hpcf2014.bib

@article{CornishEtAl2014,
  author = {Cornish, Joseph P. and Sanchez-Alberola, Neus and
            ONeill, Patrick K. and O'Keefe, Ronald and Gheba, Jameel
            and Erill, Ivan},
  title = {Characterization of the {SOS} meta-regulon in the human gut
           microbiome},
  year = 2014,
  journal = {Bioinformatics},
  url = {http://bioinformatics.oxfordjournals.org/content/early/2014/01/21/bioinformatics.btt753.abstract},
  note = {(HPCF machines used: tara.)}
}
@techreport{StonkoStarzGaianoPeercy2014,
  author = {David Stonko and Michelle Starz-Gaiano and Bradford~E. Peercy},
  title = {Implementing a Numerical Package to Model Collective Cell
           Migration},
  number = {HPCF--2014--2},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/Stonko_Technical_Report.pdf},
  note = {(HPCF machines used: tara.)}
}
@misc{RaimThesis2014,
  author = {Andrew~M. Raim},
  title = {\emph{Computational Methods in Finite Mixtures using
           Approximate Information and Regression Linked to the Mixture Mean}},
  howpublished = {Ph.D. Thesis, Department of Mathematics and Statistics,
                  University of Maryland, Baltimore County},
  year = 2014,
  note = {(HPCF machines used: tara.)}
}
@article{PanUMBCReview2013,
  author = {Jane Pan and Gemma Gearhart and Shuai Jiang and Thomas~J. May},
  title = {Loss of Metabolic Oscillations in a
           Multicellular Computational Islet of the Pancreas},
  journal = {UMBC Review: Journal of Undergraduate Research},
  volume = 15,
  pages = {31--53},
  year = 2014,
  note = {(HPCF machines used: tara.)}
}
@article{Islet_LiB2014,
  author = {Gemma Gearhart and Shuai Jiang and Thomas~J. May and Jane Pan and
            Samuel Khuvis and Matthias~K. Gobbert and
            Bradford~E. Peercy and Arthur Sherman},
  title = {Dynamics of Computational Islet Simulations:
           Islets with Majority Mutated Open $\mathrm{K_{ATP}}$
           Channels Retain Bursting},
  journal = {Letters in Biomathematics},
  note = {[Invited paper for the inaugural issue of this journal,
          published originally in the
          Proceedings of the Sixth Symposium on BEER 2013]
          (HPCF machines used: tara.)},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/Islet_LiB2014.pdf}
}
@techreport{PoissonHPCF2014,
  author = {Samuel Khuvis and Matthias~K. Gobbert},
  title = {Parallel Performance Studies for an Elliptic Test Problem on the Cluster maya},
  number = {HPCF--2014--6},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/PoissonHPCF2014.pdf},
  note = {(HPCF machines used: maya.)}
}
@techreport{ParabolicHPCF2014,
  author = {Jonathan Graf and Matthias~K. Gobbert},
  title = {Parallel Performance Studies for a Parabolic Test Problem on the Cluster maya},
  number = {HPCF--2014--7},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  note = {(HPCF machines used: maya.)}
}
@techreport{HuangGobbertHPCF2014,
  author = {Xuan Huang and Matthias~K. Gobbert},
  title = {Parallel Performance Studies for a Three-Species Application Problem on the Cluster maya},
  number = {HPCF--2014--8},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  note = {(HPCF machines used: maya.)}
}
@techreport{StonkoKhuvisGobbertHPCF2014,
  author = {David Stonko and Samuel Khuvis and Matthias~K. Gobbert},
  title = {Numerical Methods to Solve 2-D and 3-D Elliptic
  Partial Differential Equations Using {M}atlab on the Cluster maya},
  number = {HPCF--2014--9},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/StonkoEtAl_HPCF2014.pdf},
  note = {(HPCF machines used: maya.)}
}
@techreport{SawtskiKhuvisGobbertHPCF2014,
  author = {Sarah Swatski and Samuel Khuvis and Matthias~K. Gobbert},
  title = {A Comparison of Solving the Poisson Equation Using Several Numerical Methods
  in {M}atlab and {O}ctave on the Cluster maya},
  number = {HPCF--2014--10},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/SwatskiEtAl_HPCF2014.pdf},
  note = {(HPCF machines used: maya.)}
}
@techreport{REU2014Team1,
  author = {Nancy Hong and Emily Jasien and Christopher Pagan and Daniel Xie
	    and Zana Coulibaly and Kofi~P. Adragni and Ian~F. Thorpe},
  title = {Nonlinear Measurers of Correlation and Dimensionality Reduction
	   with Application to Protein Motion},
  number = {HPCF--2014--11},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/REU2014Team1.pdf},
  note = {(HPCF machines used: maya.)}
}
@techreport{REU2014Team2,
  author = {Christopher Evans and Abigail Gartrell and Lauren Gomez and
	    Moise Mouyebe and Darius Oxley and Sai Kumar Popuri and 
	    Nagaraj~K. Neerchal and Amita Mehta},
  title = {Improving the Computational Efficiency of Downscaling {GCM} 
	   Data for Use in {SWAT}},
  number = {HPCF--2014--12},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/REU2014Team2.pdf},
  note = {(HPCF machines used: maya.)}
}
@techreport{REU2014Team3,
  author = {Annie Dai and David Palensky and Alex Piatski and Kendall Queen 
            and Gina Vockeroth and Teresa Lebair and Bradford~E. Peercy and 
	    Margaret Watts and Arthur Sherman},
  title = {Modeling the Building Blocks of the Pancreatic Islet:
	   Connecting Alpha, Beta, and Delta Cells},
  number = {HPCF--2014--13},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/REU2014Team3.pdf},
  note = {(HPCF machines used: maya.)}
}
@techreport{REU2014Team4,
  author = {Adam Cunningham and Gerald Payton and Jack Slettebak
            and Jordi Wolfson-Pou and Jonathan Graf and Xuan Huang and
            Samuel Khuvis and Matthias~K. Gobbert and Thomas Salter
	    and David~J. Mountain},
  title = {Pushing the Limits of the Maya Cluster},
  number = {HPCF--2014--14},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/REU2014Team4.pdf},
  note = {(HPCF machines used: maya.)}
}
@techreport{REU2014Team5,
  author = {Oluwapelumi Adenikinju and Julian Gilyard and Joshua Massey
	    and Thomas Stitt and Jonathan Graf and Xuan Huang and 
	    Samuel Khuvis and Matthias~K. Gobbert and Yu Wang and
	    Marc Olano},
  title = {Real Time Global Illumination Solutions to the
	   Radiosity Algorithm using Hybrid {CPU}/{GPU} Nodes},
  number = {HPCF--2014--15},
  institution = {UMBC High Performance Computing Facility,
                 University of Maryland, Baltimore County},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/REU2014Team5.pdf},
  note = {(HPCF machines used: maya.)}
}
@misc{Stonko_Masters_Thesis,
  author = {David~P. Stonko},
  title = {A Discrete, Three-Dimensional, Force-Based
               Mathematical Model of Collective Cell Migration},
  howpublished = {M.S.~Thesis,
                  Department of Mathematics and Statistics,
                  University of Maryland, Baltimore County},
  year = {2014},
  pdf = {http://userpages.umbc.edu/~gobbert/papers/Stonko_Masters_Thesis.pdf},
  note = {(HPCF machines used: tara.)}
}
@article{Weiblen_OptExpress2014,
  author = {R. J. Weiblen and A. Docherty and C. R. Menyuk and
	    L. B. Shaw and J. S. Sanghera and I. D. Aggarwal},
  journal = {Opt. Express},
  number = {18},
  pages = {22220--22231},
  publisher = {OSA},
  title = {Calculation of the expected output spectrum for a mid-infrared 
           supercontinuum source based on {A}s{2S3} chalcogenide 
           photonic crystal fibers},
  volume = {22},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/Weiblen_OptExpress2014.pdf},
  url = {http://www.opticsexpress.org/abstract.cfm?URI=oe-22-18-22220},
  note = {(HPCF machines used: tara.)}
}
@article{Hu_JLightwareTech_2014,
  author = {Hu, Y. and Marks, B.S. and Menyuk, C.R. and Urick, V.J. and Williams, K.J.},
  journal = {Journal of Lightwave Technology},
  title = {Modeling Sources of Nonlinearity in a Simple p-i-n Photodetector},
  year = {2014},
  volume = {32},
  number = {20},
  pages = {3710-3720},
  issn = {0733-8724},
  pdf = {http://userpages.umbc.edu/~gobbert/papers/Hu_JLightwareTech_2014.pdf},
  note = {(HPCF machines used: tara.)}
}
@misc{BrewsterThesis2014,
  author = {Matthew~W. Brewster},
  title = {The Influence of Stochastic Parameters
           on Calcium Waves in a Heart Cell},
  howpublished = {Senior thesis,
                  Department of Mathematics and Statistics,
                  University of Maryland, Baltimore County},
  year = 2014,
  pdf = {http://userpages.umbc.edu/~gobbert/papers/BrewsterThesis2014.pdf},
  note = {(HPCF machines used: tara.)}
}
@article{ONeill_EtAl_2014,
  author = {O'Neill, P.K.  and Forder, R. and Erill, I.},
  journal = {Journal of Computational Biology},
  title = {Informational requirements for transcriptional regulation},
  year = {2014},
  volume = {21},
  number = {5},
  pages = {373-384},
  temppdf = {http://userpages.umbc.edu/~gobbert/papers/ONeill_EtAl_2014.pdf},
  note = {(HPCF machines used: tara.)}
}