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Publications & Acknowledgment

Publications & Acknowledgment

List of Scholarly Publications

Work Facilitated by Research Computing Resources

The following lists scholarly publications, dissertations, and theses facilitated by Boise State Research Computing services. NOTE: This list is always incomplete and out of date.

Email researchcomputing@boisestate.edu if you need to add to the list.

2023
  1. White, Gwen and Jankowski, Eric, “Development of Reproducible Workflows for Quantum Chemical Parameterization and Validation of Model Organic Photovoltaics” (2023). 2023 Undergraduate Research Showcase. 83. 10.10.18122/oit/3/boisestate.
  2. Kyanjo, Brian; Calhoun, Donna; Burstedde, C.; Aiton, S.; Snively, J.; and Shih, M., “GPU Accelerated Adaptive Wave Propagation Algorithm” (2023). Research Computing Days 2023. 13. 10.10.18122/oit/3/boisestate.
2022
  1. White, Gwen . Jankowski, Eric . Fothergill, Jenny and Rushing, James. 2022. Patching Force Fields of Organic Materials Through Open Scientific Software Development. DOI: 10.10.18122/oit/3/boisestate.
2021
  1. Michael D. Ekstrand and Daniel Kluver. 2021. Exploring Author Gender in Book Rating and Recommendation. User Modeling and User-Adapted Interaction (February 2021). DOI: 10.1007/s11257-020-09284-2.
  2. Bailey, C., and J. Filzen. May 2021. “Audit Committees and Risk Factor Disclosure in the US.” American Accounting Association’s 2021 Spark: Meeting of the Regions, virtual.
  3. Rift, Anna; Shankar, Ravi; and Popoola, Tobi G., “SPF: Sparse Polyhedral Framework and Friends” (2021). Research Computing Days 2021. 4.
    https://scholarworks.boisestate.edu/rcd_2021/4
  4. Klopfenstein, Mia; Elliston, Emily; White, Gwen; Fothergill, Jenny; Jones, Chris; Rushing, Jimmy; and Jankowski, Eric, “Using Computational Tools to Accelerate Discovery of High-Efficiency Solar Cell Materials” (2021). Research Computing Days 2021. 3.
    https://scholarworks.boisestate.edu/rcd_2021/3
  5. CHiLL-I/E: Ravi Shankar and Tobi Popoola Boise State’s Research Computing Department. 2017. R2: Dell HPC Intel E5v4 (High Performance Computing Cluster). Boise, ID: Boise State University. DOI: 10.18122/B2S41H
2020
  1. Eric Jankowski, Neale Ellyson, Jenny Fothergill, Michael Henry, Mitchell Leibowitz, Evan Miller, Mone’t Alberts, Samantha Chesser, Jaime Guevara, Chris Jones, Mia Klopfenstein, Kendra Noneman, Rachel Singleton, Ramon Uriarte, Mendoza, Stephen Thomas, Carla Estridge Matthew Jones, “Perspective on coarse-graining, cognitive load, and materials simulation”, (2020) Computational Materials Science, Volume 171, 2020, 109129. DOI:10.1016/j.commatsci.2019.109129
  2. Medha Veligatla, Christian Titsch, Welf-Guntram Drossel, Carlos Garcia, Cervera, Peter Müllner, “Sensitivity of Twin Boundary Movement to Sample orientation and magnetic field direction in Ni-Mn-Ga”, (2020). Acta Materialia Volume 186, 2020, 389 -395.  DOI: 10.1016/j.actamat.2020.01.011
  3. Mucun Tian and Michael D. Ekstrand. 2020. Estimating Error and Bias in Offline Evaluation Results. In Proceedings of the 2020 Conference on Human Information Interaction and Retrieval (CHIIR ’20). Association for Computing Machinery, New York, NY, USA, 392–396 DOI: 10.1145/3343413.3378004
2019
  1. Tian, Mucun, “Estimating Error and Bias of Offline Recommender System Evaluation Results” (2019). Boise State University Theses and Dissertations. 1581. 10.18122/td/1581/boisestate
  2. Cynthia L. Curl, Jessica Porter, Ian Penwell, Rachel Phinney, Maria Ospina, Antonia M. Calafat, “Effect of a 24-week randomized trial of an organic produce intervention on pyrethroid and organophosphate pesticide exposure among pregnant women,” Environment International, Volume 132, 2019, 104957.      DOI: 10.1016/j.envint.2019.104957.
  3. Bendixsen DP, Collet J, Østman B, Hayden EJ, “Genotype network intersections promote evolutionary innovation,” PLOS Biology 17(5):e3000300, 2019.
  4. Evan D. Miller, Matthew L. Jones, Mike M. Henry, Bryan Stanfill and Eric Jankowski, Machine learning predictions of electronic couplings for charge transport calculations of P3HT, AIChE Journal, 65, 12, (2019).                            DOI: 10.1002/aic.16760
  5. Veligatla, Medha, “Effects of Magnetic Domain and Twin Boundary Interactions on Magneto-Mechanical Properties of Magnetic Shape Memory Alloys” (2019). Boise State University Theses and Dissertations. 1624.
    DOI: 10.18122/td/1624/boisestate
  6. Madilyn E. Paul, Thiago H. da Silva, and Matthew D. King, “True Polymorphic Phase Transition or Dynamic Crystal Disorder? An Investigation into the Unusual Phase Behavior of Barbituric Acid Dihydrate”. Crystal Growth & Design 2019 19 (8), 4745-4753DOI: 10.1021/acs.cgd.9b00633
  7. Schuck, C.F., Roy, S.K., Garrett, T. et al. Anomalous Stranski-Krastanov growth of (111)-oriented quantum dots with tunable wetting layer thickness. Sci Rep 9, 18179 (2019).DOI: 10.1038/s41598-019-54668-z
  8. da Silva, T.H., Rexrode, N.R. & King, M.D. Time-Domain Terahertz Spectroscopy and Solid-State Density Functional Theory Analysis of p-Nitrophenol Polymorphs. J Infrared Milli Terahz Waves (2019).DOI: 10.1007/s10762-019-00653-6
  9. Lawson, M., Horn, J., Wong-Ng, W., Espinal, L., Lapidus, S., Nguyen, G., Nguyen, H.,  Meng, Y., Suib, S., Kaduk, J., and Li, L. (2019). First-principles study of carbon capture and storage properties of porous MnO2 octahedral molecular sieve OMS-5. Powder Diffraction, 34(1), 13-20. DOI: 10.1017/S0885715619000010
  10. Zongbo Xu, T Dylan Mikesell, Gabriel Gribler, Aurélien Mordret, “Rayleigh-wave multicomponent cross-correlation-based source strength distribution inversion. Part 1: Theory and numerical examples”. Geophysical Journal International, Volume 218, Issue 3, September 2019, Pages 1761–1780.DOI: 10.1093/gji/ggz261
  11. Lakshminarasimhan, Mahesh, “Application-Specific Memory Subsystem Benchmarking” (2019). Boise State University Theses and Dissertations. 1534.DOI: 10.18122/td/1534/boisestate
  12. Tobiason, Michael D., “In Silico Sequence Optimization for the Reproducible Generation of DNA Structures” (2019). Boise State University Theses and Dissertations. 1614.DOI: 10.18122/td/1614/boisestate
  13. Schuck, Christopher, “(111)-Oriented Gallium Arsenide Tensile-Strained Quantum Dots Tailored for Entangled Photon Emission” (2019). Boise State University Theses and Dissertations. 1547.DOI: 10.18122/td/1547/boisestate
  14. N. Majid and E. H. Barney Smith, “Performance Comparison of Scanner and Camera-Acquired Data for Bangla Offline Handwriting Recognition,” 2019 International Conference on Document Analysis and Recognition Workshops (ICDARW), Sydney, Australia, 2019, pp. 31-36.                                                            DOI: 10.1109/ICDARW.2019.30061
  15. Shankar, N. Ilangakoon, A. Orenstein, F. Ciaglia, N. Glenn and C. Olschanowsky, “AdaptLidarTools: A Full-Waveform Lidar Processing Suite,” 2019 15th International Conference on eScience (eScience), San Diego, CA, USA, 2019, pp. 369-377. DOI: 10.1109/eScience.2019.00048
  16. Sikorski, Ember & Silva, Thiago & Aagesen, Larry & Jaques, Brian & Li, Lan. (2019). First-principles comparative study of UN and Zr corrosion. Journal of Nuclear Materials. 523. DOI: 10.1016/j.jnucmat.2019.06.017.
  17. Dhulipati, Chithkala and Kopera, Michal, “Simulations of Ocean Circulation Under an Ice-Shelf: Problem Feasibility Study Using Non-Hydrostatic Unified Model of the Ocean (NUMO)” (2019). 2019 Undergraduate Research and Scholarship Conference. 42.https://scholarworks.boisestate.edu/cgi/viewcontent.cgi?article=1041&context=under_conf_2019
  18. Martin, Sean, Matthew Larson, and Lan Li, “First-Principles Study For ALD of MoS2” (2019). 2019 Idaho Conference on Undergraduate Research. 86.https://www.boisestate.edu/coen-msereu/files/2020/01/Sean-Martin.pdf
2018
  1. Thiago H. da Silva, Eric B. Nelson†, Izaak Williamson, Corey M. Efaw, Erik Sapper, Michael F. Hurley, Lan Li*, “First-Principles Surface Interaction Studies of Aluminum-Copper and Aluminum-Copper-Magnesium Secondary Phases in Aluminum Alloys,” Applied Surface Science, accepted, 2018.
  2. Eddie C. Davis, Michelle Mills Strout, and Catherine Olschanowsky (Boise State University, USA; University of Arizona, USA) Transforming Loop Chains via Macro Dataflow Graphs. 2018 IEEE/ACM International Symposium on Code Generation and Optimization (CGO), February 24–28, 2018, Vienna, Austria.
  3. Michael D. Ekstrand. 2018. The LKPY Package for Recommender Systems Experiments: Next-Generation Tools and Lessons Learned from the LensKit Project. Computer Science Faculty Publications and Presentations 147. Boise State University. Presented at the REVEAL 2018 Workshop on Offline Evaluation for Recommender Systems, a workshop at RecSys 2018. DOI 10.18122/cs_facpubs/147/boisestate. arXiv:1809.03125 [cs.IR].
  4. Michael D. Ekstrand, Mucun Tian, Mohammed R. Imran Kazi, Hoda Mehrpouyan, and Daniel Kluver. 2018. Exploring Author Gender in Book Rating and Recommendation. In Proceedings of the 12th ACM Conference on Recommender Systems (RecSys ’18). ACM. DOI 10.1145/3240323.3240373. arXiv:1808.07586v1[cs.IR]
  5. Michael D. Ekstrand, Mucun Tian, Ion Madrazo Azpiazu, Jennifer D. Ekstrand, Oghenemaro Anuyah, David McNeill, and Maria Soledad Pera. 2018. All The Cool Kids, How Do They Fit In?: Popularity and Demographic Biases in Recommender Evaluation and Effectiveness. In Proceedings of the 1st Conference on Fairness, Accountability and Transparency (FAT* 2018). pmlr, Proceedings of Machine Learning Research 81:172–186.
  6. Miller, E.D.; Jones, M.L.; Henry, M.M.; Chery, P.; Miller, K.; Jankowski, E. Optimization and Validation of Efficient Models for Predicting Polythiophene Self-Assembly. Polymers 2018, 10, 1305.
  7. Mucun Tian and Michael D. Ekstrand. 2018. Monte Carlo Estimates of Evaluation Metric Error and Bias. Computer Science Faculty Publications and Presentations 148. Boise State University. Presented at the REVEAL 2018 Workshop on Offline Evaluation for Recommender Systems, a workshop at RecSys 2018. DOI 10.18122/cs_facpubs/148/boisestate. NSF PAR 10074452.
  8. Thomas, Stephen, “New Methods for Understanding and Controlling the Self-Assembly of Reacting Systems Using Coarse-Grained Molecular Dynamics” (2018). Boise State University Theses and Dissertations.1448.10.18122/td/1448/boisestate
  9. Bendixsen, Devin P, “EMPIRICAL INVESTIGATIONS OF RNA FITNESS LANDSCAPES: Harnessing the power of high-throughput sequencing and evolutionary simulations,” Boise State University Theses and Dissertations, 2018.
  10. Jenny W. Fothergill, Andres C. Hernandez, William B. Knowlton, Bernard Yurke, and Lan Li, “Ab Initio Studies of Exciton Interactions of Cy5 Dyes”, (2018). The Journal of Physical Chemistry 122 (46), 8989-8997DOI: 10.1021/acs.jpca.8b05237
  11. Marnaus, Sven, M. Lawson, L. Li, “Two Dimensional Electronic Materials: Transition Metals Dichalcogenides” (2018). 2018 Idaho Conference on Undergraduate Research. 88.https://www.boisestate.edu/coen-msereu/files/2020/01/Sven-Marnauzs.pdf
2017
  1. Michael D. Ekstrand and Maria Soledad Pera. 2017. The Demographics of Cool: Popularity and Recommender Performance for Different Groups of Users. In RecSys 2017 Poster Proceedings. CEUR, Workshop Proceedings 1905.
  2. S. C, Pandey, X. Xu, I. Williamson, E. B. Nelson, L. Li, “Electronic and vibrational properties of transition metal-oxides: Comparison of GGA, GGA+U, and hybrid approaches,” Chemical Physics Letters, 669, 1-8, 2017.
  3. K. Tolman, R. Ubic, B. Liu, I. Williamson, K. Bedke, E.B. Nelson, L. Li, and X.M. Chen, “Empirical Evidence for A-site Order in Perovskites,” Journal of the American Ceramic Society, 100, 429-442, 2017.
  4. I. Williamson, S. Li, A. C. Hernandez, M. Lawson, Y. Chen, L. Li, “Structural, electrical, phonon, and optical properties of Ti- and V-doped two-dimensional MoS2,” Chemical Physics Letters, 674, 157-163, 2017.
  5. W. Wong-Ng, G. Liu, I. Levin, I. Williamson, A. Correa Hernandez, J.A. Kaduk, L. Li, “Crystallographic studies of Ba12Nb8-xTaxCo4O36 (x=1,3,4,5,7),” Solid State Sciences, 71, 3-7, 2017.
2016
  1. Pauli, B.P., Spaul, R.J. and J.A. Heath. 2016. Forecasting disturbance effects on wildlife: tolerance does not mitigate effects of increased recreation on wildlands. Animal Conservation 20:251–260. DOI: 10.1111/acv.12308
  2. I. Williamson, A. Correa Hernandez, W. Wong-Ng, and L. Li, “High-throughput computational screening of electrical and phonon properties of two-dimensional transition metal dichalcogenides,” TMS JOM, 68, 2666-2672, 2016.
  3. I. Williamson, L. J.-Y. Her, X. Su, Y. Yan, W. Wong-Ng, L. Li, “Improved thermoelectric performance of (Fe,Co)Sb3-type skutterudites from first-principles,” Journal of Applied Physics 119, 055101 (8pp), 2016.
  4. W Wong-Ng, G Liu, I Levin, I Williamson, P Ackerman, KR Talley, J Martin, K AlHamdan, W Badegaish, JA Kaduk, L Li, “X-ray diffraction and density functional theory studies of R (Fe0.5Co0.5) O3 (R= Pr, Nd, Sm, Eu, Gd)”, Power Diffraction 31, 259-266, 2016.
2015
  1. Williamson, E. B. Nelson, and L. Li, “Carbon dioxide sorption in a nanoporous octahedral molecular sieve,” Journal of Physics D: Applied Physics 48, 335304 (7pp), 2015.
  2. Wong-Ng, J.A. Kaduk, D. L. Siderius, A. L. Allen, L. Espinal, B. M. Boyerinas, I. Levin, M.R. Suchomel, J. Ilavsky, L. Li, I. Williamson, E. Cockayne, and H. Wu, “Reference Diffraction Patterns, Microstructure, and Pore Size Distribution for the Copper (II) benzene-1,3,5-tricarboxylate Metal Organic Framework (Cu-BTC) Compounds”, Powder Diffraction 30, 2-13, 2015.
2013

L Li, E. Cockayne, I. Williamson, L. Espinal, and W. Wong-Ng, “First-Principles Studies of Carbon Dioxide Adsorption in Cryptomelane/Hollandite-Type Manganese Dioxide”, Chemical Physics Letters, 580, 120-125, 2013.

How to Acknowledge Research Computing

Acknowledgment

Help us ensure continued support from internal and external resources, such as NSF and others, for future HPC systems by helping us to identify R2 and/or Borah and Research Computing personnel-supported scientific results. You can do this through citation, acknowledgment, and/or by submitting an accomplishment statement directly to researchcomputing@boisestate.edu. Information about each of these options is detailed in the following sections.

We prefer that you cite your use of the R2 or Borah systems with the following citation format modified as needed to conform with citation style guidelines. Be sure to use the digital object identifiers (DOIs) as shown; they are unique to R2 and Borah.

CITATION FORMAT

For Borah
  • [1] Boise State’s Research Computing Department. 2020. Borah: Dell HPC (High Performance Computing Cluster). Boise, ID: Boise State University. DOI: 10.18122/oit/3/boisestate
For R2
  • [1] Boise State’s Research Computing Department. 2017. R2: Dell HPC Intel E5v4 (High Performance Computing Cluster). Boise, ID: Boise State University. DOI: 10.18122/B2S41H.

ACKNOWLEDGMENT FORMATS

Acknowledgments are more difficult to track electronically because of the many possible variations, but you may choose to acknowledge support from Boise State’s Research Computing Department if the citation method described previously is inappropriate. You may modify the following example as appropriate; however, please include at least the DOI in the acknowledgment text, as you would include funding agency award numbers.

Borah ACKNOWLEDGMENT
  • We would like to acknowledge high-performance computing support of the Borah compute cluster (DOI: 10.18122/oit/3/boisestate) provided by Boise State University’s Research Computing Department.
R2 ACKNOWLEDGMENT
  • We would like to acknowledge high-performance computing support of the R2 compute cluster (DOI: 10.18122/B2S41H) provided by Boise State University’s Research Computing Department.
PERSONNEL ACKNOWLEDGMENT

If any Research Computing staff member(s) assisted with the work in any way, please consider acknowledging their support in your publication. If you’d like to consider including a Research Computing staff member as a co-author on your publication, the following may help as guidelines for making that decision:

  • The staff member contributed significantly to the writing of the publication, data collection, data analysis, and/or grants funds were used to support Research Computing personnel activities
  • The publication or its results include a substantial amount of text about the work that the staff member contributed to (for example, if that staff member did a substantial amount of development and/or optimization of software)

If it’s decided that it’s appropriate to include the RC staff member should as a co-author on that publication, then author order can be negotiated among all the co-authors.

Accomplishment Statement

Upon completion of your project, we request that you provide a brief accomplishment statement that contains the following:

  • (a) the research results obtained using Boise State Research Computing resources,
  • (b) a list of scientific publications that resulted from this research,
  • (c) the names and affiliations of graduate students who used the resources, and
  • (d) the title, author, and relevant citation data for any theses or dissertations produced using the resources.

The accomplishment statement should be sent as a PDF to researchcomputing@boisestate.edu.