Bioinformatics Computing Laboratory (BCL)


BCL serves as a core facility for the Border Biomedical Research Center (BBRC) funded by the National Institute of Health (NIH Grant #G12MD007592). With a panel of consulting faculty from the departments of Biological Sciences, Chemistry, Computer Science, Electrical and Computer Engineering, and Mathematical Sciences, our bioinformatics computing support ranges from mathematical modeling to software usage, genomic and biomolecule analysis, including both the computational and experimental components in biomedical research. In particular, we provide services in developing databases and software for genomics and proteomics data analysis, biomolecular sequence analysis and structure prediction, and glycosylation site prediction. These research tools are implemented with the equipment in BCL, its satellite sites, and other high-performance computing facilities on UTEP campus. Web-based, user-friendly interfaces are built for these bioinformatics software tools to be utilized primarily by researchers in the border region. To enhance our support for cancer prevention and research with the concept of personalized medicine at a state level, BCL is also involved in developing reliable algorithms for digital patient ID systems using secure tags integrated with large-scale bioinformatics databases.

 

The following bioinformatics computing tools are available for open access; please contact us for further support services.

Visit RNA Virtual Lab... Visit ISOGlyP...

Visit PseudoBase++...

Run RNA Prediction...

 

Run RNA Segmentation...

Fee Schudule
  BBRC Investigators - No Charge
  Initial Consultation and Research Proposal Development - No Charge
  General Bioinformatics Computing Support - $80/hour
  Software Development and Computational Modeling - $120/hour
Download BCL Forms (fillable Word files)
  Account Request Form
  Damage and/or Malfunctioning of Computer Resources
 

Software Request Form

 

Special Computer Reservation Request Form


Consulting Faculty and Their Research Specialty Areas

  CX : Chuan "River" Xiao
 

EW: Elizabeth Walsh

 

KJ : Kyle Johnson

 

IA : Igor Almeida

  JZ : Jianying Zhang
 

ML: Ming-Ying Leung

 

MN: Mahesh Narayan

  NS : Naijun Sha
  OF : Olac Fuentes
  PT : Patricia Teller
 

RB : Ricardo Bernal

 

SA : Steve Aley

 

VK : Vladik Kreinovich

 

WQ: Wei Qian

 
Consulting Faculty Initials:
CX
EW
KJ
IA
JZ
ML
MN
NS
OF
PT
RB
SA
VK
WQ
  Cancer Biomarker Analysis                        
 

Cancer Informatics

 

 

 

 

 

 

 

 

 

 

 

 

 

Computational Biology

 

 

 

 

 

 

 

 

 

 

 
 

Cryo-EM Data Analysis

 

 

 

 

 

 

 

 

 

 

 

 
 

Data Processing Under Uncertainty

 

 

 

 

 

 

 

 

 

 

 

 

 
  Data Security and Computer Architecture                          
 

DNA and Next-Generation Sequencing

 

 

 

 

 

 

 

 

 

 

 

 

 
  Glycosylation Site Prediction  

 

 

 

 

 

 

 

 

 

 

 
 

Epidemiology

 

 

 

 

 

 

 

 

 

 

 

 

 
 

Evolution

 

 

 

 

 

 

 

 

 

 

 

 

 
  Genome Sequence Assembly  

 

 

 

 

 

 

 

 

 

 

 

 
  High-Performance Computing                          
 

Intelligent Data Processing

 

 

 

 

 

 

 

 

 

 

 

 

 
  Large-Scale Testing (TACC Supercomputer)                          
  Machine Learning  

 

 

 

 

 

 

 

 

 

 

 

 
  Macromolecule Assembly  

 

 

 

 

 

 

 

 

 

 

 

 
 

Mass Spectrometry

 

 

 

 

 

 

 

 

 

 

 

 

 
  Medical Imaging                          
  Microarray Analysis  

 

 

 

 

 

 

 

 

 

 

 
  Molecular Sequence Analysis  

 

 

 

 

 

 

 

 

 

 

 
  Optimization  

 

 

 

 

 

 

 

 

 

 

 

 
  Phylogenetic Analysis  

 

 

 

 

 

 

 

 

 

 

 
  Probabilistic Modeling  

 

 

 

 

 

 

 

 

 

 

 
  Protein Structure Prediction

 

 

 

 

 

 

 

 

 

 

 

 
 

Proteomics

 

 

 

 

 

 

 

 

 

 

 
  RNA Regulation                            
  RNA Structures  

 

 

 

 

 

 

 

 

 

 
  RNAi Screens                            
  Sequence Assembly  

 

 

 

 

 

 

 

 

 

 

 
 

Statistical Genetics and Genomics

 

 

 

 

 

 

 

 

 

 

 

 
  Tomography Data Analysis                            
  Toxicogenomics  

 

 

 

 

 

 

 

 

 

 

 

 
 

Viral Genomics

 

 

 

 

 

 

 

 

 

 

 
 

X-ray Crystallography

 

 

 

 

 

 

 

 

 

 

 

 

Acknowledgements

BCL is supported in part by the following grants:

National Institutes of Health (NIH): G12MD007592, S06GM08012-35, and 3T34GM008048-20S1

 

National Science Foundation (NSF): DMS#800272

   

Texas Higher Education Coordinating Board (THECB) Norman Hackerman Advanced Research Program (NHARP): 003661-0008-2006 and 003661-0013-2007

 

We also thank the support for the consulting faculty by the departments of Biological Sciences, Chemistry, Computer Science, Electrical and Computer Engineering, and Mathematical Sciences.