Publications
Articles in Peer-Reviewed Journals | Articles in Peer-Reviewed Conference Proceedings | Books | Book Chapters | Media Publication | Meeting Abstracts | Invited Presentations
Articles in Peer-Reviewed Journals
[001] Quttina M, Waiters KD, Khan AF, Karami S, Peidl AS, Babajide MF, Pennington J, Merchant FA, Bawa-Khalfe T. “Exosc9 Initiates SUMO-Dependent lncRNA TERRA Degradation to Impact Telomeric Integrity in Endocrine Therapy Insensitive Hormone Receptor-Positive Breast Cancer” 2023 Oct 20;12(20):2495. doi: 10.3390/cells12202495. PMID: 37887339; PMCID: PMC10605189.
[002] Nicklaus KM, Liu YT, Liu C, Chu J, Jewett E, Bravo K, Bordes MC, Liu J, Reece GP, Hanson SE, Merchant FA, Markey MK. “Impact of implant-based breast reconstruction on bra fit” Ergonomics. 2023 Oct;66(10):1521-1533. doi: 10.1080/00140139.2022.2154395. Epub 2022 Dec 26. PubMed PMID: 36524380; PubMed Central PMCID: PMC10291008.
[003] Sampathkumar U, Bui T, Liu J, Nowroolizarki Z, Bordes MC, Hanson SE, Reece GP, Markey MK, Merchant FA, “Objective Analysis of Breast Symmetry in Female Patients Undergoing Breast Reconstruction After Total Mastectomy” Aesthet Surg J Open Forum. 2023;5:ojac090. doi: 10.1093/asjof/ojac090. eCollection 2023. PubMed PMID: 36654970; PubMed Central PMCID: PMC9836330.
[004] Nicklaus KM, Cheong A, Sampathkumar U, Liu J, Chopra D, Hoffman A, Merchant FA, Hanson SE, Markey MK, Reece GP. “Breast Decisions: Recommender System for Appearance Counseling about Breast Reconstruction.” Plast Reconstr Surg Glob Open. 2022 Nov 3;10(11):e4615. doi: 10.1097/GOX.0000000000004615. eCollection 2022 Nov. PMID: 36348752.
[005] Hanson SE, Dryden MJ, Liu J, Reece GP, Hoffman AS, Markey MK, Merchant FA. Letter to the editor: Ethnic and age differences in right-left breast asymmetry in a large population-based screening population. Br J Radiol. 2022 Sep 1;95(1137):20200392. doi: 10.1259/bjr.20200392. Epub 2022 Aug 4. PMID: 35924863
[006] Oujja A, Abid MR, Boumhidi J, Bourhnane S, Mourhir A, Merchant FA, Benhaddou D, “High-performance computing for SARS-CoV-2 RNAs clustering: a data science-based genomics approach.” Genomics & Informatics, 19(4), 2021.
[007] Nicklaus KM, Bui T, Bordes MC, Liu J, Chopra D, Hoffman AS, Reece GP, Hanson SE, Merchant FA, Markey MK, “Goldilocks principle: preference for change in breast size in breast cancer reconstruction patients.” Frontiers in Psychology, No longer in press, August 2021.
[008] Nicklaus KM, Wang H, Bordes MC, Zaharan A, Sampathkumar U, Cheong AL, Reece GP, Hanson SE, Merchant FA, Markey MK, “Potential of intra-operative 3D photography and 3D visualization in breast reconstruction.” PRS-GO, No longer in Press, August 2021.
[009] Sampathkumar U, Nowroozilarki Z, Bordes MC, Reece GP, Hanson SE, Markey MK, Merchant FA. Review of Quantitative Imaging for Objective Assessment of Fat Grafting Outcomes in Breast Surgery. Aesthetic Surgery Journal. 41(Suppl 1):S39-S49, 2021.
[010] Friguglietti, J, Das S, Le P, Fraga D, Quintela M, Gazze SA, McPhail D, Gu J, Sabek O, Gaber AO, Francis LW, Zagozdzon-Wosik W, Merchant FA. Novel silicon Titanium Diboride Micropatterned Substrates for Cellular Patterning. Biomaterials, 244:119927, 2020.
[011] Jung, S., Cui, Y., Barnes, M., Satam, C., Zhang, S., Chowdhury, R.A., Adumbumkulath, A., Sahin, O., Miller, C., Sajadi, S.M., Sassi, L., Bennett, M., Yu, M., Friguglietti, J., Merchant, FA, Verduzco, R., Roy, S., Vajtai, R., Meredith, J., Youngblood, J., Koratkar, N., Rahman, M., and Ajayan, P. Multifunctional Bio‐Nanocomposite Coatings for Perishable Fruits. Advanced Materials, 2020: p. 1908291, 2020.
[012] Chapman BV, Lei X, Patil P, Tripathi S, Nicklaus KM, Grossberg AJ, Shaitelman SF, Thompson AM, Hunt KK, Buchholz TA, Merchant FA, Markey MK, Smith BD, Reddy JP. Quantitative 3-Dimensional Photographic Assessment of Breast Cosmesis After Whole Breast Irradiation for Early Stage Breast Cancer: A Secondary Analysis of a Randomized Clinical Trial. Adv Radiat Oncol. Sep-Oct; 5(5): 824–833, 2020.
[013] Cheong AL, Liu J, Reece GP, Nicklaus KM, Bordes MC, Hanson SE, Markey MK, and Merchant FA. Natural Breast Symmetry in Pre-Operative Breast Cancer Patients. Plastic and Reconstructive Surgery Global Open, 7(7):e2297, 2019.
[014] Teo I, Reece GP, Huang SC, Mahajan K, Andon J, Khanal P, Sun C, Nicklaus K, Merchant FA, Markey MK, Fingeret MC. Body image dissatisfaction in patients undergoing breast reconstruction: Examining the roles of breast symmetry and appearance investment. Psychooncology, 27(3):857-863, 2018. PMID: 29152816, PMCID: PMC5839959
[015] Reddy JP, Lei X, Huang SC, Nicklaus KM†, Fingeret MC, Shaitelman SF, Kelly KK, Thomas A. Buchholz TA, Merchant FA, Markey MK, and Smith BD. Quantitative assessment of breast cosmetic outcome following whole breast irradiation. International Journal of Radiation Oncology, Biology, Physics, 97(5):894–902, 2017.
[016] Blessing AM†, Rajapakshe K, Bollu LR, Shi Y, White MA, Pham AH, Lin C, Jonsson P, Cortes CJ, Cheung E, La Spada AR, Bast RC, Merchant FA, Coarfa C, and Frigo DE. Transcriptional regulation of core autophagy and lysosomal genes by the androgen receptor promotes prostate cancer progression, Autophagy, 13(3):506-521, 2017.
[017] McCollum CW, Vancells JC, Hans C†, Vazquez-Chantada M, Kleinstreuer N, Tal T, Knudsen T, Shah SS, Merchant FA, Finnell RH, Gustafsson JÅ, Cabrera R, Bondesson M. Identification of vascular disruptor compounds by analysis in zebrafish embryos and mouse embryonic endothelial cells. Reprod Toxicol., 70:60-69, 2017.
[018] Li D, Cheong A, Reece GP, Crosby MA, Fingeret MC, Merchant FA. Computation of breast ptosis from 3D surface scans of the female torso. Comput Biol Med., 78:18-28, 2016.
[019] Zhao L, Cheong A, Reece GP, Fingeret MC, Shah S, Merchant FA. Inferior Breast-Chest Contour Detection in 3D Images of the Female Torso. IEEE Journal of Translational Engineering in Health and Medicine. vol. 4, pp. 1-10, 2016.
[020] Recce GP, Merchant FA, Andon J, Khatam H, Ravi-Chandar K, Weston J, Fingeret M, Lane C, Duncan K, Markey M. 3D surface imaging of the human female torso in upright to supine positions, Medical Engineering & Physics, 37:375-383, 2015.
[021] Tal T, McCollum CW, Harris PS, Olin J, Kleinstreuer N, Wood CE, Hans C, Shah S, Merchant FA, Bondesson M, Knudsen TB, Padilla S, Hemmer MJ. Immediate and long-term consequences of vascular toxicity during zebrafish development. Reproductive Toxicology, 48:51-61, 2014.
[022] Tsouko E, Khan AS, White MA, Han JJ, Shi Y, Merchant FA, Sharpe MA, Xin L, Frigo DE. Regulation of the pentose phosphate pathway by an androgen receptor–mTOR-mediated mechanism and its role in prostate cancer cell growth. Oncogenesis, e103:1-10, 2014.
[023] McCollum CW, Hans C, Shah S, Merchant FA, Gustafsson JA, Bondesson M. Embryonic exposure to sodium arsenite perturbs vascular development in zebrafish. Aquat Toxicol., 152C:152-163, 2014.
[024] Mukherjee M, Byrd T, Brawley VS, Bielamowicz K, Li XN, Merchant FA, Maitra S, Sumazin P, Fuller G, Kew Y, Sun D, Powell SZ, Ahmed NM, Zhang N, Pati D. Overexpression and Constitutive Nuclear Localization of Cohesin Protease Separase Protein Correlates with High Incidence of Relapse and Reduced Overall Survival in Glioblastoma Multiforme. J Neurooncol., 119(1):27-35, 2014.
[025] Shete A, Rao P, Pati D, Merchant FA. Spatial quantitation of FISH signals in diploid versus aneuploid nuclei. Cytometry A, 85(4):339-52, 2014.
[026] Sun, CS, Markey MK, Merchant F, Krishnaswamy RC, Fingeret MC, Reece GP. 3D computer technology addresses body-image issues of breast reconstruction. In SPIE Newsroom: Biomedical Optics & Medical Imaging, 1-4, 2013.
[027] Hegde M, Corder A, Chow KK, Mukherjee M, Ashoori A, Kew Y, Zhang YJ, Baskin DS, Merchant FA, Brawley VS, Byrd TT, Krebs S, Wu MF, Liu H, Heslop HE, Gottschalk S, Yvon E, Ahmed N.. Combinational targeting offsets antigen escape and enhances effector functions of adoptively transferred T cells in Glioblastoma. Mol. Cancer Ther., 21(11):2087-101, 2013.
[028] Kawale M, Reece GP, Crosby MA, Beahm EK, Fingeret MC, Markey MK, and Merchant FA. Automated identification of fiducial points on 3D Torso Images. Biomedical Engineering and Computational Biology, 5:57-68, 2013.
[029] Shi Y, Han JJ, Tennakoon JB, Mehta FF, Merchant FA, Burns AR, Howe MK, McDonnell DP, and Frigo DE. Androgens Promote Prostate Cancer Cell Growth through Induction of Autophagy. Mol Endocrinol., 27(2):280-295, 2013.
[030] Lee J, Kawale M, Merchant FA, Weston J, Fingeret MC, Ladewig D, Reece GP, Crosby MA, Beahm EK, and Markey MK. Validation of stereophotogrammetry of the human torso. Breast Cancer: Basic and Clinical Research, 5:15-25, 2011.
[031] Kawale M, Lee J, Leung SY, Fingeret MC, Reece GP, Crosby MA, Beahm EK, Markey MK, and Merchant FA. 3D symmetry measure invariant to subject pose during image acquisition. Breast Cancer: Basic and Clinical Research, 5:131-142, 2011.
[032] Dabeer M, Kim E, Reece G, Merchant FA, Crosby M, Beahm E, and Markey M. Automatic calculation of symmetry measure on clinical photographs. Journal of Evaluation in Clinical Practice. 17(6):1129-1136, 2011.
[033] Gurkan D and Merchant FA. Interoperable Medical Instrument Networking and Access System with Security Considerations for Critical Care. Journal of Healthcare Engineering, 1(4):637-654, 2010.
[034] Thigpen J, Merchant FA, and Shah S. Photometric calibration for quantitative spectral microscopy under transmitted illumination. Journal of Microscopy, 239(3):200-214, 2010.
[035] Meyer R, Fofanov V, Panigrahi A, Merchant FA, Zhang N, and Pati D. Overexpression and Mislocalization of the Chromosomal Segregation Protein Separase in Multiple Human Cancers. Clinical Cancer Research, 15(8):2703-2710, 2009.
[036] Thigpen J, Shah S, and Merchant FA. Cell Differentiation in Multispectral Image Cytology. Journal of Algorithms and Computational Technology, 2(4):469-499, 2008.
[037] Dabeer M, Merchant FA, Reece GP, Beahm EK, and Markey MK. A research agenda for appearance changes due to breast cancer treatment. Breast Cancer: Basic and Clinical Research, 2:1-3, 2008.
[038] Merchant FA and Castleman KR. Strategies for automated fetal cell screening. Human Reproduction Update, 8(6):509-521, 2002.
[039] Merchant FA, Holmes WH, Capelli-Schellpfeffer, M, Lee RC, and Toner M. P-188 enhances functional recovery of heat shocked fibroblasts. J. Surg. Res., 74:131-140, 1998.
[040] de Freitas RC, Diller KR, Lachenbruch CA and Merchant FA. Network thermodynamic model of coupled transport in a multicellular tissue-The islet of Langerhans. Ann N Y Acad Sci., 858:191-204, 1998.
[041] Merchant FA, Diller KR, Aggarwal SJ, and Bovik AC. Angiogenesis in cultured and cryopreserved pancreatic islet grafts. Transplantation, 63:1652-1660, 1997.
[042] Merchant FA, Diller KR, Aggarwal SJ, and Bovik AC. Viability analysis of cryopreserved rat pancreatic islets using laser scanning confocal microscopy. Cryobiology, 33:236-252, 1996.
[043] Merchant FA, Aggarwal SJ, Diller KR, and Bovik AC. In-vivo analysis of angiogenesis and revascularization of transplanted pancreatic islets using confocal microscopy. Journal of Microscopy, 176: 262-275, 1994.
[044] Merchant FA, Aggarwal SJ, Diller KR, Bartels KA, and Bovik AC. Three-dimensional distribution of damaged cells in cryopreserved pancreatic islets as determined by laser scanning confocal microscopy. Journal of Microscopy, 169: 329-338, 1993.
Articles in Peer-Reviewed Conference Proceedings
[001] Benhaddou D, Balan V, De La Garza A. and Merchant FA, Estimating Mushroom Yield and Quality Using Computer Vision. Proc of International Wireless Communications & Mobile Computing Conference (IWCMC 2023), Marrakesh, Morocco, June 19 ~ 23, 1570891453:562, 2023.
[002] Sampathkumar U, Nowroozilarki N, Reece GP, Hanson SE, Merchant FA. Spherical harmonics for modeling shape transformations of breasts following breast surgery. Proc. of SPIE Medical Imaging 2020: Image-Guided Procedures, Robotic Interventions, and Modeling, 11315:113152H, 2020.
[003] Nowroozilarki Z, Bordes MC, Sampathkumar U, Hanson SE, Reece GP, Markey MK, and Merchant FA. Investigation of Smallest Volume Difference Measurable Using 3D Imaging. Proceedings of the 11th International Conference and Exhibition on 3D Body Scanning and Processing Technologies (3DBODY.TECH), Virtual Conference, 2020. https://doi.org/10.15221/20.26
[004] Sampathkumar U, Cheong A, Reece GP, Bordes MC, Hanson SE, Markey MK, Merchant FA. Interactive visualization of breast shape for breast surgery. Proceedings of the 10th International Conference and Exhibition on 3D Body Scanning and Processing Technologies (3DBODY.TECH), Lugano Switzerland, pp 34-42, 2019.
[005] Nicklaus KM, Jewett E, Liu C, Liu J, Reece GP, Hanson SE, Merchant FA, Markey MK. Trends in breast measurements of unilateral breast reconstruction patients to inform bra design. Proceedings of the 10th International Conference and Exhibition on 3D Body Scanning and Processing Technologies (3DBODY.TECH), Lugano Switzerland, 2019.
[006] Cheong AL, Hanson SE, Reece GP, Markey MK, Merchant FA. Potential of 3D surface imaging for quantitative analysis of fat grafting. Proceedings of the 9th International Conference and Exhibition on 3D Body Scanning and Processing Technologies (3DBODY.TECH), Lugano Switzerland, pp 57 – 63, 2018. doi: 10.15221/18.057
[007] Yen F, Pati D, Merchant FA. 3D modeling of chromosomes territories in normal and aneuploid nuclei. Proc. SPIE 10578, Medical Imaging 2018: Biomedical Applications in Molecular, Structural, and Functional Imaging, 105782K, 12 March, pp 105782K-1 – 105782K-9, 2018.
[008] Nicklaus KM, Chu J, Liu C, Reece GP, Merchant FA, Fingeret MC, Markey MK. Correspondence of breast measurements for bra design after reconstruction surgery. Proceedings of the 8th International Conference and Exhibition on 3D Body Scanning and Processing Technologies (3DBODY.TECH), Montreal Canada, pp 106-112, 2017. doi:10.15221/17.106
[009] Cheong AL, Reece GP, Markey MK, Fingeret MC, Merchant FA. Quantitative analysis of localized changes in breast shape. Proceedings of the 8th International Conference and Exhibition on 3D Body Scanning and Processing Technologies (3DBODY.TECH), Montreal Canada, pp 130-138, 2017. doi:10.15221/17.130
[010] Hans C, McCollum C, Bondesson M, Shah S, Merchant FA. Gradient Weighted Co-HOG for Analysis of Caudal Vein Structural Changes in Toxin Exposed Zebrafish Embryo, Proceedings of IEEE International Symposium of Biomedical Imaging, New York, In Press, 2015.
[011] Zhao L, Reece GP, Fingeret MC, and Merchant FA. Multi-View 3D Data Fusion for Visualization of the Inframammary Fold in Women with Ptotic Breasts. Proc. 5th International Conference and Exhibition on 3D Body Scanning Technologies, 5:29-38, Oct. 2014.
[012] Cheong A, Reece GP, Fingeret MC, and Merchant FA. Visualization and Quantification of Female Breast Morphology During Breast Reconstruction. Proc. 5th International Conference and Exhibition on 3D Body Scanning Technologies, 5:21-38, Oct. 2014.
[013] Zhao L, Shah S, and Merchant FA. Longitudinal Characterization of Breast Morphology during Reconstructive Surgery. Multimedia (ISM), IEEE International Symposium, pp. 407-408, 2013.
[014] Hans C, McCollum C, Bondesson M, Gustafsson J-A, Shah S, and Merchant FA. Automated Analysis of Zebrafish Images for Screening Toxicants. Proc IEEE Eng. Med. Biol. Soc., 2013: 3004-3007, 2013.
[015] Li D, Reece G, Crosby M, Fingeret M, and Merchant FA. Computation of Breast Ptosis from 3D Surface Scans of the female torso. Proc. 4th International Conference and Exhibition on 3D Body Scanning Technologies, 4:98-106, November 2013.
[016] Zhao L, Shah S, Reece G, Crosby M, Fingeret M, and Merchant FA. Automated Detection of Breast Contour in 3D Images of the Female Torso. Proc. 4th International Conference and Exhibition on 3D Body Scanning Technologies, 4:273-278, November 2013.
[017] Zhao L, Shah S, Reece GP, Crosby MA, Beahm EK, Fingeret MC, Markey MK and Merchant FA. Semi-Automated Registration of 3D Torso Images from Breast Reconstruction Surgery. Proc. 3D Body Scanning Technologies, 3:179-188, 2012.
[018] Bose A, Shah S, Reece GP, Crosby MA, Beahm EK, Fingeret MC, Markey MK, and Merchant FA. Automated Spatial Alignment of 3D Torso Images. Proc. IEEE Eng. Med. Biol. Soc., 2011:8455-8458, 2011.
[019] Hans C, Shete A, Shah S, McCollum C, Bondesson M, and Merchant FA. 3D Imaging for Quantitative assessment of Toxicity on Vascular Development in Zebrafish. Proc. IEEE Eng. Med. Biol. Soc., 2011:5969-5972, 2011.
[020] Hans C, Merchant FA, and Shah S. Decision Fusion for Urine Particle Classification in Multispectral Images. Proc. of 7th Indian conference on Computer Vision, Graphics, and Image Processing, 1:419-426, 2010.
[021] Mujumdar S, McKneely PK, Thongpithoonrat P, Gurkan D, Chapman F and Merchant FA, Performance Analysis of a Proposed Tightly-Coupled Medical Instrument Network Based on CAN Protocol. Proc. IEEE Eng. Med. Biol. Soc., 2010: 360-364, 2010.
[022] Shah S and Merchant FA. I-FISH: Increasing Detection Efficiency for Fluorescent Dot Counting in Cell Nuclei. 6th International Conference on Advances in Pattern Recognition, 1:220-225, 2007.
[023] Thigpen J, Shah S, Merchant FA, and Castleman KR. Calibrating Multispectral Imaging System for Biological Particle Analysis under Transmitted Illumination. Proceedings of Microscopy and Microanalysis, 12(2):1678-1679, 2006.
[024] Shah S and Merchant FA. Fluorescence Dot Counting Efficiency in Radiance Mapped Images. Proceedings of Microscopy and Microanalysis, 12(2):1676-1677, 2006.
[025] Shah S, Thigpen J, Merchant FA, and Castleman KR. Photometric Calibration for Automated Multispectral Imaging of Biological Samples. Proc. 1st workshop on microscopic image analysis with applications in biology (in conjunction with MICCAI (Medical Image Computing and Computer Assisted Intervention), Copenhagen), 1:27-33, 2006.
[026] Merchant FA, Good KN, Choi H, and Castleman KR. Automated detection of chromosomal rearrangements in multi-color fluorescence in-situ hybridization images. Proc. IEEE Eng. Med. Biol. Soc., 2002: 1074-1075, 2002.
[027] Bischoff FZ, Marquez-Do D, Simpson JL, Elias S, Castleman KR, and Merchant FA. Semi-automated screening of nucleated red blood cells for prenatal diagnosis using fetal cells in maternal blood. J Soc. Gyn. Invest., 7:1, 2000.
[028] Merchant FA, and Toner M. Spatial and dynamic characterization of the interaction of Staphylococcal Aureus a-toxin with cell membranes. Advances in Heat and Mass Transfer in Biotechnology, HTV 355 / BED, 37: 3-8, 1997.
[029] Merchant FA, Holmes W, Yarmush M, and Toner, M. Poloxamer 188 enhances functional recovery of lethally heat shocked fibroblasts. Advances in Heat and Mass Transfer in Biotechnology, HTV 355 / BED, 37: 161-166, 1997.
[030] Merchant FA, Holmes WH, and Toner M. Analysis of functional recovery in cells treated with co-block polymers after thermal injury. Proc. IEEE Eng. Med. Biol. Soc., 5: 2182-2183, 1996.
[031] Merchant FA, Aggarwal SJ, Diller KR, and Bovik AC. Semi-automatic morphological measurements of 2-D and 3-D microvascular images. Proc. IEEE International Conference on Image Processing, 1:416-420, 1994.
[032] Merchant FA, Aggarwal SJ, Diller KR, and Bovik, AC. Analysis of 3-D microscope images of cryopreserved rat pancreatic islets for determination of viability. Proc. 3rd International Conference on Advances in Pattern Recognition and Digital Techniques, 1: 500-506, 1993.
[033] Merchant FA, Aggarwal SJ, Diller KR, Bartels KA, and Bovik AC. Analysis of volumetric changes in rat pancreatic islets under osmotic stress using laser scanning confocal microscopy. Biomedical Sciences Instrumentation, 29:111-119, 1993.
[034] Merchant FA, Aggarwal SJ, Diller KR, Bartels KA, and Bovik AC. Confocal microscopy and 3-D visualization of cryopreserved pancreatic islets. Biomedical Image Processing and Three-Dimensional Microscopy: SPIE, 1660:774-783, 1992.
Books
[001] Microscope Image Processing, Editors: Qiang Wu, Fatima Merchant, Kenneth Castleman, Publisher: Academic Press; 1st edition, 2008
Book Chapters
[001] Merchant FA, Shah SK, and Castleman KR. Object Measurements. Microscope Image Processing, (eds. F.A. Merchant, & K.R. Castleman), 2nd Edition, Elsiever, pp. 153-175, 2022.
[002] Merchant FA and Periasamy A. Multispectral Fluorescence Imaging. Microscope Image Processing, (eds. F.A. Merchant, & K.R. Castleman), 2nd Edition, Elsiever, pp. 201-245, 2022.
[003] Merchant FA and Diaspro A. Three-dimensional Imaging. Microscope Image Processing, (eds. F.A. Merchant, & K.R. Castleman), 2nd Edition, Elsiever, pp. 247-317, 2022.
[004] Wu X, Shah S, and Merchant FA. Automated Prototype Generation for Multi-Color Karyotyping. Lecture Notes in Computational Vision and Biomechanics, 6:145-163, 2013.
[005] Merchant FA and Castleman KR. Computer-Assisted Microscopy. The Essential Guide to Image Processing, (ed. A.C. Bovik), Academic Press, pp. 777-828, 2009.
[006] Merchant FA, Shah SK, and Castleman KR. Object Measurements. Microscope Image Processing, (eds. Q.J. Wu, F.A. Merchant, & K.R. Castleman), 1st Edition, Elsevier, pp. 195-214, 2008.
[007] Merchant FA and Periasamy A. Fluorescence Microscopy. Microscope Image Processing, (eds. Q.J. Wu, F.A. Merchant, & K.R. Castleman), 1st Edition, Elsevier, pp. 247-290, 2008.
[008] Merchant FA. Three-dimensional Imaging. Microscope Image Processing, (eds. Q.J. Wu, F.A. Merchant, & K.R. Castleman), 1st Edition, Elsevier, pp. 329-289, 2008.
[009] Merchant FA, and Castleman KR. Computer Assisted Microscopy. Handbook of Image and Video Processing, (ed. A.C. Bovik), 2nd Edition, Academic Press, pp. 1311-1340, 2005.
[010] Bovik AC, Aggarwal SJ, Merchant FA, Kim NH, and Diller KR. Automatic area and volume measurement from digital biomedical images. Image Analysis: Methods and Applications, (ed. D.P. Häder), 2nd Edition, CRC Press, pp. 23-64, 2001.
[011] Merchant FA, Bartels KA, Bovik AC, and Diller KR. Confocal Microscopy. Handbook of Image and Video Processing, (ed. A.C. Bovik), Academic Press, pp. 853-868, 2000.
[012] Diller KR, and Merchant FA. Network thermodynamic modeling of coupled osmotic and viscoelastic behavior of a tissue during cryopreservation. Macroscopic and Microscopic Heat Transfer in Biomedical Engineering, (eds. K.R. Diller & A. Shitzer), Elsevier Press, pp. 327-342, 1992.
Media Publication
[001] Belinne JK, Dauwalder B, Epling WS, Kovach JV, and Merchant FA. Career Options After Tenure. The Chronicles of Higher Education, March 23, 2016.
Meeting Abstracts
This list DOES NOT include presentations that also resulted in articles in conference proceedings.
[001] Bouhali S, Noufail N, Chen T, Bordes M, Reece G, Markey M, Merchant FA, “Associations among BMI and patient-reported body image dissatisfaction after breast reconstruction,” 2023 San Antonio Breast Cancer Symposium, December 2023, San Antonio, TX.
[002] Rasmussen JC, Gutierrez C, Karni R, Bouhali S, Merchant FA, “Quantitative NIRF-LI scanning of lymphatic dysfunction for early diagnosis of cancer-acquired lymphedema,” Cancer Prevention and Research Institute of Texas (CPRIT) 2023 Annual Meeting, October 2023; Galveston, TX.
[003] Sampathkumar U, Bordes MC, Hanson, SE, Reece GP, Merchant FA, “Statistical shape modeling and simulation for reconstructive breast.” American College of Surgeons (ACS) 2023 Surgeons and Engineers: A Dialogue on Surgical Simulation Meeting; March 2023; Chicago, IL.
[004] Merchant FA, Quttina M, Eisenbrandt M, Francis L, Bawa-Khalfe T and Wosik W, “Novel Silicon-Titanium Diboride Micropatterned Substrates for 3D culture of Cancer Cells”, 4th International Conference On Materials Science & Engineering, Houston, April 24-28, 2023.
[005] Friguglietti J, Quttina M, Wosik W, Gaber OA, Sabek O, Merchant FA, “Novel 3D cell culture technique utilizing a silicon titanium diboride micropatterned substrate for differentiating mesenchymal stem cells into insulin producing cells” 4th IPITA/JDRF/HSCI Summit on Stem Cell Derived Beta Cells which will be held in Cambridge, MA from April 24-25, 2023.
[006] Liu Y-T, Khan NH, Bordes MC, Reece GP, Francis AM, Merchant FA, Markey MK, “Quantitative imaging to assess the impact of autologous breast reconstruction on bra fit,” Biomedical Engineering Society Annual Meeting 2022.
[007] Wang H, Nowroozilarki Z, Bordes MC, Liu J, Reece GP, Hanson SE, Merchant FA, Markey MK, “Observer perception of breast volume asymmetry on photographs of a physical phantom,” Medical Image Perception Society (MIPS) XIX Conference 2022.
[008] Bui T, Sampathkumar U, Nowroozilarki Z, Liu J, Bordes MC, Hanson SE, Reece GP, Markey MK, Merchant FA. Symmetry of breasts following reconstructive surgery,” San Antonio Breast Cancer Symposium 2020. In Press.
[009] Chapman BV, Lei X, Patil P, Tripathi S, Nicklaus KM, Fingeret MC, Shaitelman SF, Hunt K, Buchholz T, Merchant FA, Markey MK, Smith B, Reddy JP. Quantitative 3D Assessment of Breast Cosmesis After Conventional (CF-WBI) versus Hypofractionated Whole Breast Radiation (HF-WBI): Results of a Randomized Clinical Trial. International Journal of Radiation Oncology, Biology, Physics, Volume 103, Issue 5, pp. E19, 2019.
[010] Nicklaus KM, Ali K, Merchant FA, Hanson SE, Reece GP, Markey MK, “Development of an expert surgeon validation tool for breast reconstruction decision-making”, Biomedical Engineering Society Annual Meeting, 2018.
[011] Zaharan A, Nicklaus KM, Bordes MC, Reece GP, Hanson SE, Merchant FA, Markey MK, “Developing a Microsoft HoloLens application for mastectomy specimen visualizations,” Biomedical Engineering Society (BMES) Annual Meeting, 2018.
[012] Nicklaus KM, Cheong AL, Liu J, Reece GP, Bordes MC, Hanson SE, Markey MK, and Merchant FA, “3D Symmetry of Pre-operative Breasts in Cancer Patients,” San Antonio Breast Cancer Symposium 2018.
[013] Nicklaus KM, Teo I, Reece GP, Huang SC, Mahajan K, Andon J, Khanal P, Sun C, Merchant FA, Markey MK, Fingeret MC, “Relationships among breast symmetry, appearance investment, and body image dissatisfaction in breast cancer patients undergoing reconstruction,” San Antonio Breast Cancer Symposium, 2017.
[014] Fingeret MC, Weston J, Bordes MC, Huang SC, Reece GP, Merchant FA, Cantor SB, Markey MK, “Understanding the unmet needs of women with breast cancer undergoing reconstructive surgery,” Appearance Matters 7 Conference, 2016.
[015] Weston J, Bordes MC, Huang SC, Reece GP, Merchant FA, Cantor SB, Markey MK, Fingeret MC, “Patient preferences for visualizing possible outcomes of breast reconstruction,” American Medical Informatics Association Annual Symposium, 2016.
[016] Reddy J, Lei X, Huang H, Nicklaus KM, Fingeret MC, Shaitelman SF, Hunt KK, Buchholz TA, Merchant FA, Markey MK, and Smith BD, “Using quantitative metrics of breast cosmesis to compare fractionation regimens for whole-breast irradiation,” ASTRO, 2016.
[017] Loera E, Nicklaus KM, Bordes MC, Lee J, Cheong AL, Fingeret MC, Merchant FA, Reece GP, Markey MK, “Design of stereoscopic visualization of mastectomy specimens for augmented reality glasses,” Biomedical Engineering Society (BMES) Annual Meeting, 2016.
[018] Blessing AM†, Shi Y, Bollu LR, Drake JM, Faltermeier CM, Jonsson P, Sung YY, Han JJ, Merchant FA, Cheung E, Pienta KJ, Witte ON, and Frigo DE. Dissecting the Role and Regulation of Autophagy in Prostate Cancer. Autophagy Keystone Symposia, Breckenridge, Colorado, 2015.
[019] Blessing AM†, Shi Y, Bollu LR, Drake JM, Faltermeier CM, Jonsson P, Sung YY, Han JJ, Merchant FA, Cheung E, Pienta KJ, Witte ON, and Frigo DE. The Role and Regulation of Autophagy in Prostate Cancer. National Graduate Student Symposium St. Jude Children’s Research Hospital. Memphis, Tennessee, 2015.
[020] Fingeret M, Reece G, Merchant FA, Ravi-Chandra K, Cantor S, and Markey, M. 3D Computer-Based Decision Support for Optimizing Body Image Following Breast Reconstruction. World Congress of Psycho-Oncology, Washington DC, USA, 2015.
[021] Reece G, Merchant FA, Khatam H, Ravi-Chandra K., Weston J., Fingeret M., Lane C., Duncan K, and Markey, M. 3D Surface Imaging of the Human Female Torso in Upright to Supine Positions. Biomedical Engineering Society 2014 Annual Meeting, San Antonio, TX, 2014.
[022] Wosik W., Das S., Zuo Z., and Merchant FA. The role of substrate materials in controlled culture of endothelial cells. Biomedical Engineering Society 2014 Annual Meeting, San Antonio, TX, 2014.
[023] Hans C, McCollum C, Bondesson M., Gustafsson J., Shah S, Merchant FA. Automated Quantification of Caudal Vein Plexus in Zebrafish to Study Vascular Disruptors. Biomedical Engineering Society 2014 Annual Meeting, San Antonio, TX, 2014.
[024] McCollum, C.W., Hans, C., Shah, S. Merchant, FA., Bondesson, M. and Gustafsson, J-A. Arsenic disrupts vascular development in zebrafish. A Collaborative Workshop on Aquatic Models and 21st Century Toxicology, Raleigh, NC, 2014.
[025] McCollum CW, Hans C, Shah S, Merchant FA, Bondesson M, and Gustafsson JA. Identifying vascular disrupting chemicals using zebrafish. Society of Toxicology Annual Meeting: SOT 2013, San Antonio, TX, 2013.
[026] Yan S, Tennakoon J, Han J, Merchant FA, Howe M, Ilkayeva O, Newgard C, McDonnell D, and Frigo D. Autophagy Is Required for Androgen Receptor-Mediated Prostate Cell Growth and Survival. Endocr. Rev., 33 (03_MeetingAbstracts): SUN-535, 2012.
[027] Das S, Zagozdzon-Wosik W, and Merchant FA. BioMEMS Substrates for Endothelial Cells Network Formation, Biomedical Engineering Society 2012 Annual Meeting, Atlanta, Georgia, October 2012.
[028] Shah T, Wu X, Chen J, Kakadiaris I, Shah S, and Merchant FA. Semi-Automated segmentation of branching patterns from optical projection tomography images of the bronchial tree. Biomedical Engineering Society 2012 Annual Meeting, Georgia, October 2012.
[029] Das S, Merchant FA, and Zagozdzon-Wosik W. BioMEMS for Growth of Endothelial Cells. Mater. Res. Soc. Symposium, Boston, MA, November, 2011.
[030] Kawale M, Reece G, Beahm E, Crosby M, Markey M, and Merchant FA. Automated Identification of Fiducial Points in 3D Torso Images. 3rd Annual International Conference in Computational Surgery, Houston, Texas, January, 2011.
[031] Kawale M, Reece G, Crosby M, Beahm E, Markey M, and Merchant FA. Automated Localization of Fiducial Points in Three-Dimensional Torso Images. Biomedical Engineering Society Conference 2010, Austin, TX, October 2010.
[032] Hogins J, Lee J, Szeto C, Reece G, Markey M, and Merchant FA. Effect of Patient Posture on Linear Assessment of Breast Appearance. Biomedical Engineering Society Conference 2009, Pittsburgh, PA, October 2009.
[033] Farooqui H, Gurkan D, and Merchant FA. Tools for Optimizing HIPAA Compliance and Penetration Testing for EHR. Biomedical Engineering Society Conference 2009, Pittsburgh, PA, October 2009.
[034] Valenzuela N, Rao P, Shah S, and Merchant FA. Automated Prototype Generation for Multi-Color Karyotyping, Biomedical Engineering Society Conference 2009, Pittsburgh, PA, October 2009.
[035] Kawale M, Reece G, Crosby M, Beahm E, Markey M, and Merchant FA. Automated Nipple Identification in Three-Dimensional Surface Scans of Torso. Biomedical Engineering Society Conference 2009, Pittsburgh, PA, October 2009.
[036] Merchant FA, Castleman K, Gibas Y, and Jackson L. Automated Prenatal Screening using Maternal Blood. Biomedical Imaging: Beyond Diagnostics, Workshop Abstracts, University of Michigan, pp. 22-23, September 1999.
[037] Merchant FA, Holmes, WH, and Toner M. Role of co-block polymers in cell recovery after thermal injury. 16th Annual Meeting of the Society for Physical Regulation in Biology and Medicine, Chicago, Illinois, 1996.
[038] Merchant FA, Diller KR, and Bovik AC. Quantitative analysis of confocal micrographs to measure the 3-D neovasculature in transplanted pancreas islets. Annals of Biomedical Engineering, 1996 Annual Fall Meeting, S-27, 1996.
[039] Merchant FA, Diller KR, Aggarwal SJ, and Bovik AC. Evaluation of the angiogenesis process in cryopreserved islet grafts using laser scanning confocal microscopy. 32nd Annual Meeting of the Society for Cryobiology, Cryobiology 32: 539, Madison, Wisconsin, 1995.
[040] Merchant FA, Diller KR, Aggarwal SJ, and Bovik AC. Analysis of the 3-D distribution of injury to pancreas islets during cryopreservation: Computer evaluation of laser scanning confocal micrographs. Proc. of the 31st Annual Technical Meeting of the Society of Engineering Science, College Station, Texas, 1994.
[041] Merchant FA, Diller KR, Aggarwal SJ, and Bovik AC. Digital analysis of confocal micrographs for estimation of damage to cryopreserved islets and evaluation of the angiogenesis process in cryopreserved islets transplanted at renal subcapsular site in rats. 31st Annual Meeting of the Society for Cryobiology, Cryobiology 31: 590, Kyoto, Japan, 1994.
[042] Diller KR, Merchant FA, Aggarwal SJ, Bartels KA, and Bovik AC. Measurement of the osmotic properties of multicellular tissues for understanding and predicting behavior during cryopreservation. 30th Annual Meeting of the Society for Cryobiology, Cryobiology 30: 618, Atlanta, Georgia, 1993.
[043] Merchant FA, Aggarwal SJ, Diller KR, and Bovik AC. Assaying viability of cryopreserved pancreatic islets using laser scanning confocal microscopy. 29th Annual Meeting of the Society for Cryobiology, Cryobiology 29: 715, Ithaca, New York, 1992.
[044] S. Gupta, W. Han*, D.R. Hurtubise*, M.S. Kim, E.K. Beahm, G.P. Reece, Merchant FA, M.K. Markey, “Assessment of breast reconstruction surgery outcomes using 3D human body scans”, Biomedical Engineering Society (BMES) Annual Fall Meeting (2007).
[045] M. Kawale, A. Bose, G.P. Reece, E.K. Beahm, M.A. Crosby, M.K. Markey, Merchant FA, “Automated detection of fiducial points in 3D torso images”, Biomedical Engineering Society Annual Meeting (2010).
[046] M.M. Kawale, G.P. Reece, E.K. Beahm, M.A. Crosby, M.K. Markey, Merchant FA, “Automated Identification of Fiducial Points in 3D Torso Images”, 3rd Annual International Conference in Computational Surgery, Houston, Texas, January 26th-28th (2011).
[047] G.P. Reece, Merchant FA, H. Khatam, K. Ravi-Chandar, J. Weston, M.C. Fingeret, C. Lane, K. Duncan, M.K Markey, N. Kumaraswamy, “3D surface imaging of the human female torso in upright to supine positions”, Biomedical Engineering Society Annual Meeting (2014).
[048] G. Wen, M.K. Markey, S. Park, “Influence of local anatomical variations on detection of multifocal and multicentric breast cancer”, American Association of Physicists in Medicine (AAPM) Annual Meeting (2016).
[049] Weston, M.C. Bordes, S.C. Huang, G.P. Reece, Merchant FA, S.B. Cantor, M.K. Markey, M.C. Fingeret, “Patient preferences for visualizing possible outcomes of breast reconstruction”, American Medical Informatics Association Annual Symposium (2016).
[050] J.P. Reddy, [043] X.Lei, K.M. Nicklaus, M.C.Fingeret, S.F. Shaitelman, K.K. Hunt, T.A. Buchholz, Merchant FA, M.K. Markey, B.D. Smith, “Using quantitative 3D metrics of breast cosmesis to compare fractionation regimens for whole breast irradiation”, American Radium Society Annual Meeting (2017).
[051] K.M. Nicklaus, J.Cho, A.Cheong, J.Liu, Merchant FA, M.C. Fingeret, G.P. Reece, M.K. Markey, “Effects of breast volume change on breast cancer patients’ satisfaction with breast reconstruction outcomes”, 39th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (2017).
[052] K. M. Nicklaus, G. Wen, J. Cho, A. Cheong, G. P. Reece, Merchant FA, M. C. Fingeret, S. Cantor, M.K. Markey, “Developing a retrieval method for a Case-Based Reasoning System for predicting appearance after breast reconstruction”, Biomedical Engineering Society (BMES) Annual Meeting (2017).
[053] T. Lewis, K. M. Nicklaus, A. Naqvi, M. Bordes, A. Cheong, M. C. Fingeret, Merchant FA, G. P. Reece, M.K. Markey, “Design of intraoperative visualizations of mastectomy specimens for breast reconstruction surgery”, Biomedical Engineering Society (BMES) Annual Meeting (2017).
[054] Y. Garay, K. M. Nicklaus, G. Wen, J. Cho, A. Cheong, G. P. Reece, Merchant FA, M.K. Markey, “Exploration Of Variables For Use In A Retrieval Method For A Case Based Reasoning System For Predicting Appearance After Breast Reconstruction”, Biomedical Engineering Society (BMES) Annual Meeting (2017).
[055] K. M. Nicklaus, B. Tsang, M.C. Bordes, Merchant FA, S.E. Hanson, G. P. Reece, M. K. Markey, “Preliminary Evaluation of a Microsoft HoloLens Augmented Reality Visualization of Mastectomy Specimens During Breast Reconstruction”, American Medical Informatics Association Annual Symposium (AMIA) (2018).
Invited Presentations
[001] Merchant, FA. 3D image based computational modeling to facilitate shared decision making in breast reconstruction surgery. UT School of Biomedical Informatics, Houston, Texas, November 13, 2019.
[002] Merchant FA. 3D Modeling of Chromosomes Territories in Normal and Aneuploid Nuclei. Imaging-based Single Cell Analytics: Applications for Cancer Cell Biology and Therapeutics, BioScience Research Collaborative, Houston, Texas, February 25-27, 2019.
[003] Merchant FA. Quantitative Imaging in Biology and Medicine. Department of Computer Science, University of Houston, Oct. 29, 2014.
[004] Merchant FA. Research Topics in Bioengineering. Biomedical Engineering Society, University of Houston, April 5, 2012.
[005] Merchant FA. 3D Modeling of the Spatial Nuclear Localization of Diploid and Aneuploid Chromosomes in Human Embryonic Stem Cells. Center of Nuclear Receptors and Cell Signaling, University of Houston, October 14, 2011.
[006] Merchant FA. Optical Imaging in Medicine and Biology, Department of Electrical and Computer Engineering, University of Houston, April 1, 2011.
[007] Merchant FA and Farooqui H. Technology in Telemedicine. The University of Texas Health Science Center at Houston, School of Health Information Sciences, October 2009.
[008] Merchant FA. Imaging Techniques for Molecular Cytogenetics, The Association of Biomolecular Resource Facilities, Creating the Biological Roadmap, March 31 – April 3, 2007, Tampa Florida.
[009] Merchant FA. Automated Detection of Fetal Cells in Maternal Blood. National Institute of Child Health and Development, Sharpening the tools: Workshop on new technologies for detection of fetal cells in maternal blood for early prenatal diagnosis, Bethesda, 2003.
[010] Merchant FA, Diller KR, Aggarwal SJ, and Bovik AC. Analysis of angiogenesis in pancreatic islet grafts using laser scanning confocal microscopy. 6th World Congress for Microcirculation, Munich, Germany, 1996.
[011] Merchant FA, Diller KR, Aggarwal SJ, and Bovik AC. Confocal Microscopy of rat pancreatic islets: Cultured, cryopreserved and transplanted. 7th Annual Meeting of the Society of Low Temperature Biology, Dundee, Scotland, 1996.
List of Grants and Contracts
2023 Principal Investigator (10/15/2023 – 09/31/2024) $47,213
70NANB21H086/EXP2.0-409/UDR0000467
The National Institute for Innovation in Manufacturing Biopharmaceuticals (NIIMBL): NIIMBL eXperience 2024 UH
2023 Co-Principal Investigator (5/15/2023 – 11/15/2024) $40,000
UH GEAR 2023
Bridging the Gap between Image Analysis and Rapid Prototyping with a Pin Matrix Mechanism for Breast Reconstruction Surgical Planning
2022 Co-Principal Investigator (9/1/2022 – 8/31/2025) $590,004
USDA #13424031
Developing Automated Robotic System for Mushroom Harvesting
2022 Principal Investigator (4/1/2022 – 03/31/2024) $399,000
NIH NCI R41 CA272122
3D Image Analysis Software for Breast Reconstruction Surgical Planning, Outcome Assessment & Clinical Consultation
2022 Principal Investigator (5/1/2022 – 8/31/2024) $65,318
Contract from UT Health Science Center at Houston
Quantitative NIRF-LI scanning of lymphatic dysfunction in head and neck cancer patients for early diagnosis of cancer-acquired lymphedema.