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Yousef Al-Kofahi, Ph.D. - Publications

Affiliations: 
2009 Rensselaer Polytechnic Institute, Troy, NY, United States 
Area:
Electronics and Electrical Engineering, Computer Science
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22 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Ghose S, Ju Y, McDonough E, Ho J, Karunamurthy A, Chadwick C, Cho S, Rose R, Corwin A, Surrette C, Martinez J, Williams E, Sood A, Al-Kofahi Y, Falo LD, et al. 3D reconstruction of skin and spatial mapping of immune cell density, vascular distance and effects of sun exposure and aging. Communications Biology. 6: 718. PMID 37468758 DOI: 10.1038/s42003-023-04991-z  0.313
2020 Sood A, Sui Y, McDonough E, SantamarĂ­a-Pang A, Al-Kofahi Y, Pang Z, Jahrling PB, Kuhn JH, Ginty F. Comparison of Multiplexed Immunofluorescence Imaging to Chromogenic Immunohistochemistry of Skin Biomarkers in Response to Monkeypox Virus Infection. Viruses. 12. PMID 32717786 DOI: 10.3390/V12080787  0.44
2019 Berens ME, Sood A, Barnholtz-Sloan JS, Graf JF, Cho S, Kim S, Kiefer J, Byron SA, Halperin RF, Nasser S, Adkins J, Cuyugan L, Devine K, Ostrom Q, Couce M, ... ... Al-Kofahi Y, et al. Multiscale, multimodal analysis of tumor heterogeneity in IDH1 mutant vs wild-type diffuse gliomas. Plos One. 14: e0219724. PMID 31881020 DOI: 10.1371/Journal.Pone.0219724  0.424
2018 Al-Kofahi Y, Zaltsman A, Graves R, Marshall W, Rusu M. A deep learning-based algorithm for 2-D cell segmentation in microscopy images. Bmc Bioinformatics. 19: 365. PMID 30285608 DOI: 10.1186/S12859-018-2375-Z  0.526
2017 Spagnolo DM, Al-Kofahi Y, Zhu P, Lezon TR, Gough A, Stern AM, Lee AV, Ginty F, Sarachan B, Taylor DL, Chennubhotla SC. Platform for Quantitative Evaluation of Spatial Intratumoral Heterogeneity in Multiplexed Fluorescence Images. Cancer Research. 77: e71-e74. PMID 29092944 DOI: 10.1158/0008-5472.Can-17-0676  0.452
2017 McKinley ET, Sui Y, Al-Kofahi Y, Millis BA, Tyska MJ, Roland JT, Santamaria-Pang A, Ohland CL, Jobin C, Franklin JL, Lau KS, Gerdes MJ, Coffey RJ. Optimized multiplex immunofluorescence single-cell analysis reveals tuft cell heterogeneity. Jci Insight. 2. PMID 28570279 DOI: 10.1172/Jci.Insight.93487  0.445
2016 Spagnolo DM, Gyanchandani R, Al-Kofahi Y, Stern AM, Lezon TR, Gough A, Meyer DE, Ginty F, Sarachan B, Fine J, Lee AV, Taylor DL, Chennubhotla SC. Pointwise mutual information quantifies intratumor heterogeneity in tissue sections labeled with multiple fluorescent biomarkers. Journal of Pathology Informatics. 7: 47. PMID 27994939 DOI: 10.4103/2153-3539.194839  0.345
2016 Al-Kofahi Y, Sevinsky C, Santamaria-Pang A, Ginty F, Sood A, Li Q. Multi-channel algorithm for segmentation of tumor blood vessels using multiplexed image data Proceedings - International Symposium On Biomedical Imaging. 2016: 213-216. DOI: 10.1109/ISBI.2016.7493247  0.315
2013 Al-Kofahi Y, Padfield D, Seppo A. An automated algorithm for cell-level FISH dot counting Progress in Biomedical Optics and Imaging - Proceedings of Spie. 8669. DOI: 10.1117/12.2006546  0.701
2012 Seppo A, Al-Kofahi Y, Padfield D, Ha T, Jun N, Kyshtoobayeva A, Kaanumalle L, Corwin A, Henderson D, Kamath V, McCulloch C, Hollman D, Bloom K. Abstract P3-05-06: Automated analysis of Her2 FISH using combined Immunofluorescence and FISH signals Cancer Research. 72. DOI: 10.1158/0008-5472.Sabcs12-P3-05-06  0.704
2012 Ha T, Seppo A, Ginty F, Kenny K, Henderson D, Kyshtoobayeva A, Gerdes M, Larriera A, Liu X, Corwin A, Zingelewicz S, Lazare M, Jun N, Chow C, Al-Kofahi Y, et al. Abstract P3-05-05: HER2 Expression and Gene copy analysis by Immunofluorescence and Fluorescence in situ Hybridization, on a Single formalin-fixed paraffin-embedded tissue section Cancer Research. 72. DOI: 10.1158/0008-5472.Sabcs12-P3-05-05  0.313
2011 Al-Kofahi Y, Lassoued W, Grama K, Nath SK, Zhu J, Oueslati R, Feldman M, Lee WM, Roysam B. Cell-based quantification of molecular biomarkers in histopathology specimens. Histopathology. 59: 40-54. PMID 21771025 DOI: 10.1111/J.1365-2559.2011.03878.X  0.632
2011 Henriksen M, Miller B, Newmark J, Al-Kofahi Y, Holden E. Laser scanning cytometry and its applications: a pioneering technology in the field of quantitative imaging cytometry. Methods in Cell Biology. 102: 161-205. PMID 21704839 DOI: 10.1016/B978-0-12-374912-3.00007-9  0.464
2011 Ajemba P, Al-Kofahi Y, Scott R, Donovan M, Fernandez G. Integrated segmentation of cellular structures Progress in Biomedical Optics and Imaging - Proceedings of Spie. 7962. DOI: 10.1117/12.876722  0.503
2010 Al-Kofahi Y, Lassoued W, Lee W, Roysam B. Improved automatic detection and segmentation of cell nuclei in histopathology images. Ieee Transactions On Bio-Medical Engineering. 57: 841-52. PMID 19884070 DOI: 10.1109/Tbme.2009.2035102  0.647
2010 Narayanaswamy A, Ladi E, Al-Kofahi Y, Chen Y, Carothers C, Robey E, Roysam B. 5-D imaging and parallel automated analysis of cellular events in living immune tissue microenvironments 2010 7th Ieee International Symposium On Biomedical Imaging: From Nano to Macro, Isbi 2010 - Proceedings. 1435-1438. DOI: 10.1109/ISBI.2010.5490269  0.689
2008 Jun SB, Hynd MR, Dowell-Mesfin NM, Al-Kofahi Y, Roysam B, Shain W, Kim SJ. Modulation of cultured neural networks using neurotrophin release from hydrogel-coated microelectrode arrays. Journal of Neural Engineering. 5: 203-13. PMID 18477815 DOI: 10.1088/1741-2560/5/2/011  0.506
2008 Bjornsson CS, Lin G, Al-Kofahi Y, Narayanaswamy A, Smith KL, Shain W, Roysam B. Associative image analysis: a method for automated quantification of 3D multi-parameter images of brain tissue. Journal of Neuroscience Methods. 170: 165-78. PMID 18294697 DOI: 10.1016/J.Jneumeth.2007.12.024  0.72
2008 Al-Kofahi Y, Dowell-Mesfin N, Pace C, Shain W, Turner JN, Roysam B. Improved detection of branching points in algorithms for automated neuron tracing from 3D confocal images. Cytometry. Part a : the Journal of the International Society For Analytical Cytology. 73: 36-43. PMID 18067123 DOI: 10.1002/Cyto.A.20499  0.601
2008 Roysam B, Shain W, Robey E, Chen Y, Narayanaswamy A, Tsai CL, Al-Kofahi Y, Bjornsson C, Ladi E, Herzmark P. The FARSIGHT project: Associative 4D/5D image analysis methods for quantifying complex and dynamic biological microenvironments Microscopy and Microanalysis. 14: 60-61. DOI: 10.1017/S1431927608087059  0.648
2007 Al-Kofahi Y, Lin G, Bjornsson C, Smith K, Shain W, Roysam B. Computer-Aided Classification of Cells in Complex Brain Tissue from 5-Channel 3-D Confocal Datasets Microscopy and Microanalysis. 13. DOI: 10.1017/S1431927607074764  0.487
2006 Bjornsson CS, Oh SJ, Al-Kofahi YA, Lim YJ, Smith KL, Turner JN, De S, Roysam B, Shain W, Kim SJ. Effects of insertion conditions on tissue strain and vascular damage during neuroprosthetic device insertion. Journal of Neural Engineering. 3: 196-207. PMID 16921203 DOI: 10.1088/1741-2560/3/3/002  0.51
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