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Displaying 1-19 out of 19 total
Intensity-Based Skeletonization of CryoEM Gray-Scale Images Using a True Segmentation-Free Algorithm
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics
By Kamal Al Nasr,Chunmei Liu,Mugizi Rwebangira,Legand Burge,Jing He
Issue Date:September 2013
pp. 1289-1298
Cryo-electron microscopy is an experimental technique that is able to produce 3D gray-scale images of protein molecules. In contrast to other experimental techniques, cryo-electron microscopy is capable of visualizing large molecular complexes such as viru...
 
Predicting protein-protein interactions using full Bayesian network
Found in: 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW)
By Hui Li,Chunmei Liu,Legand Burge,Kyung Dae Ko,William Southerland
Issue Date:October 2012
pp. 544-550
Protein-protein interactions (PPIs) are central to the most cellular processes. Although PPIs have been generated exponentially from experimental methods ranging from high throughput protein sequences to the crystallized structures of complexes, only a fra...
 
Spatial index and visualization of protein structure
Found in: 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW)
By Hui Li,Chunmei Liu,Legand Burge,William Southerland
Issue Date:October 2012
pp. 540-543
The generation of protein data is increasing exponentially with the rapid development of experimental technology. It is becoming a major issue for bioinformatics scientists to find an efficient method for retrieving and visualizing the protein structures. ...
 
A rapid 3D protein Structural Classification using Pseudo 2D HMMs
Found in: 2012 IEEE International Conference on Granular Computing (GrC-2012)
By Hui Li,Jean-Claude Tounkara,Legand Burge,Chunmei Liu
Issue Date:August 2012
pp. 742-745
In this paper, we introduce a rapid method to classify protein structures. Instead of using the 3D structures of proteins directly, we used 2D inner-distance matrices converted from the 3D protein structures and extracted feature vectors from the 2D inner-...
 
Rapid generation of peptide sequence tags with a graph search algorithm
Found in: Bioinformatics and Biomedicine Workshop, IEEE International Conference on
By Hui Li,Chunmei Liu,Mugizi Rwebangira,Legand Burge,William Southerland
Issue Date:November 2011
pp. 251-254
Tandem mass spectrometry is a popular tool for the identification of peptide sequences. In this paper, we present a method for rapid generation of short peptide sequences via tandem mass spectrometry based on a graph search. The approach takes advantage of...
 
Rapid identification of multi-PTMs peptide sequence tags with a graph search approach
Found in: Bioinformatics and Biomedicine Workshop, IEEE International Conference on
By Hui Li,Chunmei Liu,Mugizi Rwebangira,Legand Burge,William Southerland
Issue Date:November 2011
pp. 247-250
Identifying post-translational modifications (PTMs) is a big challenge for proteomics. Mass spectrometry is a popular tool for the identification of peptide sequence. Here we present a method for rapid identification of PTMs by mass spectrometry based on g...
 
The development of a proteomic analyzing pipeline to identify proteins with multiple RRMs and predict their domain boundaries
Found in: Bioinformatics and Biomedicine Workshop, IEEE International Conference on
By Kyung Dae Ko,Chunmei Liu,Mugizi Robert Rwebangira,Legand Burge,William Southerland
Issue Date:November 2011
pp. 374-381
The RNA-recognition motif (RRM) is the most abundant RNA-binding domain involved in many post-transcriptional processes. Since RRM-containing proteins have different functions with similar domain architecture, it is challenging to implement an automated an...
 
A Heuristic Algorithm for Finding the Longest Pathways in a Biochemical Network
Found in: Machine Learning and Applications, Fourth International Conference on
By Chunmei Liu, Hui Li, Alison Leonce, Legand Burge, John Trimble, Peter Keiller, Abdul-Aziz Yakubu
Issue Date:December 2010
pp. 515-522
Finding the longest cycle is a novel concept in biochemical feedback loop analysis in systems biology. Biochemical networks are often represented as directed graphs in which vertices represent chemical compounds and edges represent chemical reactions betwe...
 
Peptide Sequence Tag-Based Blind Identification-based SVM Model
Found in: Machine Learning and Applications, Fourth International Conference on
By Hui Li, Chunmei Liu, Xumin Liu, Macire Diakite, Legand Burge, Abdul-Aziz Yakubu, William Southerland
Issue Date:December 2010
pp. 979-984
Identifying the ion types for a mass spectrum is essential for interpreting the spectrum and deriving its peptide sequence. In this paper, we proposed a novel method for identifying ion types and deriving matched peptide sequences for tandem mass spectra. ...
 
A Multi-Signature Scheme Based on Two Difficult Mathematics Problems
Found in: Information Technology: New Generations, Third International Conference on
By Bin Sun, Wang Chuan, Jiang Li, Legand Burge
Issue Date:April 2009
pp. 350-355
This paper proposes a novel multi-signature scheme to meet the requirements of the practical application of office automation systems. The scheme is based on sequential and broadcasting multi-signature schemes, each of which solves a difficult mathematics ...
 
IRCDB: A Database of Inter-residues Contacts in Protein Chains
Found in: Advances in Databases, First International Conference on
By Peng Chen, Chunmei Liu, Legand Burge, Mahmood Mohammad, Bill Southerland, Clay Gloster, Bing Wang
Issue Date:March 2009
pp. 1-6
In protein structure prediction, identifying the inter-residue contacts is a very important task to understand the mechanism of complicated protein folding and therefore to predict three-dimensional structures of proteins. So far, many methods were develop...
 
Prediction of Inter-residue Contact Clusters from Hydrophobic Cores
Found in: Machine Learning and Applications, Fourth International Conference on
By Peng Chen, Chunmei Liu, Legand Burge, Mahmood Mohammad, Bill Southerland, Clay Gloster
Issue Date:December 2008
pp. 703-708
Motivation: Contact map is a key factor to represent a specific protein structure. As previous work reported, even a corrupted contact map can be used to reconstruct its corresponding protein structure. Thus we can predict the structure of a protein partia...
 
Multicast Using Static Trees
Found in: Information Technology: New Generations, Third International Conference on
By Jiang Li, Moses Garuba, Legand Burge
Issue Date:April 2008
pp. 1046-1052
IP multicast has been known to have deployment difficulties. Among many contributing factors, the model per se is probably one of the most critical. Overlay multicast does not solve all the problems either. We therefore proposed a new multicast architectur...
 
Comparative Analysis of Email Filtering Technologies
Found in: Information Technology: New Generations, Third International Conference on
By Moses Garuba, Jiang Li, Legand Burge
Issue Date:April 2007
pp. 785-789
Different filtering technologies are currently in use with varying results. This paper reviews and compares a number of them by focusing on the expectation of their users and their actual capabilities.
 
Improving Retention of Minority Freshmen in Engineering by Applying the Six Sigma Methodology
Found in: Information Technology: Coding and Computing, International Conference on
By Legand Burge III, Moses Garuba, Charita Brent
Issue Date:April 2004
pp. 723
In response to the pressing need to increase the pool of future engineers, the engineering academia are focusing on improving the persistence rate of underrepresented minority students in the engineering program. This has led to various studies into the fa...
 
A Constraint-Based Query Modification Engine for Retrofitting COTS DBMS's
Found in: Information Technology: Coding and Computing, International Conference on
By Moses Garuba, Ronald Langrin, Legand Burge
Issue Date:April 2004
pp. 551
Models have been proposed to ensure the secrecy of data using various strategies. A number of these models however do not adequately address the problem of inference. This paper describes the design and implementation of a prototype that uses query modific...
 
The Design and Implementation of the MESSENGER Trajectory Database
Found in: Information Technology: Coding and Computing, International Conference on
By Joseph Gill, Legand Burge, Moses Garuba
Issue Date:April 2004
pp. 557
The MESSENGER Trajectory Database provides an informative and captivating means of depicting the planned trajectory and mission plan for NASA's MESSENGER Mercury Orbiter Discovery mission scheduled to launch in 2004. The database comprises state of the art...
 
Performance Study of a MLS/DBMS Implemented as a Kernelized Architecture
Found in: Information Technology: Coding and Computing, International Conference on
By Moses Garuba, Edward Appiah, Legand Burge III
Issue Date:April 2004
pp. 566
Although users of multi-level secure database management system (MLS/DBMS) continue to rely on existing systems to satisfy their multi-level security needs, these systems no longer enjoy direct commercial-off-the-shelf (COTS) support. This calls for a rene...
 
Intensity-Based Skeletonization of CryoEM Gray-Scale Images Using a True Segmentation-Free Algorithm
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
By Chunmei Liu, Jing He, Kamal Al Nasr, Legand Burge, Mugizi Rwebangira
Issue Date:September 2013
pp. 1289-1298
Cryo-electron microscopy is an experimental technique that is able to produce 3D gray-scale images of protein molecules. In contrast to other experimental techniques, cryo-electron microscopy is capable of visualizing large molecular complexes such as viru...
     
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