing an understanding of and treatments for many devastating diseases. The predominant ways of disco...
Derek A. Ruths, Jen-Te Tseng, Luay Nakhleh, Prahla...
RECOMB
2006
Springer
10 years 12 days ago
A Parameterized Algorithm for Protein Structure Alignment
This paper proposes a parameterized algorithm for aligning two protein structures, in the case where one protein structure is represented by a contact map graph and the other by a ...
Jinbo Xu, Feng Jiao, Bonnie Berger
RECOMB
2006
Springer
10 years 12 days ago
A Study of Accessible Motifs and RNA Folding Complexity
mRNA molecules are folded in the cells and therefore many of their substrings may actually be inaccessible to protein and microRNA binding. The need to apply an accessability crite...
Ydo Wexler, Chaya Ben-Zaken Zilberstein, Michal Zi...
RECOMB
2006
Springer
10 years 12 days ago
Genome-Wide Discovery of Modulators of Transcriptional Interactions in Human B Lymphocytes
Abstract. Transcriptional interactions in a cell are modulated by a variety of mechanisms that prevent their representation as pure pairwise interactions between a transcription fa...
Kai Wang, Ilya Nemenman, Nilanjana Banerjee, Adam ...
RECOMB
2006
Springer
10 years 12 days ago
Simulating Protein Motions with Rigidity Analysis
Abstract. Protein motions, ranging from molecular flexibility to largescale conformational change, play an essential role in many biochemical processes. Despite the explosion in ou...
Shawna L. Thomas, Xinyu Tang, Lydia Tapia, Nancy M...
RECOMB
2006
Springer
10 years 12 days ago
Integrated Protein Interaction Networks for 11 Microbes
We have combined four different types of functional genomic data to create high coverage protein interaction networks for 11 microbes. Our integration algorithm naturally handles s...
Balaji S. Srinivasan, Antal F. Novak, Jason Flanni...
RECOMB
2006
Springer
10 years 12 days ago
New Methods for Detecting Lineage-Specific Selection
Abstract. So far, most methods for identifying sequences under selection based on comparative sequence data have either assumed selectional pressures are the same across all branch...
Adam C. Siepel, Katherine S. Pollard, David Haussl...
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