Publications for Informatics for Integrative Brain Tumor Whole Slide Analysis

2017

Chennubhotla C, Clarke LP, Fedorov A, Foran DJ, Harris G, Helton E, Nordstrom R, Prior F, Rubin D, Saltz JH, Shalley E, Sharma A. An Assessment of Imaging Informatics for Precision Medicine in Cancer. Yearb Med Inform. 2017 Aug;26(1):110-119. doi: 10.15265/IY-2017-041. Epub 2017 Sep 11. PMID: 29063549 https://pdfs.semanticscholar.org/4b89/06ed7e476ac039858041bf813fae1ef61941.pdf

Karagoz, K., Ren, J., Foran, D.J., Gatza, M., Qi, X., Differentiation among prostate cancer patients with Gleason score of 7 using histopathology image and genomic data, SPIE Medical Imaging 2018, M107-24, 1-4 (Accepted)

Ren, J., Sadimin, E., Foran, D.J., Qi, X., Computer aided analysis of prostate histopathology images to support a refined Gleason grading system, SPIE Medical Imaging 2017, MI101, 1-4 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4917302/

Su, H., Shen, Y., Xing, F., Qi, X., Hirshfield, K.M., Yang, L., Foran, D.J., Robust automatic breast cancer staging using a combination of functional genomics and image-omics, Conf Proc. IEEE Eng Med Bio Soc, (EBMC) 2015, 7226-9 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4918467/

2016

Pandya HJ, Park K, Chen W, Goodell LA, Foran DJ, Desai JP. Toward a Portable Cancer Diagnostic Tool Using a Disposable MEMS-Based Biochip. IEEE Trans Biomed Eng. 2016 Jul;63(7):1347-53. doi: 10.1109/TBME.2016.2535364. PubMed PMID: 26930673; PubMed Central PMCID: PMC4917475. http://ieeexplore.ieee.org/document/7420666/?arnumber=7420666&tag=1

Yildirim E, Foran D. Parallel vs. Distributed Data Access for Giga-pixel-resolution Histology Images: Challenges and Opportunities. IEEE J Biomed Health Inform. 2016 Jun 13. [Epub ahead of print] PubMed PMID: 27323383. http://ieeexplore.ieee.org/abstract/document/7490364/

Boregowda RK, Medina DJ, Markert E, Bryan MA, Chen W, Chen S, Rabkin A, Vido MJ, Gunderson SI, Chekmareva M, Foran DJ, Lasfar A, Goydos JS, Cohen-Solal KA. The transcription factor RUNX2 regulates receptor tyrosine kinase expression in melanoma. Oncotarget. 2016 May 17;7(20):29689-707. doi: 10.18632/oncotarget.8822. PubMed PMID: 27102439; PubMed Central PMCID: PMC5045426. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5045426/

2015

Kurc, T., Qi, X., Wang, D., Wang, F., Teodoro, G., Cooper, L., Nalisnik, M., Yang, L., Saltz, J., Foran, D.J., Scalable analysis of big pathology image data cohorts using efficient methods and high-performance computing strategies, BMC Bioinformatics, BMC Bioinformatics201516:399 https://doi.org/10.1186/s12859-015-0831-6 https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-015-0831-6

Ren J, Sadimin ET, Wang D, Epstein JI, Foran DJ, Qi X. Computer aided analysis of prostate histopathology images Gleason grading especially for Gleason score 7. Conf Proc IEEE Eng Med Biol Soc. 2015;2015:3013-6. doi: 10.1109/EMBC.2015.7319026. PubMed PMID: 26736926; PubMed Central PMCID: PMC4917302. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4917302/

Su H, Shen Y, Xing F, Qi X, Hirshfield KM, Yang L, Foran DJ. Robust automatic breast cancer staging using a combination of functional genomics and image-omics. Conf Proc IEEE Eng Med Biol Soc. 2015;2015:7226-9. doi: 10.1109/EMBC.2015.7320059. PubMed PMID: 26737959; PubMed Central PMCID: PMC4918467. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4918467/

Pandya HJ, Park K, Chen W, Chekmareva MA, Foran DJ, Desai JP. Simultaneous MEMS-based electro-mechanical phenotyping of breast cancer. Lab Chip. 2015;15(18):3695-706. doi: 10.1039/c5lc00491h. PubMed PMID: 26224116; PubMed Central PMCID: PMC4550491. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4550491/

2014

Chen W, Brandes Z, Roy R, Chekmareva M, Pandya HJ, Desai JP, Foran DJ. Robot-Guided Atomic Force Microscopy for Mechano-Visual Phenotyping of Cancer Specimens. Microsc Microanal. 2015 Oct;21(5):1224-35. doi: 10.1017/S1431927615015007. PubMed PMID: 26343283; PubMed Central PMCID: PMC4729564.

Yang L, Qi X, Xing F, Kurc T, Saltz J, Foran DJ. Parallel content-based sub-image retrieval using hierarchical searching. Bioinformatics. 2014 Apr 1;30(7):996-1002. doi: 10.1093/bioinformatics/btt623. PubMed PMID: 24215030; PubMed Central PMCID: PMC3967099.

Chen W, Wong C, Vosburgh E, Levine AJ, Foran DJ, Xu EY. High-throughput image analysis of tumor spheroids: a user-friendly software application to measure the size of spheroids automatically and accurately. Journal of visualized experiments : JoVE. 2014(89). Epub 2014/07/22. doi: 10.3791/51639. PubMed PMID: 25046278. http://www.ncbi.nlm.nih.gov/pubmed/25046278

Qi X, Wang D, Rodero I, Diaz-Montes J, Gensure RH, Xing F, et al. Content-based histopathology image retrieval using CometCloud. BMC Bioinformatics. 2014;15(1):287. Epub 2014/08/27. doi: 10.1186/1471-2105-15-287. PubMed PMID: 25155691. http://www.ncbi.nlm.nih.gov/pubmed/25155691

Wang D, Diaz-Granados M, Diaz-Montes J, Rodero I, Yang L, Parashar M, et al. High-throughput automatic Gleason-grading system for prostate histopathology images using CometCloud. The 7th International Workshop on High Performance Computing for Biomedical Image Analysis (HPC-MICCAI); September 14, 2014; Boston, MA2014. p. 21-30.

Boregowda RK, Olabisi OO, Abushahba W, Jeong BS, Haenssen KK, Chen W, et al. RUNX2 is overexpressed in melanoma cells and mediates their migration and invasion. Cancer Lett. 2014;348(1-2):61-70. Epub 2014/03/25. doi: 10.1016/j.canlet.2014.03.011. PubMed PMID: 24657655; PubMed Central PMCID: PMC4041161. http://www.ncbi.nlm.nih.gov/pubmed/24657655

2013

Qi X, Gensure RH, Foran DJ, Yang L, editors. Content-based white blood cell retrieval on bright-field pathology images. SPIE Medical Imaging Symposium 2013: Digital Pathology, February 10, 2013 - February 11, 2013; 2013; Lake Buena Vista, FL, United states: SPIE. http://dx.doi.org/10.1117/12.2006439

Foran DJ, Chen W, Yang L. Automated image interpretation and computer-assisted diagnostics. Stud Health Technol Inform. 2013;185:77-108. Epub 2013/04/02. PubMed PMID: 23542932. http://www.ncbi.nlm.nih.gov/pubmed/23542932

2012

Miletti-González KE, Murphy K, Kumaran MN, Ravindranath AK, Wernyj RP, Kaur S, Miles GD, Lim E, Chan R, Chekmareva M, Heller DS, Foran D, Chen W, Reiss M, Bandera EV, Scotto K, Rodríguez-Rodríguez L. Identification of function for CD44 intracytoplasmic domain (CD44-ICD): modulation of matrix metalloproteinase 9 (MMP-9) transcription via novel promoter response element. J Biol Chem. 2012 Jun 1;287(23):18995-9007. doi: 10.1074/jbc.M111.318774. PubMed PMID: 22433859; PubMed Central PMCID: PMC3365933. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3365933/

Sadimin ET, Foran DJ. Pathology Imaging Informatics for Clinical Practice and Investigative and Translational Research. N Am J Med Sci (Boston). 2012 Apr;5(2):103-109. PubMed PMID: 22855694; PubMed Central PMCID: PMC3407842. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3407842/

Qi X, Xing F, Foran DJ, Yang L. Robust segmentation of overlapping cells in histopathology specimens using parallel seed detection and repulsive level set. IEEE Trans Biomed Eng. 2012 Mar;59(3):754-65. doi: 10.1109/TBME.2011.2179298. PubMed PMID: 22167559; PubMed Central PMCID: PMC3655778. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3655778/

Cukierski WJ, Nandy K, Gudla P, Meaburn KJ, Misteli T, Foran DJ, et al. Ranked retrieval of segmented nuclei for objective assessment of cancer gene repositioning. BMC Bioinformatics. 2012;13:232. Epub 2012/09/14. doi: 10.1186/1471-2105-13-232. PubMed PMID: 22971117; PubMed Central PMCID: PMC3484015. http://www.ncbi.nlm.nih.gov/pubmed/22971117

Gensure RH, Foran DJ, Lee VM, Gendel VM, Jabbour SK, Carpizo DR, et al. Evaluation of hepatic tumor response to yttrium-90 radioembolization therapy using texture signatures generated from contrast-enhanced CT images. Acad Radiol. 2012;19(10):1201-7. Epub 2012/07/31. doi: 10.1016/j.acra.2012.04.015. PubMed PMID: 22841288; PubMed Central PMCID: PMC3438382. http://www.ncbi.nlm.nih.gov/pubmed/22841288

Qi X, Kim H, Xing F, Parashar M, Foran DJ, Yang L. The analysis of image feature robustness using cometcloud. J Pathol Inform. 2012;3:33. Epub 2012/12/19. doi: 10.4103/2153-3539.101782. PubMed PMID: 23248759; PubMed Central PMCID: PMC3519094. http://www.ncbi.nlm.nih.gov/pubmed/23248759

Qi X, Xing F, Foran DJ, Yang L. A fast, automatic segmentation algorithm for locating and delineating touching cell boundaries in imaged histopathology. Methods Inf Med. 2012;51(3):260-7. Epub 2012/04/25. doi: 10.3414/ME11-02-0015. PubMed PMID: 22526139; PubMed Central PMCID: PMC3650677. http://www.ncbi.nlm.nih.gov/pubmed/22526139

Qi X, Xing F, Foran DJ, Yang L. Robust segmentation of overlapping cells in histopathology specimens using parallel seed detection and repulsive level set. IEEE Trans Biomed Eng. 2012;59(3):754-65. Epub 2011/12/15. doi: 10.1109/TBME.2011.2179298. PubMed PMID: 22167559; PubMed Central PMCID: PMC3655778. http://www.ncbi.nlm.nih.gov/pubmed/22167559

Sadimin ET, Foran DJ. Pathology Imaging Informatics for Clinical Practice and Investigative and Translational Research. North American journal of medicine & science. 2012;5(2):103-9. Epub 2012/08/03. PubMed PMID: 22855694; PubMed Central PMCID: PMC3407842. http://www.ncbi.nlm.nih.gov/pubmed/22855694

Xing F, Liu B, Qi X, Foran DJ, Yang L, editors. Digital tissue microarray classification using sparse reconstruction. Medical Imaging 2012: Image Processing, February 6, 2012 - February 9, 2012; 2012; San Diego, CA, United states: SPIE. http://dx.doi.org/10.1117/12.911900

2011

Foran DJ, Yang L, Chen W, Hu J, Goodell LA, Reiss M, Wang F, Kurc T, Pan T, Sharma A, Saltz JH. ImageMiner: a software system for comparative analysis of tissue microarrays using content-based image retrieval, high-performance computing, and grid technology. J Am Med Inform Assoc. 2011 Jul-Aug;18(4):403-15. doi: 10.1136/amiajnl-2011-000170. PubMed PMID: 21606133; PubMed Central PMCID: PMC3128405. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3128405/

Foran DJ, Chen W, Yang L. Automated image interpretation computer-assisted diagnostics. Anal Cell Pathol (Amst). 2011;34(6):279-300. Epub 2011/11/16. doi: 10.3233/ACP-2011-0046. PubMed PMID: 22082571; PubMed Central PMCID: PMC3685404. http://www.ncbi.nlm.nih.gov/pubmed/22082571

Foran DJ, Yang L, Chen WJ, Hu J, Goodell LA, Reiss M, et al. ImageMiner: a software system for comparative analysis of tissue microarrays using content-based image retrieval, high-performance computing, and grid technology. Journal of the American Medical Informatics Association. 2011;18(4):403-15. doi: DOI 10.1136/amiajnl-2011-000170. PubMed PMID: ISI:000292061700011. http://gemini.cinj.rutgers.edu/%3CGo%20to%20ISI%3E%3A//000292061700011

Qi X, Xing F, Foran DJ, Yang L, editors. Comparative performance analysis of stained histopathology specimens using RGB and multispectral imaging. Medical Imaging 2011: Computer-Aided Diagnosis, February 15, 2011 - February 17, 2011; 2011; Lake Buena Vista, FL, United states: SPIE. http://dx.doi.org/10.1117/12.878325

Sadimin E, Chen W, Osband A, Reitsma W, Laskow D, Joseph J, et al. Telemicroscopy for the Evaluation of Donor Kidney Biopsies. United States and Canadian Academy of Pathology Annual Meeting: Modern Pathology; 2011. p. 350A.

Wang F, Kong J, Cooper L, Pan T, Kurc T, Chen W, et al. A data model and database for high-resolution pathology analytical image informatics. J Pathol Inform. 2011;2:32. Epub 2011/08/17. doi: 10.4103/2153-3539.83192. PubMed PMID: 21845230; PubMed Central PMCID: PMC3153692. http://www.ncbi.nlm.nih.gov/pubmed/21845230

Cohen-Solal K, Merrigan K, Chan J, Goydos J, Chen W, Foran D, et al. Constitutive Smad linker phosphorylation in melanoma: A mechanism of resistance to Transforming Growth Factor-β-mediated growth inhibition. Pigment Cell Melanoma Res. 2011 Jun; 24(3): 512–524. Published online 2011 Apr 28. doi: 10.1111/j.1755-148X.2011.00858.x PMCID: PMC3108265 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3108265/

Yang L, Kim H, Parashar M, Foran DJ. High Throughput Landmark Based Image Registration Using Cloud Computing. Workshop on High Performance and Distributed Computing for Medical Imaging. Proceedings of the 14th International Conference on Medical Image Computing for Image-Assisted Clinical Intervention and Decision-Making. Toronto, Canada, 2011.

2010

Qi X, Xing F, Foran DJ, Yang L, editors. GPU Enabled Parallel Touching Cell Segmentation Using Mean Shift Based Seed Detection and Repulsive Level Set. High Performance Computing (HP) workshop associated with Proc International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI); 2010.

Roy R, Chen W, Goodell LA, Hu J, Foran DJ, Desai JP, editors. Microarray-facilitated mechanical characterization of breast tissue pathology samples using contact-mode Atomic Force Microscopy (AFM). Biomedical Robotics and Biomechatronics (BioRob), 2010 3rd IEEE RAS and EMBS International Conference on; 2010: IEEE.

Cukierski WJ, Foran DJ. Metamerism in Multispectral Imaging of Histopathology Specimens. Proc IEEE Int Symp Biomed Imaging. 2010;2010:145-8. Epub 2010/12/15. doi: 10.1109/ISBI.2010.5490392. PubMed PMID: 21151845; PubMed Central PMCID: PMC2998912. http://www.ncbi.nlm.nih.gov/pubmed/21151845

Goodell L, Chen W, Javidian P, Chekmareva M, Hu J, Foran DJ. Use of Computer Assisted Analysis to Facilitate Tissue Microarray Interpretation. United States and Canadian Academy of Pathology 2010 Annual Meeting; March 20-26, 2010; Washington, D.C.2010.

Liu B, Yang L, Kulikowski C, Zhou J, Gong L, Foran DJ, et al. An Adaptive Tracking Algorithm of Lung Tumors in Fluoroscopy Using Online Learned Collaborative Trackers. Proc IEEE Int Symp Biomed Imaging. 2010;2010:209-12. Epub 2010/07/14. doi: 10.1109/ISBI.2010.5490376. PubMed PMID: 20622932; PubMed Central PMCID: PMC2900817. http://www.ncbi.nlm.nih.gov/pubmed/20622932

Liu B, Yang L, Kulikowski C, Zhou J, Gong L, Foran DJ, et al., editors. An adaptive tracking algorithm of lung tumors in fluoroscopy using online learned collaborative trackers. 7th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2010, April 14, 2010 - April 17, 2010; 2010; Rotterdam, Netherlands: IEEE Computer Society. http://dx.doi.org/10.1109/ISBI.2010.5490376

Qi X, Cukierski W, Foran DJ, editors. A comparative performance study characterizing breast tissue microarrays using standard RGB and multispectral imaging. Multimodal Biomedical Imaging V, January 23, 2010 - January 25, 2010; 2010; San Francisco, CA, United states: SPIE. http://dx.doi.org/10.1117/12.842067

Widener P, Chen W, Wang F, Yang L, Hu J, Chu V, Saltz JH, Foran DJ, Kurc T. Grid-Enabled, High-performance Microscopy Image Analysis. The 2nd International Workshop on High-Performance Medical Image Computing for Image-Assisted Clinical Intervention and Decision-Making. Bejing, China. Invited Paper. Pages 70-79, 2010. http://pleiad.rwjms.rutgers.edu/CBII/pdfs/hpc-miccai2010-djf.pdf

2009

Chen W, Chu V, Hu J, Yang L, Wang F, Kurc T, et al. ImageMiner: a medical image analysis and image management UML data model. APIII: Advancing Practice, Instruction & Innovation Through Informatics; September; Pittsburgh, PA2009.

Cukierski WJ, Qi X, Foran DJ. Moving Beyond Color: The Case for Multispectral Imaging in Brightfield Pathology. Proc IEEE Int Symp Biomed Imaging. 2009;5193251:1111-4. Epub 2009/12/10. doi: 10.1109/ISBI.2009.5193251. PubMed PMID: 19997528; PubMed Central PMCID: PMC2789468. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Foran DJ, Yang L, Tuzel O, Chen W, Hu J, Kurc TM, et al. A caGRID-ENABLED, LEARNING BASED IMAGE SEGMENTATION METHOD FOR HISTOPATHOLOGY SPECIMENS. Proc IEEE Int Symp Biomed Imaging. 2009;6:1306-9. Epub 2009/11/26. doi: 10.1109/ISBI.2009.5193304. PubMed PMID: 19936299; PubMed Central PMCID: PMC2779045. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Kim H, Parashar M, Foran DJ, Yang L. Investigating the Use of Cloudbursts for High-Throughput Medical Image Registration. Proceedings of the IEEE/ACM International Conference on Grid Computing IEEE/ACM International Conference on Grid Computing. 2009;2009:34-41. Epub 2010/07/20. doi: 10.1109/GRID.2009.5353065. PubMed PMID: 20640235; PubMed Central PMCID: PMC2904524. http://www.ncbi.nlm.nih.gov/pubmed/20640235

Lin Y, Wenjin C, Meer P, Salaru G, Goodell LA, Berstis V, et al. Virtual microscopy and grid-enabled decision support for large-scale analysis of imaged pathology specimens. Ieee Transactions on Information Technology in Biomedicine. 2009;13(4):636-44. doi: 10.1109/titb.2009.2020159. http://dx.doi.org/10.1109/TITB.2009.2020159

Niculescu G, Nosher JL, Schneider MD, Foran DJ. A deformable model for tracking tumors across consecutive imaging studies. Int J Comput Assist Radiol Surg. 2009;4(4):337-47. Epub 2009/09/24. doi: 10.1007/s11548-009-0298-x. PubMed PMID: 19774096; PubMed Central PMCID: PMC2747734. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Yang L, Gong L, Zhang H, Nosher JL, Foran DJ. A multicore based parallel image registration method. Conf Proc IEEE Eng Med Biol Soc. 2009;2009:98-101. Epub 2009/12/08. doi: 10.1109/IEMBS.2009.5334782. PubMed PMID: 19964921; PubMed Central PMCID: PMC3360576. http://www.ncbi.nlm.nih.gov/pubmed/19964921

Yang L, Gong L, Zhang H, Nosher JL, Foran DJ. A Parallel Point Matching Algorithm for Landmark Based Image Registration Using Multicore Platform. EURO-PAR ' : International EURO-PAR Conference : proceedings International EURO-PAR Conference. 2009;5704. Epub 2009/12/01. doi: 10.1007/978-3-642-03869-3_86. PubMed PMID: 24308014; PubMed Central PMCID: PMC3845531. http://www.ncbi.nlm.nih.gov/pubmed/24308014

Yang L, Tuzel O, Chen W, Meer P, Salaru G, Goodell LA, et al. PathMiner: a Web-based tool for computer-assisted diagnostics in pathology. IEEE Trans Inf Technol Biomed. 2009;13(3):291-9. Epub 2009/01/28. doi: 10.1109/TITB.2008.2008801. PubMed PMID: 19171530; PubMed Central PMCID: PMC3683402. http://www.ncbi.nlm.nih.gov/pubmed/19171530

Zhang H, Yang L, Foran DJ, Nosher JL, Yim PJ. 3d Segmentation of the Liver Using Free-Form Deformation Based on Boosting and Deformation Gradients. Proc IEEE Int Symp Biomed Imaging. 2009;5193092:494-7. Epub 2009/12/10. doi: 10.1109/ISBI.2009.5193092. PubMed PMID: 19997530; PubMed Central PMCID: PMC2789470. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Kim H, Parashar M, Foran DJ, Yang L, editors. Investigating the use of autonomic cloudbursts for high-throughput medical image registration. Grid Computing, 2009 10th IEEE/ACM International Conference on; 2009: IEEE. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2904524/

Yang L, Gong L, Zhang H, Nosher JL and Foran DJ. Landmark-Based Co-Registration of Consecutive Imaging Studies using High Performance Parallel Computing. European Conference on Parallel Computing. Vol. 1: 936–947, 2009.

2008

Cukierski WJ, Foran DJ, editors. Using betweenness centrality to identify manifold shortcuts. IEEE International Conference on Data Mining Workshops, ICDM Workshops 2008, December 15, 2008 - December 19, 2008; 2008; Pisa, Italy: Inst. of Elec. and Elec. Eng. Computer Society. http://dx.doi.org/10.1109/ICDMW.2008.39

DiPaola RS, Dvorzhinski D, Thalasila A, Garikapaty V, Doram D, May M, et al. Therapeutic starvation and autophagy in prostate cancer: a new paradigm for targeting metabolism in cancer therapy. Prostate. 2008;68(16):1743-52. Epub 2008/09/04. doi: 10.1002/pros.20837. PubMed PMID: 18767033. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Hall BH, Ianosi-Irimie M, Javidian P, Chen W, Ganesan S, Foran DJ. Computer-assisted assessment of the human epidermal growth factor receptor 2 immunohistochemical assay in imaged histologic sections using a membrane isolation algorithm and quantitative analysis of positive controls. BMC Med Imaging. 2008;8:11. Epub 2008/06/07. doi: 10.1186/1471-2342-8-11. PubMed PMID: 18534031; PubMed Central PMCID: PMC2447833. http://www.ncbi.nlm.nih.gov/pubmed/18534031

Yang L, Georgescu B, Zheng Y, Foran DJ, Comaniciu D. A Fast and Accurate Tracking Algorithm of Left Ventricles in 3d Echocardiography. Proc IEEE Int Symp Biomed Imaging. 2008;5:221-4. Epub 2008/05/14. doi: 10.1109/ISBI.2008.4540972. PubMed PMID: 19936301; PubMed Central PMCID: PMC2779051. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Yang L, Tuzel O, Meer P, Foran DJ. Automatic image analysis of histopathology specimens using concave vertex graph. Med Image Comput Comput Assist Interv. 2008;11(Pt 1):833-41. Epub 2008/11/05. PubMed PMID: 18979823; PubMed Central PMCID: PMC3683135. http://www.ncbi.nlm.nih.gov/pubmed/18979823

2007

Yang L, Meer P, Foran DJ. Multiple Class Segmentation Using A Unified Framework over Mean-Shift Patches. Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit. 2007 Jul 16;2007(4270254):1-8. PubMed PMID: 19295664; PubMed Central PMCID: PMC2654774. http://ieeexplore.ieee.org/document/4270254/?arnumber=4270254

Chen W, Foran DJ. A Computer-Assisted Microscopy System for Automated Image Analysis of Pathology Specimens and Tissue Microarrays. In: Einstein) EH-SWaAJ, editor. Image Analysis in Medical Microscopy and Pathology. New York, NY: Research Signpost; 2007. http://www.ressign.com/UserBookDetail.aspx?bkid=535&catid=150#

Hall B, Chen W, Reiss M, Foran DJ. A clinically motivated 2-fold framework for quantifying and classifying immunohistochemically stained specimens. Med Image Comput Comput Assist Interv. 2007;10(Pt 2):287-94. Epub 2007/11/30. PubMed PMID: 18044580. http://www.ncbi.nlm.nih.gov/pubmed/18044580

Niculescu G, Foran DJ, Nosher J. Non-rigid registration of the liver in consecutive CT studies for assessment of tumor response to radiofrequency ablation. Conf Proc IEEE Eng Med Biol Soc. 2007;2007:856-9. Epub 2007/11/16. doi: 10.1109/IEMBS.2007.4352425. PubMed PMID: 18002091. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Tuzel O, Yang L, Meer P, Foran DJ. Classification of hematologic malignancies using texton signatures. Pattern Anal Appl. 2007;10(4):277-90. Epub 2007/10/01. doi: 10.1007/s10044-007-0066-x. PubMed PMID: 19890460; PubMed Central PMCID: PMC2772183. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Yang L, Chen W, Meer P, Salaru G, Feldman MD, Foran DJ. High throughput analysis of breast cancer specimens on the grid. Med Image Comput Comput Assist Interv. 2007;10(Pt 1):617-25. Epub 2007/12/07. PubMed PMID: 18051110; PubMed Central PMCID: PMC3366434. http://www.ncbi.nlm.nih.gov/pubmed/18051110

Yang L, Meer P, Foran DJ. Multiple Class Segmentation Using A Unified Framework over Mean-Shift Patches. Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit. 2007;2007(4270254):1-8. Epub 2007/07/16. doi: 10.1109/CVPR.2007.383229. PubMed PMID: 19295664; PubMed Central PMCID: PMC2654774. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Yang L, Chen W, Meer P, Salaru G, Feldman MD, Foran DJ. High throughput analysis of breast cancer specimens on the grid. Med Image Comput Comput Assist Interv. 2007;10(Pt 1):617-25. PubMed PMID: 18051110; PubMed Central PMCID: PMC3366434. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3366434/

2006

Chen W, Foran DJ. Advances in cancer tissue microarray technology: Towards improved understanding and diagnostics. Anal Chim Acta. 2006;564(1):74-81. Epub 2007/08/29. doi: S0003-2670(05)01978-1 [pii] 10.1016/j.aca.2005.11.083. PubMed PMID: 17723364; PubMed Central PMCID: PMC2583100. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Chen W, Schmidt C, Parashar M, Reiss M, Foran DJ. Decentralized data sharing of tissue microarrays for investigative research in oncology. Cancer Inform. 2006;2:373-88. Epub 2007/06/06. PubMed PMID: 19081778; PubMed Central PMCID: PMC2600512. http://www.ncbi.nlm.nih.gov/pubmed/19081778

Yang L, Foran DJ. A Variational Framework for Partially Occluded Image Segmentation Using Coarse to Fine Shape Alignment and Semi-Parametric Density Approximation. Proc Int Conf Image Proc. 2006;1(4378885):137-40. Epub 2006/01/01. doi: 10.1109/ICIP.2007.4378885. PubMed PMID: 19305512; PubMed Central PMCID: PMC2657958. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2657958/

2005

Yang L, Meer P, Foran DJ. Unsupervised segmentation based on robust estimation and color active contour models. IEEE Transactions on Information Technology in Biomedicine. 2005 Sep;9(3):475-86. http://ieeexplore.ieee.org/document/1504818/?arnumber=1504818

Chen W, Meer P, Georgescu B, He W, Goodell LA, Foran DJ. Image mining for investigative pathology using optimized feature extraction and data fusion. Comput Methods Programs Biomed. 2005;79(1):59-72. Epub 2005/05/24. doi: S0169-2607(05)00080-5 [pii] 10.1016/j.cmpb.2005.03.006. PubMed PMID: 15908036. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

Yang L, Meer P, Foran DJ. Unsupervised segmentation based on robust estimation and color active contour models. IEEE Trans Inf Technol Biomed. 2005;9(3):475-86. Epub 2005/09/20. PubMed PMID: 16167702. http://www.ncbi.nlm.nih.gov/pubmed/16167702

2004

Chen W, Reiss M, Foran DJ. A prototype for unsupervised analysis of tissue microarrays for cancer research and diagnostics. IEEE Trans Inf Technol Biomed. 2004;8(2):89-96. Epub 2004/06/26. PubMed PMID: 15217253. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

2003

Lin W, Wilder J, Grossman S, Foran DJ. A network-reactive model for distributed telemicroscopy. J Telemed Telecare. 2003;9(2):78-83. Epub 2003/04/18. doi: 10.1258/135763303321327920. PubMed PMID: 12699576. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...

2002

Chen W, Foran DJ, Reiss M. Unsupervised imaging, registration and archiving of tissue microarrays. Proc AMIA Symp. 2002:136-9. Epub 2002/12/05. doi: D020002272 [pii]. PubMed PMID: 12463802; PubMed Central PMCID: PMC2244557. http://www.ncbi.nlm.nih.gov/pubmed/12463802