Published Refereed Journal Articles & Published Conference Proceedings
2019
Liu, J, Enderlin, EM, Khalil, A, 2019. Unsupervised glacier terminus detection in satellite imagery using the 2D Wavelet Transform Modulus Maxima (WTMM) segmentation method. GeoComputation 2019, Queenstown, New Zealand (8 pages).
Breeding, PW, M Blaszkiewicz, K Townsend, A Khalil, and KB Tilbury 2019 Exploratory investigation of the spatial relationships of collagen and nerves in subcutaneous white adipose tissue (scWAT) using 2-photon microscopy. In Multiphoton Microscopy in the Biomedical Sciences XIX (Vol. 10882, p. 1088218). International Society for Optics and Photonics. (8 pages).
Marquis, K, Chasse, B, Regan, DP, Boutiette, A, Khalil, A, Howell, C 2019, Vascularized Polymers Spatially Control Bacterial Cells on Surfaces. Advanced Biosystems, 4 (10), 1900216.
Bailey, EC, Alrowaished, SS, Kilroy, EA, Crooks, ES, Drinkert, DM, Karunasiri, CM, Belanger, JJ, Khalil, A, Kelley, JB, & Henry, CA 2019, NAD+ improves neuromuscular development in a zebrafish model of FKRP-associated dystroglycanopathy. Skeletal Muscle, 9 (1), 1-23.
Bradley, DM, D’Alessio, D, Khalil, A, Niemeyer, RG, Ossanna, E, Tanenbaum, A, Toner, B 2019, On the relative frequency of residue classes in Pascal’s Triangle modulo a prime. Fractals, 27 (06) 1950098.
2018
Garrett, AM, Khalil, A, Walton, D, Burgess, RW 2018, DSCAM promotes self-avoidance in the developing mouse retina by masking the functions of cadherin superfamily members. PNAS, 115 (43), E10216-E10224.
Bradley, DM, Khalil, A, Niemeyer, RG, Ossanna, E 2018 The Box-Counting Dimension of Pascal’s Triangle r mod p. Fractals, 26, 05, 1850071.
2017
Mills, KD, Cyr, A, Maclay, T, Day, M, Hasham, MG, Khalil, A 2017. A small molecule RAD51 inhibitor preferentially affects cells expressing high cytidine deaminase activity. Blood, 130 (1), 4627.
Marin, Z, Batchelder, KA, Toner, BC, Guimond, L, Gerasimova-Chechkina, E, Harrow, AR, Arneodo, A and Khalil, A 2017 Mammographic evidence of microenvironment changes in tumorous breasts. Medical Physics, 44:1324-1336. doi:10.1002/mp.12120
2016
Gerasimova-Chechkina, E, Toner, B, Marin, Z, Audit, B, Roux, SG, Argoul, F, Khalil, A, Gileva, O, Naimark, O, Arneodo, A 2016 Comparative multifractal analysis of dynamic infrared thermograms and X-ray mammograms enlightens changes in the environment of malignant tumors, Frontiers in Physiology, 7, 336 (15 pages)
Plourde, SM, Marin, Z, Smith, ZR, Toner, BC, Batchelder, KA, Khalil, A 2016. Computational growth model of breast microcalcification clusters in simulated mammographic environments. Computers in Biology and Medicine, 76, 7-13
Gerasimova, E, Toner, B, Marin, Z, Audit, B, Roux, SG, Argoul, F, Khalil, A, Gileva, O, Naimark, O, Arneodo, A 2016 Combining multifractal analyses of digital mammograms and infrared thermograms to assist in early breast cancer diagnosis, in AIP Conference Proceedings, 1760, 020018 (11 pages).
2015
Richard, CD, Tanenbaum, AB, Audit, B, Arneodo, A, Khalil, A, Frankel, WN 2015. SWDreader: A Wavelet-Based Algorithm Using Spectral Phase to Detect and Characterize Spike-Wave Discharges in Three Genetic Mouse Models of Absence Epilepsy, Journal of Neuroscience Methods, 242, 127-140
2014
Batchelder, KA, Tanenbaum, AB, Albert, S, Guimond, L, Kestener, P, Arneodo, A, Khalil, A 2014. Wavelet-based 3D reconstruction of microcalcification clusters from two mammographic views: New Evidence that fractal tumors are malignant and Euclidean tumors are benign, PLoS One, 9 (9) e107580 (11 pages). DOI: 10.1371/journal.pone.0107580
Gerasimova, E, Audit, B, Roux, SG, Khalil, A, Argoul, F, Naimark, O, Gileva, O, Arneodo, A 2014. Interdisciplinary approach for estimating and differentiating healthy and cancerous breast tissues with a multifractal analysis of skin temperature dynamics, Russian Journal of Biomechanics, 18(1), 79-91.
Gerasimova, E, Audit, B, Roux, SG, Khalil, A, Gileva, O, Argoul, F, Naimark, O, Arneodo, A 2014 Wavelet-based multifractal analysis of dynamic infrared thermograms to assist in early breast cancer diagnosis, Frontiers in Physiology, 5, 176 (11 pages).
Gerasimova, E, Audit, B, Roux, SG, Khalil, A, Gileva, O, Argoul, F, Naimark, O, Arneodo, A 2014 A wavelet-based method for multifractal analysis of medical signals: Application to dynamic infrared thermograms of breast cancer, in Nonlinear Dynamics of Electronic Systems: Communications in Computer and Information Science, 438, p. 288-300.
2013
Gerasimova, E, Audit, B, Roux, SG, Khalil, A, Argoul, F, Naimark, O, Arneodo, A, 2013. Multifractal Analysis of Dynamic Infrared Imaging of Breast Cancer, Europhysics Letters, 104 (6), 68001 (6 pages)
Wu, Y, Xiao, W, Mu, R, Batuski, D, Khalil, A, 2013. Nearest Neighbor Vector Analysis of SDSS DR5 Galaxy Distribution, Natural Science, 5 (1), 47-51.
Wu, Y, Batuski, D, Khalil, A, 2012. Three-Dimensional Filamentation Analysis of SDSS DR5 Survey, ISRN Astronomy & Astrophysics, 171829 (7 pages).
2010
McAteer, RT, Kestener, P, Arneodo, A, Khalil, A 2010. Automated Coronal Loop Detection using a Wavelet Transform Modulus Maxima Method, Solar Physics, 262, 387-397.
Robitaille, JF, Joncas, G, Khalil, A 2010. Morphological Analysis of HI Features. III. Metric Space Technique Revisited, Monthly Notices of the Royal Astronomical Society, 405, 636-656.
Kestener, P, Conlon, PA, Khalil, A, Fennell, L, McAteer, RTJ, Gallagher, PT, Arneodo, A 2010. Characterising Complexity in Compound Systems: Segmentation in Wavelet-Space, Astrophysical Journal, 717, 995-1005.
Goody, MF, Kelly, MW, Lessard, KN, Khalil, A, Henry, CA 2010. Nrk2b-mediated NAD+ production regulates cell adhesion and is required for muscle morphogenesis in vivo: Nrk2b and NAD+ in muscle morphogenesis, Developmental Biology, 344, 809-826.
Grant, J, Verrill, C, Coustham, V, Arneodo, A, Paladino, F, Monier, K, Khalil, A 2010. Perinuclear distribution of heterochromatin in developing C. elegans embryos, Chromosome Research, 18, 873-885
2009
Khalil A, Aponte, C, Zhang R, Davisson, TH, Dickey, I, Engelman D, Hawkins M, Mason, M 2009. Image analysis of soft-tissue in-growth and attachment into highly porous alumina ceramic foam metals, Medical Engineering and Physics, 31, 775-783.
Wu, Y, Batuski, D, Khalil, A 2009. Multi-Scale Morphological Analysis of SDSS DR5 Survey Using the Metric Space Technique, Astrophysical Journal, 707, 1160-1167.
Roland, T, Khalil, A, Tanenbaum, A, Berguiga, L, Delicheree, P, Bonneviot, L, Elezgaray, J, Arneodo, A, Argoul, F 2009. Revisiting the physical processes of vapodeposited thin gold films on chemically modified glass by atomic force and surface plasmon microscopies, Surface Science, 603, 3307-3320.
Dickey, ID, Donahue, DW, Peshlov, B, Nohe, A, Khalil, A, Mason, M, Zhang, R, Aponte, C, Davisson, TH, Engelman, D, Hawkins, M 2009. Pore size modulates strength of soft-tissue in-growth and growth factor expression into novel porous titanium implants, Transactions of the Orthopaedic Research Society, 34, 2213 (1 page).
Khalil, A, Mason, M, Dickey, ID, Zhang, R, Aponte, C, Davisson, TH, Engelman, D, Hawkins, M 2009. Pore size and morphology modulate patterning of soft-tissue in-growth into porous titanium implants based on novel imaging tools, Transactions of the Orthopaedic Research Society, 34, 478 (1 page).
2008
Khalil, A, Mason, M, Dickey, I, Zhang, R, Aponte, C, Davisson, T, Engelman, D, Hawkins, M 2008, Pattern of Soft Tissue In-Growth into Porous Implants Based on Novel Imaging Tools, Transactions of the Orthopaedic Research Society, 33, 1877 (1 page).
Snow, CJ, Goody, M, Kelly, MW, Oster, EC, Jones, R, Khalil, A, and Henry, CA 2008, Time-lapse analysis and mathematical characterization elucidate novel mechanisms underlying muscle morphogenesis. PLoS Genetics, 4(10):e1000219 (18 pages).
Snow CJ, Peterson, M, Khalil, A, Henry C 2008. Muscle development is disrupted in zebrafish embryos deficient for Fibronectin, Developmental Dynamics, 237, 2542-2553.
2007
Khalil, A, Grant, JL, Caddle, LB, Atzema, E, Mills, KD, Arneodo, A 2007. Chromosome territories have a highly non-spherical morphology and non-random positioning. Chromosome Research, 15, 899-916.
Caddle, LB, Grant, JL, van Hase, J, Denegre, J, Shirley, BJ, Bewersdorf, J, Cremer, C, Arneodo, A, Khalil, A, & Mills, KD 2007 Heterologous chromosome territory neighborhoods promote translocation susceptibility in primary lymphocytes. Chromosome Research, 15, 1061-1073.
2006
Khalil, A, Joncas, G, Nekka, F, Kestener, P, & Arneodo, A 2006, Morphological Analysis of HI Features II: Wavelet-Based Multifractal Formalism, Astrophysical Journal Supplement Series, 165, 512-550.
Mills, KD, Caddle, LB, Khalil, A, Bewersdorf, J. 2006. Imaging the Cancer Genome: High Resolution Microscopy and Quantitative Analyses, Optical Society of America, paper WB5, (3 pages).
2004
Khalil, A, Joncas, G, & Nekka, F 2004, Morphological Analysis of HI Features I: Metric Space Technique, Astrophysical Journal, Vol. 601, 352-364
2002
Khalil A, Joncas G, Nekka F 2002. Exotic Tools for the Morphological Analysis of HI Clouds, ASP Conference Proceedings, Vol. 276, Edited by A. R. Taylor, T.L. Landecker, and A.G. Willis, San Francisco, Astronomical Society of the Pacific, p. 194-197.
Abstracts
2022
White, B, Khalil, A 2022. Hybrid Power Spectral and Wavelet Image Roughness Analysis. Annual Meeting of the Biomedical Engineering Society Annual Meeting, San Antonio, TX.
Batchelder, KA, Cinelli, C, Harrow, AR, Khalil, A 2022. Computational Assessment of Healthy vs. Risky Mammographic Breast Density. Annual Meeting of the Radiological Society of North America, Chicago, IL.
Hamilton, J, Wissel, M, Batchelder, KA, Tilbury, K, Brooks, P, Khalil, A 2022. Wavelet-Based Anisotropy Analysis of SHG Imaged Breast Biopsy Tissue Trends with Mammogram BI-RADS Assessment Score. Annual Meeting of the Biomedical Engineering Society, San Antonio, TX.
Batchelder, KA, Cinelli, C, Harrow, AR, Khalil, A 2022. Quantitative Visualization of Healthy vs. Risky Mammographic Breast Density. Why Study Mammographic Density?, Melbourne, Australia.
Holbrook, J, Kugell, D, McCarthy, M, White, B, Khalil, A 2022. Non-Contact Image Analysis of Breathing Rate Using an Unmanned Aerial Vehicle (UAV). 48th Annual Northeast Bioengineering Conference (NEBEC 2022) New York, NY.
White, B, Glatter, S, Khalil, A 2022. Hybrid Power Spectral and Wavelet Image Roughness Analysis. 48th Annual Northeast Bioengineering Conference (NEBEC 2022) New York, NY.
Hamilton, J, Tilbury, K, Brooks, P, Khalil, A 2022. Multiscale Wavelet-Based Anisotropy Analysis of Second Harmonic Generation Images of Pancreatic Cancer. 48th Annual Northeast Bioengineering Conference (NEBEC 2022) New York, NY.
White, B, Khalil, A 2022. The Exploration a Power Spectrum Analysis in Comparison with the Two-Dimensional Modulus Maxima (2D WTMM) in Fractional Brownian Motion (fBm) Images. University of Maine 2022 Student Symposium, Orono, ME. Abstract #528.
White, B, McCarthy, M, Kugell, D, Holbrook, J, Khalil, A 2022. Non-Contact Image Analysis of Breathing Rate Using an Unmanned Aerial Vehicle. University of Maine 2022 Student Symposium, Orono, ME. Abstract #533.
Hamilton, J, Brooks, P, Tilbury, K, Khalil, A 2022. Multiscale Anisotropy Analysis of Second-Harmonic Generation Imaging of Pancreatic Cancer. University of Maine 2022 Student Symposium, Orono, ME. Abstract #532.
2021
Hamilton, J, Brooks, P, Tilbury, K, Khalil, A2021 Wavelet-Based Anisotropy Analysis of Second Harmonic Generation Images of Pancreatic Cancer. Biomedical Engineering Society Annual Meeting, Orlando, FL.
White, B, Khalil, A 2021. Wavelet-Based Automatic Breast Segmentation from Mammograms: Cost Function Optimization. Biomedical Engineering Society Annual Meeting, Orlando, FL.
Juybari, J, Tilbury, K, Khalil, A 2021. Multiscale Image Colocalization. University of Maine 2021 Student Symposium, Orono, ME. Abstract #1014.
Miner, J, Kilroy, E, Henry, C, Khalil, A, Tilbury, K 2021. Imaging Zebrafish with Duchenne Muscular Dystrophy using Second-Harmonic Generation to Evaluate Myosin Structure. University of Maine 2021 Student Symposium, Orono, ME. Abstract #545.
White, B, Khalil, A 2021. Wavelet-Based Automatic Pectoral Muscle Segmentation from Mammograms. University of Maine 2021 Student Symposium, Orono, ME. Abstract #539.
2020
White, B, Khalil, A 2020. Wavelet-Based Automatic Breast Segmentation from Mammograms. Biomedical Engineering Society Annual Meeting, San Diego, CA.
Tilbury, K, Brooks, P, Khalil A 2020. Wavelet-Based Assessment of Collagen Organization in Melanoma-Stimulated Skin Using SHG. Biomedical Engineering Society Annual Meeting, San Diego, CA.
Enderlin, EM, Liu, J, Bollen, K, Muhlheim, R, Khalil, A 2020. Exploring Stability of Greenland’s Peripheral Marine-Terminating Glaciers through Analysis of Automated Terminus Position Time Series. American Geophysical Union Fall Meeting, Online.
Liu, J, Enderlin, EM, Khalil, A, Marshall, HP. 2020. Southeast Greenland’s marine-terminating peripheral glaciers underwent synchronous retreat in 2016 in respond to ocean-forcing. American Geophysical Union Fall Meeting, Online.
Khalil, A 2020. Wavelet based multifractal analysis of loss of tissue homeostasis in mammographic breast tissue. AMS Special Session on Fractal Geometry, Dynamical Systems, and Applications, I. Joint Mathematics Meetings (American Mathematical Society and Mathematical Association of America), Denver, CO. Abstract #1154-92-1315.
Liu, J, Enderlin, EM, Khalil, A 2020. Investigating spatiotemporal patterns in Greenland glacier terminus changes using automated edge detection in satellite images. IASC-NAG Workshop on the Dynamics and Mass Budget of Arctic Glaciers & cross-cutting activity, Obergugl, Austria.
White, B, Khalil, A 2020. The Applications of Edge Detection to the Tissue Segmentation of Greyscale Mammograms. University of Maine 2020 Student Symposium, Orono, ME. Abstract #511.
Ryckman, M, Khalil, A 2020. The Fractal Properties of Pascal’s Triangle in Two Cases: Modulo 2 and Modulo 4. University of Maine 2020 Student Symposium, Orono, ME. Abstract #501.
Abay, B, Khalil, A 2020. Exploration of Potential Correlation Between the Fractal Dimension of Microcalcification Clusters and Number of Disrupted Tissue Regions in Mammograms of Tumorous Breasts. University of Maine 2020 Student Symposium, Orono, ME. Abstract #502.
2019
Liu, J, Enderlin, EM, Khalil, A 2019. Greenland Marine Glacier Terminus Mapping in Satellite Imagery using the Automated 2D Wavelet Transform Modulus Maxima (WTMM) Segmentation Method. American Geophysical Union Fall Meeting, San Francisco, CA.
Harling, M, Blaszkiewicz, M, Willows, J, Johnson, C, Townsend, K, Khalil, A, Tilbury, K 2019. Optically Exploring Neuropathy in Adipose Tissue. Annual Meeting of the Biomedical Engineering Society, Philadelphia, PA.
Liu, J, Enderlin, EM, Khalil, A 2019. Investigating Changes to Greenland’s Peripheral Marine-Terminating Glaciers Through Automated Analysis of Satellite Imagery. University of Maine Climate Change Institute 2019 Annual Meeting.
Hine, T, Morris, S, Butler, B, Khalil A 2019. The Fire Bobble: A Vital Sign Monitor to Predict Cardiac Events in Firefighters. University of Maine 2019 Student Symposium, Orono, ME. Abstract #UMSS19209.
Juybari, J, Khalil, A 2019. The effects of Image Saturation on Multifractal Statistics. University of Maine 2019 Student Symposium, Orono, ME. Abstract #UMSS19290.
Harling, M, Johnson, C, Breeding, P, Townsend, K, Khalil, A, Tilbury, K 2019. Optically Investigating the Role of MMP-13 in the Spatial Relationship of Collagen and Nerve Fibers in Healthy and Obese Adipose Tissue. University of Maine 2019 Student Symposium, Orono, ME. Abstract #UMSS19110.
Lambrecht, M, Khalil, A 2019. Detection of Loss of Breast Tissue Homeostasis using Fourier Power Spectral Image Analysis of Mammographic Breast Tissue. University of Maine 2019 Student Symposium, Orono, ME. Abstract #UMSS19229.
Liu, J, Enderlin, EM, Khalil, A 2019. Investigating changes to Greenland’s peripheral marine glaciers through automated analysis of satellite imagery. University of Maine 2019 Student Symposium, Orono, ME. Abstract #UMSS1995.
2017
Mills, KD, Cyr, A, Maclay, T, Day, M, Hasham, MG, Khalil, A 2017. A small molecule RAD51 inhibitor preferentially affects cells expressing high cytidine deaminase activity. American Society of Hematology 59th Annual Meeting & Exposition, Atlanta, GA.
2016
Garrett, AM, Tadenev, ALD, Khalil A, Fuerst, PG, Burgess RW 2016. Dscam promotes self-avoidance in neurodevelopment by masking diverse cell adhesion molecules. Annual Meeting of the Society for Neuroscience: San Diego, CA.
2015
Garrett, AM, Tadenev, ALD, Khalil, A, Fuerst, PG, Burgess, RW 2015. Dscams promote self-avoidance by masking adhesion through both PDZ-dependent and –independent mechanisms. Annual Meeting of the Society for Neuroscience: Chicago, IL.
2014
Burgess, RW, Garrett, AM, Tadenev, ALD, Khalil, A, Fuerst, PG 2014. Dscams promote self-avoidance by masking adhesion through both MAGI-dependent and –independent mechanisms. Annual Meeting of the Society for Neuroscience: Washington, DC.
2013
Richard, CD, Khalil, A, Frankel, W 2013. Novel computational approach to detect absence seizures in mutant mouse strains. Annual Meeting of the Society for Neuroscience: San Diego, CA.
2010
Kestener, P, Khalil, A, Arneodo, A 2010. A continuous wavelet-based segmentation tool to analyze multifractal properties of quiet and active regions from solar magnetogram data. In ADA6, Astronomical Data Analysis Conference, Monastir, Tunisia.
Wu, Y, Batuski, D, Khalil, A 2010. Properties of Density Field Clusters from the SDSS, Bulletin of the American Astronomical Society, 42, 385.
2009
Wu, Y, Batuski, D, Khalil, A 2009. Application of the Metric Space Technique in 2D and 3D to SDSS DR5, Bulletin of the American Astronomical Society, 41, 449.
2007
Wu, Y, Batuski, D, Khalil, A 2007. New statistical methods to analyze the Sloan Digital Sky Survey Data, Joint New England Sections of the American Physics Society and AAPT Spring Meeting.
Wu, Y, Batuski, D, Khalil, A 2007. New Statistical Methods to Determine the Fractal Dimension of Structures Evident in the SDSS, WMAP, and 2MASS Surveys, Bulletin of the American Astronomical Society, 39, 804.
2006
Wu, Y, Batuski, D, & Khalil, A 2006. New statistical methods to analyze the SDSS DR5 galaxy distribution, Bulletin of the American Astronomical Society, 38, 1000.
