All Stories

  1. Interplay of Spatial Structure and Population Interactions in Microbial Communities

    Article • September 2025, MDPI AG

    Babak Momeni

  2. Recycling Li-ion Battery Cathode Materials in Iron Rich/Low Sulfate Cultures of Acidithiobacillus ferrooxidans

    Article • June 2025, American Chemical Society (ACS)

    Babak Momeni

  3. Revisiting the invasion paradox: Resistance-richness relationship is driven by augmentation and displacement trends

    Article • PLoS Computational Biology, June 2024, PLOS

    Babak Momeni

  4. Revisiting the invasion paradox: resistance-richness relationship is driven by augmentation and displacement trends

    Article • January 2024, Cold Spring Harbor Laboratory Press

    Babak Momeni

  5. Weakly alkaline conditions degrade aflatoxins through lactone ring opening

    Article • November 2023, Cold Spring Harbor Laboratory Press

    Babak Momeni

  6. Starch can expedite the screening for bacterial aflatoxin degraders

    Article • September 2023, Cold Spring Harbor Laboratory Press

    Babak Momeni

  7. Partner-assisted artificial selection of a secondary function for efficient bioremediation

    Article • iScience, September 2023, Elsevier

    Babak Momeni

  8. When does a Lotka-Volterra model represent microbial interactions? Insights from in vitro nasal bacterial communities

    Article • mSystems, June 2023, ASM Journals

    Babak Momeni

  9. Spatial structure favors microbial coexistence except when slower mediator diffusion weakens interactions

    Article • eLife, June 2023, eLife

    Babak Momeni

  10. Probing the mutational landscape of the SARS-CoV-2 spike protein via quantum mechanical modeling of crystallographic structures

    Article • PNAS Nexus, September 2022, Oxford University Press (OUP)

    Babak Momeni

  11. When does a Lotka-Volterra model represent microbial interactions? Insights from in-vitro nasal bacterial communities

    Article • August 2022, Cold Spring Harbor Laboratory Press

    Babak Momeni

  12. Spatial structure may favor or disfavor microbial coexistence

    Article • August 2022, Cold Spring Harbor Laboratory Press

    Babak Momeni

  13. Partner-assisted artificial selection of a secondary function for efficient bioremediation

    Article • May 2022, Cold Spring Harbor Laboratory Press

    Babak Momeni

  14. Current and Emerging Tools of Computational Biology To Improve the Detoxification of Mycotoxins

    Article • Applied and Environmental Microbiology, February 2022, ASM Journals

    Babak Momeni

  15. Mechanistic investigation of SARS-CoV-2 Omicron variant spike mutants via full quantum mechanical modeling

    Article • December 2021, Cold Spring Harbor Laboratory Press

    Babak Momeni

  16. Anticipating future SARS-CoV-2 variants of concern through ab initio quantum mechanical modeling

    Article • November 2021, Cold Spring Harbor Laboratory Press

    Babak Momeni

  17. Enzyme fatigue limits the detoxification of aflatoxin by Rhodococcus species

    Article • August 2021, Cold Spring Harbor Laboratory Press

    Babak Momeni

  18. Computational biology for enzymatic removal of mycotoxins

    Article • May 2021, Center for Open Science

    Babak Momeni

  19. The impact of interactions on invasion and colonization resistance in microbial communities

    Article • PLoS Computational Biology, January 2021, PLOS

    Babak Momeni

  20. Impact of temporal pH fluctuations on the coexistence of nasal bacteria

    Article • September 2020, Cold Spring Harbor Laboratory Press

    Babak Momeni

  21. The impact of interactions on invasion and colonization resistance in microbial communities

    Article • June 2020, Cold Spring Harbor Laboratory Press

    Babak Momeni

  22. Tramesan Elicits Durum Wheat Defense against the Septoria Disease Complex

    Article • Biomolecules, April 2020, MDPI AG

    Babak Momeni

  23. Tramesan Elicits Durum Wheat Defence Against the Septoria Leaf Blotch Complex

    Article • March 2020, MDPI AG

    Babak Momeni

  24. Full quantum mechanical modeling of the enzyme-substrate system: how laccase detoxifies aflatoxin

    Article • March 2020, Cold Spring Harbor Laboratory Press

    Babak Momeni

  25. Bacterial and plant produced lipids can exacerbate the Olive Quick Decline Syndrome caused byXylella

    Article • December 2019, Cold Spring Harbor Laboratory Press

    Babak Momeni

  26. Designing a bioremediator: mechanistic models guide cellular and molecular specialization

    Article • July 2019, PeerJ

    Babak Momeni

  27. Uncovering and resolving challenges of quantitative modeling in a simplified community of interacting cells

    Article • PLoS Biology, February 2019, PLOS

    Babak Momeni

  28. Division of Labor: How Microbes Split Their Responsibility

    Article • Current Biology, June 2018, Elsevier

    Babak Momeni

  29. Modeling Microbial Communities: A Call for Collaboration between Experimentalists and Theorists

    Article • Processes, September 2017, MDPI AG

    Babak Momeni

  30. Lotka-Volterra pairwise modeling fails to capture diverse pairwise microbial interactions

    Article • eLife, March 2017, eLife

    Babak Momeni

  31. The validity of pairwise models in predicting community dynamics

    Article • June 2016, Cold Spring Harbor Laboratory Press

    Babak Momeni

  32. Challenges in microbial ecology: building predictive understanding of community function and dynamics

    Article • The ISME Journal, March 2016, Nature

    Dr Jan-Ulrich Kreft, Dr Ottavio A Croze, Prof. Markus Ralser, Babak Momeni

  33. Correction: Strong inter-population cooperation leads to partner intermixing in microbial communities

    Article • eLife, April 2014, eLife

    Babak Momeni

  34. Simulating Microbial Community Patterning Using Biocellion

    Article • January 2014, Springer Science + Business Media

    Babak Momeni

  35. Spatial self-organization favors heterotypic cooperation over cheating

    Article • eLife, November 2013, eLife

    Dr Adam James Waite, Babak Momeni

  36. Strong inter-population cooperation leads to partner intermixing in microbial communities

    Article • eLife, January 2013, eLife

    Babak Momeni

  37. Cryosectioning Yeast Communities for Examining Fluorescence Patterns

    Article • Journal of Visualized Experiments, December 2012, MyJove Corporation

    Babak Momeni

  38. Cryosectioning Yeast Communities for Examining Fluorescence Patterns

    Article • Journal of Visualized Experiments, December 2012, MyJove Corporation

    Babak Momeni

  39. High resolution on-chip spectroscopy based on miniaturized microdonut resonators

    Article • Optics Express, June 2011, Optical Society of America (OSA)

    Babak Momeni

  40. Using artificial systems to explore the ecology and evolution of symbioses

    Article • Cellular and Molecular Life Sciences, March 2011, Springer Science + Business Media

    Babak Momeni

  41. Absorbing boundary conditions for low group velocity electromagnetic waves in photonic crystals

    Article • Applied Optics, March 2011, Optical Society of America (OSA)

    Babak Momeni

  42. Silicon microring resonator sensor with integrated PC spectrometer for sharp spectral features detection

    Article • November 2010, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  43. Athermal performance in high-Q polymer-clad silicon microdisk resonators

    Article • Optics Letters, October 2010, Optical Society of America (OSA)

    Babak Momeni

  44. Demonstration of high resolution SOI spectrometer with miniaturized disks

    Article • September 2010, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  45. Silicon nanophotonic devices for integrated lab-on-a-chip sensing

    Article • August 2010, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  46. Systematic Design of Wide-Bandwidth Photonic Crystal Waveguide Bends With High Transmission and Low Dispersion

    Article • Journal of Lightwave Technology, June 2010, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  47. Hybrid photonic surface-plasmon-polariton ring resonators for sensing applications

    Article • Applied Physics B Photophysics and Laser Chemistry, May 2010, Springer Science + Business Media

    Babak Momeni

  48. Tuning of resonance-spacing in a traveling-wave resonator device

    Article • Optics Express, April 2010, Optical Society of America (OSA)

    Babak Momeni

  49. Propagation loss analysis in photonic crystal waveguides using a complex-band technique

    Article • February 2010, SPIE

    Babak Momeni

  50. Cascaded silicon-nitride integrated spectrometers for wideband high-resolution spectral interrogation

    Article • February 2010, SPIE

    Babak Momeni

  51. An on-chip silicon grating spectrometer using a photonic crystal reflector

    Article • Journal of Optics, January 2010, Institute of Physics Publishing

    Babak Momeni

  52. Large-Scale Array of Miniaturized Microdonut Resonators for High Resolution On-Chip Spectroscopy

    Article • January 2010, Optical Society of America (OSA)

    Babak Momeni

  53. Adiabatic Perfectly Matched Layer for Absorbing Slow Group Velocity Modes in Numerical Simulation of Photonic Crystal Waveguides

    Article • January 2010, Optical Society of America (OSA)

    Babak Momeni

  54. Compact planar silicon-nitride microspectrometers

    Article • October 2009, CrossRef Test Account

    Babak Momeni

  55. Athermal operation in polymer-clad silicon microdisk resonators

    Article • October 2009, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  56. Large-scale array of small high-Q microdisk resonators for onchip spectral analysis

    Article • October 2009, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  57. Planar photonic crystal microspectrometers in silicon-nitride for the visible range

    Article • Optics Express, September 2009, Optical Society of America (OSA)

    Babak Momeni

  58. Integrated photonic crystal spectrometers for sensing applications

    Article • Optics Communications, August 2009, Elsevier

    Babak Momeni

  59. Silicon nanophotonic devices for integrated sensing

    Article • Journal of Nanophotonics, April 2009, SPIE

    Babak Momeni

  60. On-chip photonic crystal-based micro-interferometers with high spectral sensitivity

    Article • February 2009, SPIE

    Babak Momeni

  61. On-chip spectrometers for visible and infrared sensing applications

    Article • February 2009, SPIE

    Babak Momeni

  62. Three-dimensional photonic crystal demultiplexers

    Article • February 2009, SPIE

    Babak Momeni

  63. Compact on-chip interferometers with high spectral sensitivity

    Article • Optics Letters, January 2009, Optical Society of America (OSA)

    Babak Momeni

  64. Broadband Integrated Spectrometers in Silicon-Nitride for Spectral Analysis in Sensing Applications

    Article • January 2009, Optical Society of America (OSA)

    Babak Momeni

  65. Interferometrically-coupled traveling-wave resonators for nonlinear optics applications

    Article • January 2009, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  66. Lab-on-a-chip sensing using ultra-compact Si nanophotonic structures

    Article • January 2009, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  67. Temperature-Insensitive Silicon Microdisk Resonators Using Polymeric Cladding Layers

    Article • January 2009, Optical Society of America (OSA)

    Babak Momeni

  68. Strong Mode Coupling in Hybrid Plasmonic-Photonic Microresonators Using Momentum Matching

    Article • January 2009, Optical Society of America (OSA)

    Babak Momeni

  69. Enhancing the guiding bandwidth of photonic crystal waveguides on silicon-on-insulator

    Article • Optics Letters, November 2008, Optical Society of America (OSA)

    Babak Momeni

  70. Three-dimensional photonic crystal demultiplexers

    Article • November 2008, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  71. Implementation of a coupling-tunable resonator for efficient high-bandwidth nonlinear silicon photonics applications

    Article • November 2008, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  72. Strong angular dispersion using higher bands of planar silicon photonic crystals

    Article • Optics Express, August 2008, Optical Society of America (OSA)

    Babak Momeni

  73. Fast and efficient analysis and design of three-dimensional photonic crystal structures for functional dispersive devices

    Article • May 2008, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  74. Implementation of high resolution planar wavelength demultiplexers using strong dispersion in photonic crystals

    Article • May 2008, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  75. Modeling the propagation of optical beams in three-dimensional photonic crystals

    Article • Journal of the Optical Society of America B, April 2008, Optical Society of America (OSA)

    Babak Momeni

  76. Analysis of scattering losses in photonic crystal structures using a Green's function-based approach

    Article • February 2008, SPIE

    Babak Momeni

  77. Design and applications of strongly dispersive photonic crystal structures

    Article • February 2008, SPIE

    Babak Momeni

  78. Efficient coupling of light into the planar photonic crystal waveguides in the slow group velocity regime

    Article • February 2008, SPIE

    Babak Momeni

  79. Engineering of planar photonic crystal waveguides on silicon-on-insulator for larger guiding bandwidth

    Article • February 2008, SPIE

    Babak Momeni

  80. Polymer nanocomposite infiltration of silicon photonic crystals

    Article • February 2008, SPIE

    Babak Momeni

  81. Highly Sensitive Compact On-Chip Micro-Interferometers

    Article • January 2008, Optical Society of America (OSA)

    Babak Momeni

  82. Planar photonic crystals infiltrated with nanoparticle/polymer composites

    Article • Applied Physics Letters, November 2007, American Institute of Physics

    Babak Momeni

  83. Accurate and efficient techniques for the analysis of reflection at the interfaces of three-dimensional photonic crystals

    Article • Journal of the Optical Society of America B, November 2007, Optical Society of America (OSA)

    Babak Momeni

  84. High-resolution compact photonic crystal devices for integrated wavelength demultiplexing

    Article • October 2007, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  85. Chip-Scale Photonic Crystal Spectrometers with High Resolution for Lab-on-a-chip Sensing Applications

    Article • May 2007, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  86. Effective impedance model for analysis of reflection at the interfaces of photonic crystals

    Article • Optics Letters, March 2007, Optical Society of America (OSA)

    Babak Momeni

  87. Compact photonic crystal demultiplexers and spectrometers

    Article • February 2007, SPIE

    Babak Momeni

  88. Optimal photonic crystal bends with linear dispersion

    Article • February 2007, SPIE

    Babak Momeni

  89. Compact demultiplexers and spectrometers for integrated photonics

    Article • SPIE Newsroom, January 2007, SPIE

    Babak Momeni

  90. Ultra-Compact On-Chip Photonic Crystal Interferometers with High Sensitivity

    Article • January 2007, Optical Society of America (OSA)

    Babak Momeni

  91. Modeling the Propagation of Optical Beams in Three-Dimensional Photonic Crystals

    Article • January 2007, Optical Society of America (OSA)

    Babak Momeni

  92. High Resolution Wavelength Demultiplexers Using the Second Photonic Band of Planar Photonic Crystals

    Article • January 2007, Optical Society of America (OSA)

    Babak Momeni

  93. Preconditioned superprism-based photonic crystal demultiplexers: analysis and design

    Article • Applied Optics, November 2006, Optical Society of America (OSA)

    Babak Momeni

  94. Compact Photonic Crystal Spectrometers for Lab-on-a-chip Biosensing Applications

    Article • October 2006, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  95. Focusing dispersive photonic crystal elements for chip-scale wavelength demultiplexing

    Article • October 2006, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  96. Observation of large parity-change-induced dispersion in triangular-lattice photonic crystal waveguides using phase sensitive techniques

    Article • Applied Physics Letters, February 2006, American Institute of Physics

    Babak Momeni

  97. Compact preconditioned photonic crystal demultiplexers based on combined focusing and superprism effects

    Article • February 2006, SPIE

    Babak Momeni

  98. Systematic Design of High Transmission and Low Dispersion Wide-Bandwidth Photonic Crystal Waveguide Bends

    Article • January 2006, Optical Society of America (OSA)

    Babak Momeni

  99. Compact wavelength demultiplexing using focusing negative index photonic crystal superprisms

    Article • Optics Express, January 2006, Optical Society of America (OSA)

    Babak Momeni

  100. Compact photonic crystal superprism demultiplexers based on diffraction compensation

    Article • January 2006, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  101. Compact spectrometer based on focusing superprism effect in photonic crystals for integrated sensing applications

    Article • January 2006, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  102. Measurement of large group delay in photonic crystal waveguides using phase sensitive lock-in techniques

    Article • January 2006, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  103. Nonlinear finite-difference time-domain method for the simulation of anisotropic, /spl chi//sup (2)/, and /spl chi//sup (3)/ optical effects

    Article • Journal of Lightwave Technology, January 2006, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  104. Adiabatic matching stage for coupling of light to extended Bloch modes of photonic crystals

    Article • Applied Physics Letters, October 2005, American Institute of Physics

    Babak Momeni

  105. Systematic design of superprism-based photonic crystal demultiplexers

    Article • IEEE Journal on Selected Areas in Communications, July 2005, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  106. Adiabatic coupling to extended Bloch modes of photonic crystals

    Article • April 2005, SPIE

    Babak Momeni

  107. An approximate effective index model for efficient analysis and control of beam propagation effects in photonic Crystals

    Article • Journal of Lightwave Technology, March 2005, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  108. Ultra-compact preconditioned superprism-based photonic crystal demultiplexers

    Article • January 2005, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  109. Integrable planar photonic crystal devices in silicon using nonlinear effects

    Article • January 2005, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  110. Pure Coupled Mode Analysis of Diffraction by Isotropic Transmission Volume Gratings

    Article • IEEE Transactions on Antennas and Propagation, December 2004, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  111. Controlling diffraction of optical beams using photonic crystals

    Article • July 2004, SPIE

    Babak Momeni

  112. Investigation of physical mechanisms in coupling photonic crystal waveguiding structures

    Article • Optics Express, January 2004, Optical Society of America (OSA)

    Babak Momeni

  113. Improved Coupled Wave Analysis of Two-Dimensional Planar Multiple Gratings

    Article • IEEE Transactions on Antennas and Propagation, January 2004, Institute of Electrical & Electronics Engineers (IEEE)

    Babak Momeni

  114. Optimization of photonic crystal demultiplexers based on the superprism effect

    Article • Applied Physics B Photophysics and Laser Chemistry, November 2003, Springer Science + Business Media

    Babak Momeni

  115. Designing complex optical filters using photonic crystal microcavitites

    Article • July 2003, SPIE

    Babak Momeni

  116. Interface electromagnetic waves between Kronig-Penney photonic crystals

    Article • February 2003, SPIE

    Babak Momeni

  117. Controlling the propagation of optical beams in photonic crystals

    Article • January 2003, Optical Society of America (OSA)

    Babak Momeni

  118. Systematic design of photonic crystal demultiplexers based on superprism effect

    Article • January 2003, Optical Society of America (OSA)

    Babak Momeni

  119. Investigation of fundamental physical mechanisms in coupling photonic crystal waveguiding structures

    Article • January 2003, Optical Society of America (OSA)

    Babak Momeni

  120. <title>Improved coupled mode analysis of planar diffraction gratings</title>

    Article • October 2001, SPIE

    Babak Momeni